-- dump date 20140620_034510 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1105099000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 1105099000002 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 1105099000003 catalytic residues [active] 1105099000004 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1105099000005 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1105099000006 Walker A/P-loop; other site 1105099000007 ATP binding site [chemical binding]; other site 1105099000008 Q-loop/lid; other site 1105099000009 ABC transporter signature motif; other site 1105099000010 Walker B; other site 1105099000011 D-loop; other site 1105099000012 H-loop/switch region; other site 1105099000013 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1105099000014 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1105099000015 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 1105099000016 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 1105099000017 FAD binding pocket [chemical binding]; other site 1105099000018 FAD binding motif [chemical binding]; other site 1105099000019 phosphate binding motif [ion binding]; other site 1105099000020 beta-alpha-beta structure motif; other site 1105099000021 NAD binding pocket [chemical binding]; other site 1105099000022 Iron coordination center [ion binding]; other site 1105099000023 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1105099000024 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 1105099000025 active site 1105099000026 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 1105099000027 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 1105099000028 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1105099000029 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 1105099000030 trimer interface [polypeptide binding]; other site 1105099000031 active site 1105099000032 UDP-GlcNAc binding site [chemical binding]; other site 1105099000033 lipid binding site [chemical binding]; lipid-binding site 1105099000034 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1105099000035 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 1105099000036 FMN binding site [chemical binding]; other site 1105099000037 active site 1105099000038 catalytic residues [active] 1105099000039 substrate binding site [chemical binding]; other site 1105099000040 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105099000041 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 1105099000042 NodB motif; other site 1105099000043 putative active site [active] 1105099000044 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1105099000045 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1105099000046 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 1105099000047 putative ligand binding site [chemical binding]; other site 1105099000048 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1105099000049 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1105099000050 active site 1105099000051 NTP binding site [chemical binding]; other site 1105099000052 metal binding triad [ion binding]; metal-binding site 1105099000053 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1105099000054 potential frameshift: common BLAST hit: gi|67458414|ref|YP_246038.1| cell surface antigen Sca1 1105099000055 potential frameshift: common BLAST hit: gi|157964084|ref|YP_001498908.1| cell surface antigen Sca1 1105099000056 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105099000057 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 1105099000058 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 1105099000059 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105099000060 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1105099000061 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1105099000062 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 1105099000063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1105099000064 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1105099000065 Thioredoxin; Region: Thioredoxin_4; pfam13462 1105099000066 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1105099000067 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105099000068 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 1105099000069 S-adenosylmethionine binding site [chemical binding]; other site 1105099000070 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105099000071 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1105099000072 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1105099000073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099000074 Walker A/P-loop; other site 1105099000075 ATP binding site [chemical binding]; other site 1105099000076 Q-loop/lid; other site 1105099000077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099000078 ABC transporter signature motif; other site 1105099000079 Walker B; other site 1105099000080 D-loop; other site 1105099000081 H-loop/switch region; other site 1105099000082 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105099000083 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 1105099000084 Cu(I) binding site [ion binding]; other site 1105099000085 Putative transcriptional regulator [Transcription]; Region: COG1678 1105099000086 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1105099000087 Colicin V production protein; Region: Colicin_V; pfam02674 1105099000088 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 1105099000089 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 1105099000090 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1105099000091 NAD(P) binding site [chemical binding]; other site 1105099000092 homotetramer interface [polypeptide binding]; other site 1105099000093 homodimer interface [polypeptide binding]; other site 1105099000094 active site 1105099000095 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1105099000096 Clp amino terminal domain; Region: Clp_N; pfam02861 1105099000097 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 1105099000098 Walker A motif; other site 1105099000099 ATP binding site [chemical binding]; other site 1105099000100 Walker B motif; other site 1105099000101 arginine finger; other site 1105099000102 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 1105099000103 Walker A motif; other site 1105099000104 ATP binding site [chemical binding]; other site 1105099000105 Walker B motif; other site 1105099000106 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1105099000107 UGMP family protein; Validated; Region: PRK09604 1105099000108 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1105099000109 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105099000110 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 1105099000111 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1105099000112 Di-iron ligands [ion binding]; other site 1105099000113 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 1105099000114 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1105099000115 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1105099000116 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1105099000117 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1105099000118 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1105099000119 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1105099000120 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 1105099000121 Ligand Binding Site [chemical binding]; other site 1105099000122 FtsH Extracellular; Region: FtsH_ext; pfam06480 1105099000123 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1105099000124 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 1105099000125 Walker A motif; other site 1105099000126 ATP binding site [chemical binding]; other site 1105099000127 Walker B motif; other site 1105099000128 arginine finger; other site 1105099000129 Peptidase family M41; Region: Peptidase_M41; pfam01434 1105099000130 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1105099000131 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1105099000132 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1105099000133 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1105099000134 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1105099000135 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1105099000136 membrane protein insertase; Provisional; Region: PRK01318 1105099000137 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1105099000138 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1105099000139 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105099000140 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1105099000141 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 1105099000142 putative substrate translocation pore; other site 1105099000143 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 1105099000144 active site 1105099000145 multimer interface [polypeptide binding]; other site 1105099000146 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1105099000147 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1105099000148 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1105099000149 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1105099000150 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 1105099000151 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1105099000152 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 1105099000153 P loop; other site 1105099000154 Nucleotide binding site [chemical binding]; other site 1105099000155 DTAP/Switch II; other site 1105099000156 Switch I; other site 1105099000157 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 1105099000158 Magnesium ion binding site [ion binding]; other site 1105099000159 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1105099000160 ParB-like nuclease domain; Region: ParBc; pfam02195 1105099000161 KorB domain; Region: KorB; pfam08535 1105099000162 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1105099000163 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105099000164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099000165 Walker A/P-loop; other site 1105099000166 ATP binding site [chemical binding]; other site 1105099000167 Q-loop/lid; other site 1105099000168 ABC transporter signature motif; other site 1105099000169 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105099000170 ABC transporter; Region: ABC_tran_2; pfam12848 1105099000171 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105099000172 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 1105099000173 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 1105099000174 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1105099000175 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1105099000176 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1105099000177 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1105099000178 Zn2+ binding site [ion binding]; other site 1105099000179 Mg2+ binding site [ion binding]; other site 1105099000180 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1105099000181 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1105099000182 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1105099000183 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1105099000184 active site 1105099000185 HIGH motif; other site 1105099000186 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105099000187 KMSK motif region; other site 1105099000188 tRNA binding surface [nucleotide binding]; other site 1105099000189 DALR anticodon binding domain; Region: DALR_1; smart00836 1105099000190 anticodon binding site; other site 1105099000191 Sporulation related domain; Region: SPOR; pfam05036 1105099000192 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 1105099000193 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 1105099000194 CAP-like domain; other site 1105099000195 active site 1105099000196 primary dimer interface [polypeptide binding]; other site 1105099000197 Gram-negative porin; Region: Porin_4; pfam13609 1105099000198 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105099000199 trimer interface [polypeptide binding]; other site 1105099000200 active site 1105099000201 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 1105099000202 SecA binding site; other site 1105099000203 Preprotein binding site; other site 1105099000204 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105099000205 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 1105099000206 active site 1105099000207 phosphorylation site [posttranslational modification] 1105099000208 intermolecular recognition site; other site 1105099000209 dimerization interface [polypeptide binding]; other site 1105099000210 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 1105099000211 DNA binding site [nucleotide binding] 1105099000212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1105099000213 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1105099000214 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1105099000215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1105099000216 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1105099000217 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1105099000218 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1105099000219 EamA-like transporter family; Region: EamA; pfam00892 1105099000220 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1105099000221 EamA-like transporter family; Region: EamA; pfam00892 1105099000222 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 1105099000223 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105099000224 putative substrate translocation pore; other site 1105099000225 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1105099000226 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1105099000227 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105099000228 active site 1105099000229 HIGH motif; other site 1105099000230 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105099000231 KMSKS motif; other site 1105099000232 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105099000233 tRNA binding surface [nucleotide binding]; other site 1105099000234 anticodon binding site; other site 1105099000235 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 1105099000236 rRNA interaction site [nucleotide binding]; other site 1105099000237 S8 interaction site; other site 1105099000238 putative laminin-1 binding site; other site 1105099000239 elongation factor Ts; Provisional; Region: tsf; PRK09377 1105099000240 UBA/TS-N domain; Region: UBA; pfam00627 1105099000241 Elongation factor TS; Region: EF_TS; pfam00889 1105099000242 Elongation factor TS; Region: EF_TS; pfam00889 1105099000243 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1105099000244 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1105099000245 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1105099000246 putative acyl-acceptor binding pocket; other site 1105099000247 aspartate aminotransferase; Provisional; Region: PRK05764 1105099000248 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 1105099000249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105099000250 homodimer interface [polypeptide binding]; other site 1105099000251 catalytic residue [active] 1105099000252 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1105099000253 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1105099000254 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1105099000255 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1105099000256 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1105099000257 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1105099000258 active site 1105099000259 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1105099000260 dimer interface [polypeptide binding]; other site 1105099000261 substrate binding site [chemical binding]; other site 1105099000262 catalytic residues [active] 1105099000263 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1105099000264 Permease; Region: Permease; pfam02405 1105099000265 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1105099000266 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099000267 Walker A/P-loop; other site 1105099000268 ATP binding site [chemical binding]; other site 1105099000269 Q-loop/lid; other site 1105099000270 ABC transporter signature motif; other site 1105099000271 Walker B; other site 1105099000272 D-loop; other site 1105099000273 H-loop/switch region; other site 1105099000274 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 1105099000275 50S ribosomal protein L31; Provisional; Region: PRK01397 1105099000276 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1105099000277 G1 box; other site 1105099000278 GTP/Mg2+ binding site [chemical binding]; other site 1105099000279 Switch I region; other site 1105099000280 G2 box; other site 1105099000281 G3 box; other site 1105099000282 Switch II region; other site 1105099000283 G4 box; other site 1105099000284 G5 box; other site 1105099000285 type IV secretion system protein VirB3; Provisional; Region: PRK13899 1105099000286 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 1105099000287 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 1105099000288 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105099000289 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099000290 Walker A/P-loop; other site 1105099000291 ATP binding site [chemical binding]; other site 1105099000292 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105099000293 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105099000294 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105099000295 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105099000296 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105099000297 phosphate acetyltransferase; Provisional; Region: PRK11890 1105099000298 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1105099000299 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1105099000300 propionate/acetate kinase; Provisional; Region: PRK12379 1105099000301 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 1105099000302 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1105099000303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 1105099000304 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1105099000305 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1105099000306 Protein export membrane protein; Region: SecD_SecF; pfam02355 1105099000307 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1105099000308 SLBB domain; Region: SLBB; pfam10531 1105099000309 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1105099000310 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1105099000311 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 1105099000312 Catalytic site [active] 1105099000313 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 1105099000314 ribonuclease III; Reviewed; Region: rnc; PRK00102 1105099000315 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 1105099000316 dimerization interface [polypeptide binding]; other site 1105099000317 active site 1105099000318 metal binding site [ion binding]; metal-binding site 1105099000319 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 1105099000320 dsRNA binding site [nucleotide binding]; other site 1105099000321 GTPase [General function prediction only]; Region: Era; COG1159 1105099000322 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1105099000323 G1 box; other site 1105099000324 GTP/Mg2+ binding site [chemical binding]; other site 1105099000325 Switch I region; other site 1105099000326 G2 box; other site 1105099000327 Switch II region; other site 1105099000328 G3 box; other site 1105099000329 G4 box; other site 1105099000330 G5 box; other site 1105099000331 KH domain; Region: KH_2; pfam07650 1105099000332 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 1105099000333 active site 1105099000334 putative DNA-binding cleft [nucleotide binding]; other site 1105099000335 dimer interface [polypeptide binding]; other site 1105099000336 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1105099000337 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1105099000338 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1105099000339 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 1105099000340 Walker A motif; other site 1105099000341 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 1105099000342 HflK protein; Region: hflK; TIGR01933 1105099000343 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105099000344 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 1105099000345 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1105099000346 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105099000347 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 1105099000348 protein binding site [polypeptide binding]; other site 1105099000349 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 1105099000350 protein binding site [polypeptide binding]; other site 1105099000351 hypothetical protein; Validated; Region: PRK01415 1105099000352 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1105099000353 active site residue [active] 1105099000354 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 1105099000355 Iron-sulfur protein interface; other site 1105099000356 proximal quinone binding site [chemical binding]; other site 1105099000357 SdhD (CybS) interface [polypeptide binding]; other site 1105099000358 proximal heme binding site [chemical binding]; other site 1105099000359 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 1105099000360 putative SdhC subunit interface [polypeptide binding]; other site 1105099000361 putative proximal heme binding site [chemical binding]; other site 1105099000362 putative Iron-sulfur protein interface [polypeptide binding]; other site 1105099000363 putative proximal quinone binding site; other site 1105099000364 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1105099000365 L-aspartate oxidase; Provisional; Region: PRK06175 1105099000366 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1105099000367 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1105099000368 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 1105099000369 dimer interface [polypeptide binding]; other site 1105099000370 conserved gate region; other site 1105099000371 putative PBP binding loops; other site 1105099000372 ABC-ATPase subunit interface; other site 1105099000373 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 1105099000374 S17 interaction site [polypeptide binding]; other site 1105099000375 S8 interaction site; other site 1105099000376 16S rRNA interaction site [nucleotide binding]; other site 1105099000377 streptomycin interaction site [chemical binding]; other site 1105099000378 23S rRNA interaction site [nucleotide binding]; other site 1105099000379 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1105099000380 30S ribosomal protein S7; Validated; Region: PRK05302 1105099000381 elongation factor G; Reviewed; Region: PRK00007 1105099000382 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1105099000383 G1 box; other site 1105099000384 putative GEF interaction site [polypeptide binding]; other site 1105099000385 GTP/Mg2+ binding site [chemical binding]; other site 1105099000386 Switch I region; other site 1105099000387 G2 box; other site 1105099000388 G3 box; other site 1105099000389 Switch II region; other site 1105099000390 G4 box; other site 1105099000391 G5 box; other site 1105099000392 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 1105099000393 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 1105099000394 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 1105099000395 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1105099000396 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1105099000397 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1105099000398 putative homodimer interface [polypeptide binding]; other site 1105099000399 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1105099000400 heterodimer interface [polypeptide binding]; other site 1105099000401 homodimer interface [polypeptide binding]; other site 1105099000402 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1105099000403 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 1105099000404 23S rRNA interface [nucleotide binding]; other site 1105099000405 putative thiostrepton binding site; other site 1105099000406 L7/L12 interface [polypeptide binding]; other site 1105099000407 L25 interface [polypeptide binding]; other site 1105099000408 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 1105099000409 mRNA/rRNA interface [nucleotide binding]; other site 1105099000410 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 1105099000411 23S rRNA interface [nucleotide binding]; other site 1105099000412 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1105099000413 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 1105099000414 core dimer interface [polypeptide binding]; other site 1105099000415 peripheral dimer interface [polypeptide binding]; other site 1105099000416 L10 interface [polypeptide binding]; other site 1105099000417 L11 interface [polypeptide binding]; other site 1105099000418 putative EF-Tu interaction site [polypeptide binding]; other site 1105099000419 putative EF-G interaction site [polypeptide binding]; other site 1105099000420 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1105099000421 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 1105099000422 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1105099000423 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 1105099000424 RPB11 interaction site [polypeptide binding]; other site 1105099000425 RPB12 interaction site [polypeptide binding]; other site 1105099000426 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 1105099000427 RPB3 interaction site [polypeptide binding]; other site 1105099000428 RPB1 interaction site [polypeptide binding]; other site 1105099000429 RPB11 interaction site [polypeptide binding]; other site 1105099000430 RPB10 interaction site [polypeptide binding]; other site 1105099000431 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1105099000432 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1105099000433 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1105099000434 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1105099000435 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1105099000436 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1105099000437 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1105099000438 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 1105099000439 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1105099000440 DNA binding site [nucleotide binding] 1105099000441 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1105099000442 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1105099000443 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 1105099000444 interface (dimer of trimers) [polypeptide binding]; other site 1105099000445 Substrate-binding/catalytic site; other site 1105099000446 Zn-binding sites [ion binding]; other site 1105099000447 ATPase MipZ; Region: MipZ; pfam09140 1105099000448 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 1105099000449 P-loop; other site 1105099000450 Magnesium ion binding site [ion binding]; other site 1105099000451 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1105099000452 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 1105099000453 dimer interface [polypeptide binding]; other site 1105099000454 anticodon binding site; other site 1105099000455 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 1105099000456 homodimer interface [polypeptide binding]; other site 1105099000457 motif 1; other site 1105099000458 active site 1105099000459 motif 2; other site 1105099000460 GAD domain; Region: GAD; pfam02938 1105099000461 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 1105099000462 active site 1105099000463 motif 3; other site 1105099000464 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1105099000465 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1105099000466 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1105099000467 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1105099000468 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1105099000469 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1105099000470 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1105099000471 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 1105099000472 substrate binding pocket [chemical binding]; other site 1105099000473 membrane-bound complex binding site; other site 1105099000474 hinge residues; other site 1105099000475 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1105099000476 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1105099000477 GatB domain; Region: GatB_Yqey; smart00845 1105099000478 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1105099000479 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1105099000480 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 1105099000481 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1105099000482 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 1105099000483 hinge region; other site 1105099000484 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 1105099000485 putative nucleotide binding site [chemical binding]; other site 1105099000486 uridine monophosphate binding site [chemical binding]; other site 1105099000487 homohexameric interface [polypeptide binding]; other site 1105099000488 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 1105099000489 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1105099000490 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 1105099000491 putative substrate translocation pore; other site 1105099000492 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 1105099000493 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 1105099000494 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1105099000495 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105099000496 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105099000497 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105099000498 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105099000499 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105099000500 Surface antigen; Region: Bac_surface_Ag; pfam01103 1105099000501 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1105099000502 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 1105099000503 active site 1105099000504 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 1105099000505 protein binding site [polypeptide binding]; other site 1105099000506 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 1105099000507 putative substrate binding region [chemical binding]; other site 1105099000508 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 1105099000509 putative RNA binding site [nucleotide binding]; other site 1105099000510 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1105099000511 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 1105099000512 S-adenosylmethionine binding site [chemical binding]; other site 1105099000513 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 1105099000514 nucleophilic elbow; other site 1105099000515 catalytic triad; other site 1105099000516 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1105099000517 putative coenzyme Q binding site [chemical binding]; other site 1105099000518 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1105099000519 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1105099000520 RNA methyltransferase, RsmE family; Region: TIGR00046 1105099000521 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1105099000522 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1105099000523 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105099000524 Protein export membrane protein; Region: SecD_SecF; cl14618 1105099000525 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 1105099000526 IHF dimer interface [polypeptide binding]; other site 1105099000527 IHF - DNA interface [nucleotide binding]; other site 1105099000528 DNA polymerase III subunit delta'; Validated; Region: PRK06581 1105099000529 signal recognition particle protein; Provisional; Region: PRK10867 1105099000530 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1105099000531 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 1105099000532 P loop; other site 1105099000533 GTP binding site [chemical binding]; other site 1105099000534 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1105099000535 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105099000536 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105099000537 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 1105099000538 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 1105099000539 FeS/SAM binding site; other site 1105099000540 HemN C-terminal domain; Region: HemN_C; pfam06969 1105099000541 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1105099000542 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1105099000543 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105099000544 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1105099000545 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1105099000546 active site 1105099000547 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1105099000548 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 1105099000549 E3 interaction surface; other site 1105099000550 lipoyl attachment site [posttranslational modification]; other site 1105099000551 e3 binding domain; Region: E3_binding; pfam02817 1105099000552 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105099000553 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1105099000554 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 1105099000555 TPP-binding site [chemical binding]; other site 1105099000556 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1105099000557 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1105099000558 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1105099000559 active site 1105099000560 Zn binding site [ion binding]; other site 1105099000561 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1105099000562 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105099000563 Walker A/P-loop; other site 1105099000564 ATP binding site [chemical binding]; other site 1105099000565 Q-loop/lid; other site 1105099000566 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105099000567 ABC transporter signature motif; other site 1105099000568 Walker B; other site 1105099000569 D-loop; other site 1105099000570 H-loop/switch region; other site 1105099000571 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1105099000572 chaperone protein DnaJ; Provisional; Region: PRK14300 1105099000573 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 1105099000574 HSP70 interaction site [polypeptide binding]; other site 1105099000575 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1105099000576 substrate binding site [polypeptide binding]; other site 1105099000577 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1105099000578 Zn binding sites [ion binding]; other site 1105099000579 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1105099000580 dimer interface [polypeptide binding]; other site 1105099000581 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1105099000582 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1105099000583 nucleotide binding site [chemical binding]; other site 1105099000584 NEF interaction site [polypeptide binding]; other site 1105099000585 SBD interface [polypeptide binding]; other site 1105099000586 potential frameshift: common BLAST hit: gi|51473386|ref|YP_067143.1| serine protease 1105099000587 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1105099000588 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1105099000589 diiron binding motif [ion binding]; other site 1105099000590 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 1105099000591 Subunit III/VIIa interface [polypeptide binding]; other site 1105099000592 Phospholipid binding site [chemical binding]; other site 1105099000593 Subunit I/III interface [polypeptide binding]; other site 1105099000594 Subunit III/VIb interface [polypeptide binding]; other site 1105099000595 Subunit III/VIa interface; other site 1105099000596 Subunit III/Vb interface [polypeptide binding]; other site 1105099000597 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1105099000598 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1105099000599 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: dapD; TIGR00965 1105099000600 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 1105099000601 trimer interface [polypeptide binding]; other site 1105099000602 active site 1105099000603 substrate binding site [chemical binding]; other site 1105099000604 CoA binding site [chemical binding]; other site 1105099000605 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 1105099000606 Transglycosylase; Region: Transgly; pfam00912 1105099000607 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105099000608 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1105099000609 Transglycosylase; Region: Transgly; cl17702 1105099000610 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 1105099000611 Ligand Binding Site [chemical binding]; other site 1105099000612 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1105099000613 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1105099000614 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1105099000615 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 1105099000616 catalytic loop [active] 1105099000617 iron binding site [ion binding]; other site 1105099000618 chaperone protein HscA; Provisional; Region: hscA; PRK01433 1105099000619 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1105099000620 nucleotide binding site [chemical binding]; other site 1105099000621 co-chaperone HscB; Provisional; Region: hscB; PRK01356 1105099000622 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 1105099000623 HSP70 interaction site [polypeptide binding]; other site 1105099000624 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1105099000625 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105099000626 active site 1105099000627 excinuclease ABC subunit B; Provisional; Region: PRK05298 1105099000628 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 1105099000629 ATP binding site [chemical binding]; other site 1105099000630 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 1105099000631 nucleotide binding region [chemical binding]; other site 1105099000632 ATP-binding site [chemical binding]; other site 1105099000633 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1105099000634 UvrB/uvrC motif; Region: UVR; pfam02151 1105099000635 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 1105099000636 GSH binding site [chemical binding]; other site 1105099000637 catalytic residues [active] 1105099000638 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105099000639 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1105099000640 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1105099000641 Walker A/P-loop; other site 1105099000642 ATP binding site [chemical binding]; other site 1105099000643 Q-loop/lid; other site 1105099000644 ABC transporter signature motif; other site 1105099000645 Walker B; other site 1105099000646 D-loop; other site 1105099000647 H-loop/switch region; other site 1105099000648 DNA gyrase subunit A; Validated; Region: PRK05560 1105099000649 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 1105099000650 CAP-like domain; other site 1105099000651 active site 1105099000652 primary dimer interface [polypeptide binding]; other site 1105099000653 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105099000654 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105099000655 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105099000656 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105099000657 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1105099000658 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 1105099000659 active site 1105099000660 catalytic residues [active] 1105099000661 metal binding site [ion binding]; metal-binding site 1105099000662 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1105099000663 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1105099000664 putative active site [active] 1105099000665 substrate binding site [chemical binding]; other site 1105099000666 putative cosubstrate binding site; other site 1105099000667 catalytic site [active] 1105099000668 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1105099000669 substrate binding site [chemical binding]; other site 1105099000670 Predicted ATPase [General function prediction only]; Region: COG1485 1105099000671 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 1105099000672 Walker A motif; other site 1105099000673 ATP binding site [chemical binding]; other site 1105099000674 Walker B motif; other site 1105099000675 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 1105099000676 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1105099000677 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105099000678 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105099000679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099000680 Walker A/P-loop; other site 1105099000681 ATP binding site [chemical binding]; other site 1105099000682 Q-loop/lid; other site 1105099000683 ABC transporter signature motif; other site 1105099000684 Walker B; other site 1105099000685 D-loop; other site 1105099000686 H-loop/switch region; other site 1105099000687 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 1105099000688 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1105099000689 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1105099000690 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1105099000691 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105099000692 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1105099000693 putative metal binding site; other site 1105099000694 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1105099000695 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1105099000696 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1105099000697 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1105099000698 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1105099000699 ATP binding site [chemical binding]; other site 1105099000700 active site 1105099000701 substrate binding site [chemical binding]; other site 1105099000702 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1105099000703 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 1105099000704 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105099000705 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 1105099000706 active site 1105099000707 dimer interface [polypeptide binding]; other site 1105099000708 motif 1; other site 1105099000709 motif 2; other site 1105099000710 motif 3; other site 1105099000711 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 1105099000712 anticodon binding site; other site 1105099000713 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 1105099000714 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1105099000715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1105099000716 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1105099000717 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 1105099000718 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1105099000719 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 1105099000720 ATP binding site [chemical binding]; other site 1105099000721 Mg2+ binding site [ion binding]; other site 1105099000722 G-X-G motif; other site 1105099000723 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 1105099000724 anchoring element; other site 1105099000725 dimer interface [polypeptide binding]; other site 1105099000726 ATP binding site [chemical binding]; other site 1105099000727 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 1105099000728 active site 1105099000729 metal binding site [ion binding]; metal-binding site 1105099000730 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105099000731 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1105099000732 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1105099000733 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 1105099000734 protein binding site [polypeptide binding]; other site 1105099000735 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1105099000736 Catalytic dyad [active] 1105099000737 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 1105099000738 dimer interface [polypeptide binding]; other site 1105099000739 phosphorylation site [posttranslational modification] 1105099000740 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 1105099000741 ATP binding site [chemical binding]; other site 1105099000742 Mg2+ binding site [ion binding]; other site 1105099000743 G-X-G motif; other site 1105099000744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1105099000745 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 1105099000746 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1105099000747 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1105099000748 Trp docking motif [polypeptide binding]; other site 1105099000749 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 1105099000750 23S rRNA interface [nucleotide binding]; other site 1105099000751 L3 interface [polypeptide binding]; other site 1105099000752 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1105099000753 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 1105099000754 putative active site [active] 1105099000755 Ap4A binding site [chemical binding]; other site 1105099000756 nudix motif; other site 1105099000757 putative metal binding site [ion binding]; other site 1105099000758 response regulator PleD; Reviewed; Region: pleD; PRK09581 1105099000759 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 1105099000760 active site 1105099000761 phosphorylation site [posttranslational modification] 1105099000762 intermolecular recognition site; other site 1105099000763 dimerization interface [polypeptide binding]; other site 1105099000764 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 1105099000765 active site 1105099000766 phosphorylation site [posttranslational modification] 1105099000767 intermolecular recognition site; other site 1105099000768 dimerization interface [polypeptide binding]; other site 1105099000769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1105099000770 metal binding site [ion binding]; metal-binding site 1105099000771 active site 1105099000772 I-site; other site 1105099000773 elongation factor P; Validated; Region: PRK00529 1105099000774 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1105099000775 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 1105099000776 RNA binding site [nucleotide binding]; other site 1105099000777 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 1105099000778 RNA binding site [nucleotide binding]; other site 1105099000779 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105099000780 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 1105099000781 active site 1105099000782 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 1105099000783 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1105099000784 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1105099000785 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1105099000786 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1105099000787 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105099000788 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105099000789 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105099000790 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 1105099000791 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1105099000792 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105099000793 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105099000794 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105099000795 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1105099000796 FAD binding domain; Region: FAD_binding_4; pfam01565 1105099000797 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1105099000798 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1105099000799 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1105099000800 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1105099000801 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1105099000802 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1105099000803 Cell division protein FtsQ; Region: FtsQ; pfam03799 1105099000804 cell division protein FtsA; Region: ftsA; TIGR01174 1105099000805 Cell division protein FtsA; Region: FtsA; smart00842 1105099000806 Cell division protein FtsA; Region: FtsA; pfam14450 1105099000807 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1105099000808 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1105099000809 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 1105099000810 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1105099000811 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 1105099000812 RNA binding site [nucleotide binding]; other site 1105099000813 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 1105099000814 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1105099000815 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1105099000816 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1105099000817 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105099000818 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 1105099000819 RNA binding surface [nucleotide binding]; other site 1105099000820 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105099000821 active site 1105099000822 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1105099000823 Beta-lactamase; Region: Beta-lactamase; pfam00144 1105099000824 potential frameshift: common BLAST hit: gi|15604130|ref|NP_220645.1| exodeoxyribonuclease III 1105099000825 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1105099000826 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 1105099000827 tetramer interface [polypeptide binding]; other site 1105099000828 TPP-binding site [chemical binding]; other site 1105099000829 heterodimer interface [polypeptide binding]; other site 1105099000830 phosphorylation loop region [posttranslational modification] 1105099000831 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1105099000832 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 1105099000833 alpha subunit interface [polypeptide binding]; other site 1105099000834 TPP binding site [chemical binding]; other site 1105099000835 heterodimer interface [polypeptide binding]; other site 1105099000836 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1105099000837 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1105099000838 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1105099000839 G1 box; other site 1105099000840 putative GEF interaction site [polypeptide binding]; other site 1105099000841 GTP/Mg2+ binding site [chemical binding]; other site 1105099000842 Switch I region; other site 1105099000843 G2 box; other site 1105099000844 G3 box; other site 1105099000845 Switch II region; other site 1105099000846 G4 box; other site 1105099000847 G5 box; other site 1105099000848 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 1105099000849 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 1105099000850 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1105099000851 isocitrate dehydrogenase; Validated; Region: PRK09222 1105099000852 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1105099000853 monovalent cation/proton antiporter, MnhG/PhaG subunit; Region: CPA3_mnhG_phaG; TIGR01300 1105099000854 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 1105099000855 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 1105099000856 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1105099000857 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 1105099000858 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1105099000859 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1105099000860 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 1105099000861 [2Fe-2S] cluster binding site [ion binding]; other site 1105099000862 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 1105099000863 Qi binding site; other site 1105099000864 intrachain domain interface; other site 1105099000865 interchain domain interface [polypeptide binding]; other site 1105099000866 cytochrome b; Provisional; Region: CYTB; MTH00119 1105099000867 heme bH binding site [chemical binding]; other site 1105099000868 heme bL binding site [chemical binding]; other site 1105099000869 Qo binding site; other site 1105099000870 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 1105099000871 interchain domain interface [polypeptide binding]; other site 1105099000872 intrachain domain interface; other site 1105099000873 Qi binding site; other site 1105099000874 Qo binding site; other site 1105099000875 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1105099000876 Cytochrome c; Region: Cytochrom_C; cl11414 1105099000877 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1105099000878 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 1105099000879 putative dimer interface [polypeptide binding]; other site 1105099000880 PCRF domain; Region: PCRF; pfam03462 1105099000881 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1105099000882 RF-1 domain; Region: RF-1; pfam00472 1105099000883 GTP-binding protein LepA; Provisional; Region: PRK05433 1105099000884 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1105099000885 G1 box; other site 1105099000886 putative GEF interaction site [polypeptide binding]; other site 1105099000887 GTP/Mg2+ binding site [chemical binding]; other site 1105099000888 Switch I region; other site 1105099000889 G2 box; other site 1105099000890 G3 box; other site 1105099000891 Switch II region; other site 1105099000892 G4 box; other site 1105099000893 G5 box; other site 1105099000894 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 1105099000895 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 1105099000896 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1105099000897 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1105099000898 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1105099000899 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105099000900 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 1105099000901 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105099000902 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 1105099000903 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105099000904 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 1105099000905 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105099000906 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1105099000907 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1105099000908 VirB7 interaction site; other site 1105099000909 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105099000910 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 1105099000911 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105099000912 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1105099000913 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1105099000914 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 1105099000915 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 1105099000916 Walker A motif; other site 1105099000917 hexamer interface [polypeptide binding]; other site 1105099000918 ATP binding site [chemical binding]; other site 1105099000919 Walker B motif; other site 1105099000920 type IV secretion system component VirD4; Provisional; Region: PRK13897 1105099000921 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 1105099000922 Walker A motif; other site 1105099000923 ATP binding site [chemical binding]; other site 1105099000924 Walker B motif; other site 1105099000925 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1105099000926 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1105099000927 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105099000928 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105099000929 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105099000930 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 1105099000931 active site 1105099000932 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1105099000933 MutS domain I; Region: MutS_I; pfam01624 1105099000934 MutS domain II; Region: MutS_II; pfam05188 1105099000935 MutS domain III; Region: MutS_III; pfam05192 1105099000936 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1105099000937 Walker A/P-loop; other site 1105099000938 ATP binding site [chemical binding]; other site 1105099000939 Q-loop/lid; other site 1105099000940 ABC transporter signature motif; other site 1105099000941 Walker B; other site 1105099000942 D-loop; other site 1105099000943 H-loop/switch region; other site 1105099000944 sugar-phosphate isomerase, RpiB/LacA/LacB family; Region: rpiB_lacA_lacB; TIGR00689 1105099000945 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105099000946 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1105099000947 translocation protein TolB; Provisional; Region: tolB; PRK05137 1105099000948 TolB amino-terminal domain; Region: TolB_N; pfam04052 1105099000949 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1105099000950 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1105099000951 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105099000952 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105099000953 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 1105099000954 DNA binding residues [nucleotide binding] 1105099000955 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1105099000956 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1105099000957 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 1105099000958 Ligand Binding Site [chemical binding]; other site 1105099000959 amino acid transporter; Region: 2A0306; TIGR00909 1105099000960 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1105099000961 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 1105099000962 dimer interface [polypeptide binding]; other site 1105099000963 motif 1; other site 1105099000964 active site 1105099000965 motif 2; other site 1105099000966 motif 3; other site 1105099000967 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 1105099000968 anticodon binding site; other site 1105099000969 TolQ protein; Region: tolQ; TIGR02796 1105099000970 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1105099000971 TolR protein; Region: tolR; TIGR02801 1105099000972 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1105099000973 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105099000974 HD domain; Region: HD_4; pfam13328 1105099000975 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 1105099000976 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105099000977 putative substrate translocation pore; other site 1105099000978 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1105099000979 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 1105099000980 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105099000981 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1105099000982 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1105099000983 Walker A/P-loop; other site 1105099000984 ATP binding site [chemical binding]; other site 1105099000985 Q-loop/lid; other site 1105099000986 ABC transporter signature motif; other site 1105099000987 Walker B; other site 1105099000988 D-loop; other site 1105099000989 H-loop/switch region; other site 1105099000990 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1105099000991 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1105099000992 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 1105099000993 nucleotide binding site/active site [active] 1105099000994 HIT family signature motif; other site 1105099000995 catalytic residue [active] 1105099000996 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1105099000997 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 1105099000998 active site 1105099000999 HslU subunit interaction site [polypeptide binding]; other site 1105099001000 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1105099001001 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 1105099001002 Walker A motif; other site 1105099001003 ATP binding site [chemical binding]; other site 1105099001004 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1105099001005 Walker B motif; other site 1105099001006 arginine finger; other site 1105099001007 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105099001008 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1105099001009 Lipid-A-disaccharide synthetase; Region: LpxB; pfam02684 1105099001010 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1105099001011 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1105099001012 dimerization interface [polypeptide binding]; other site 1105099001013 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 1105099001014 putative iron binding site [ion binding]; other site 1105099001015 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1105099001016 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1105099001017 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105099001018 HIGH motif; other site 1105099001019 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105099001020 active site 1105099001021 KMSKS motif; other site 1105099001022 DNA topoisomerase I; Validated; Region: PRK06599 1105099001023 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 1105099001024 active site 1105099001025 interdomain interaction site; other site 1105099001026 putative metal-binding site [ion binding]; other site 1105099001027 nucleotide binding site [chemical binding]; other site 1105099001028 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 1105099001029 domain I; other site 1105099001030 DNA binding groove [nucleotide binding] 1105099001031 phosphate binding site [ion binding]; other site 1105099001032 domain II; other site 1105099001033 domain III; other site 1105099001034 nucleotide binding site [chemical binding]; other site 1105099001035 catalytic site [active] 1105099001036 domain IV; other site 1105099001037 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1105099001038 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1105099001039 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 1105099001040 dimer interface [polypeptide binding]; other site 1105099001041 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1105099001042 catalytic triad [active] 1105099001043 peroxidatic and resolving cysteines [active] 1105099001044 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105099001045 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 1105099001046 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1105099001047 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1105099001048 Sulfatase; Region: Sulfatase; pfam00884 1105099001049 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1105099001050 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1105099001051 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1105099001052 NADP binding site [chemical binding]; other site 1105099001053 active site 1105099001054 putative substrate binding site [chemical binding]; other site 1105099001055 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1105099001056 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1105099001057 NAD(P) binding site [chemical binding]; other site 1105099001058 homodimer interface [polypeptide binding]; other site 1105099001059 substrate binding site [chemical binding]; other site 1105099001060 active site 1105099001061 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1105099001062 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1105099001063 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 1105099001064 active site 1105099001065 homodimer interface [polypeptide binding]; other site 1105099001066 Protein chain release factor A [Translation, ribosomal structure and biogenesis]; Region: PrfA; COG0216 1105099001067 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105099001068 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 1105099001069 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105099001070 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 1105099001071 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1105099001072 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1105099001073 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105099001074 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 1105099001075 active site 1105099001076 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105099001077 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 1105099001078 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1105099001079 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105099001080 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105099001081 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105099001082 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105099001083 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1105099001084 catalytic site [active] 1105099001085 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105099001086 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 1105099001087 putative ADP-binding pocket [chemical binding]; other site 1105099001088 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1105099001089 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1105099001090 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 1105099001091 RNA binding surface [nucleotide binding]; other site 1105099001092 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1105099001093 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105099001094 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1105099001095 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105099001096 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1105099001097 RimM N-terminal domain; Region: RimM; pfam01782 1105099001098 PRC-barrel domain; Region: PRC; pfam05239 1105099001099 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105099001100 exodeoxyribonuclease VII, small subunit; Region: xseB; TIGR01280 1105099001101 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1105099001102 active site 1105099001103 DNA binding site [nucleotide binding] 1105099001104 hypothetical protein; Provisional; Region: PRK14388 1105099001105 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1105099001106 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 1105099001107 putative dimer interface [polypeptide binding]; other site 1105099001108 [2Fe-2S] cluster binding site [ion binding]; other site 1105099001109 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1105099001110 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1105099001111 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1105099001112 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1105099001113 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1105099001114 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1105099001115 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1105099001116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1105099001117 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1105099001118 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 1105099001119 active site 1105099001120 DNA binding site [nucleotide binding] 1105099001121 Int/Topo IB signature motif; other site 1105099001122 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 1105099001123 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1105099001124 NAD binding site [chemical binding]; other site 1105099001125 homotetramer interface [polypeptide binding]; other site 1105099001126 homodimer interface [polypeptide binding]; other site 1105099001127 substrate binding site [chemical binding]; other site 1105099001128 active site 1105099001129 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1105099001130 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1105099001131 putative active site [active] 1105099001132 catalytic triad [active] 1105099001133 putative dimer interface [polypeptide binding]; other site 1105099001134 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 1105099001135 zinc binding site [ion binding]; other site 1105099001136 putative ligand binding site [chemical binding]; other site 1105099001137 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 1105099001138 TM-ABC transporter signature motif; other site 1105099001139 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1105099001140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099001141 Walker A/P-loop; other site 1105099001142 ATP binding site [chemical binding]; other site 1105099001143 Q-loop/lid; other site 1105099001144 ABC transporter signature motif; other site 1105099001145 Walker B; other site 1105099001146 D-loop; other site 1105099001147 H-loop/switch region; other site 1105099001148 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1105099001149 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1105099001150 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 1105099001151 active site 1105099001152 HIGH motif; other site 1105099001153 KMSKS motif; other site 1105099001154 Predicted permeases [General function prediction only]; Region: COG0679 1105099001155 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1105099001156 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1105099001157 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1105099001158 putative NAD(P) binding site [chemical binding]; other site 1105099001159 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1105099001160 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 1105099001161 active site/putative ARF binding site [active] 1105099001162 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 1105099001163 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105099001164 putative substrate translocation pore; other site 1105099001165 malate dehydrogenase; Reviewed; Region: PRK06223 1105099001166 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1105099001167 NAD(P) binding site [chemical binding]; other site 1105099001168 dimer interface [polypeptide binding]; other site 1105099001169 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105099001170 substrate binding site [chemical binding]; other site 1105099001171 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105099001172 CTP synthetase; Validated; Region: pyrG; PRK05380 1105099001173 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 1105099001174 Catalytic site [active] 1105099001175 active site 1105099001176 UTP binding site [chemical binding]; other site 1105099001177 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1105099001178 active site 1105099001179 putative oxyanion hole; other site 1105099001180 catalytic triad [active] 1105099001181 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1105099001182 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1105099001183 Ligand binding site; other site 1105099001184 oligomer interface; other site 1105099001185 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1105099001186 GTP cyclohydrolase I; Provisional; Region: PLN03044 1105099001187 active site 1105099001188 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1105099001189 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 1105099001190 dimer interface [polypeptide binding]; other site 1105099001191 motif 1; other site 1105099001192 active site 1105099001193 motif 2; other site 1105099001194 motif 3; other site 1105099001195 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 1105099001196 anticodon binding site; other site 1105099001197 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1105099001198 RuvA N terminal domain; Region: RuvA_N; pfam01330 1105099001199 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1105099001200 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 1105099001201 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 1105099001202 Walker A motif; other site 1105099001203 ATP binding site [chemical binding]; other site 1105099001204 Walker B motif; other site 1105099001205 arginine finger; other site 1105099001206 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1105099001207 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105099001208 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105099001209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099001210 Walker A/P-loop; other site 1105099001211 ATP binding site [chemical binding]; other site 1105099001212 Q-loop/lid; other site 1105099001213 ABC transporter signature motif; other site 1105099001214 Walker B; other site 1105099001215 D-loop; other site 1105099001216 H-loop/switch region; other site 1105099001217 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1105099001218 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1105099001219 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105099001220 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1105099001221 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1105099001222 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1105099001223 BON domain; Region: BON; pfam04972 1105099001224 BON domain; Region: BON; pfam04972 1105099001225 intracellular septation protein A; Reviewed; Region: PRK00259 1105099001226 Iron permease FTR1 family; Region: FTR1; pfam03239 1105099001227 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1105099001228 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105099001229 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1105099001230 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 1105099001231 active site 1105099001232 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 1105099001233 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1105099001234 catalytic residues [active] 1105099001235 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1105099001236 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105099001237 tandem repeat interface [polypeptide binding]; other site 1105099001238 oligomer interface [polypeptide binding]; other site 1105099001239 active site residues [active] 1105099001240 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105099001241 trimer interface [polypeptide binding]; other site 1105099001242 active site 1105099001243 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105099001244 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 1105099001245 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105099001246 catalytic residue [active] 1105099001247 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1105099001248 dimer interface [polypeptide binding]; other site 1105099001249 catalytic triad [active] 1105099001250 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1105099001251 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1105099001252 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1105099001253 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105099001254 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1105099001255 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 1105099001256 Subunit I/III interface [polypeptide binding]; other site 1105099001257 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1105099001258 D-pathway; other site 1105099001259 Subunit I/VIIc interface [polypeptide binding]; other site 1105099001260 Subunit I/IV interface [polypeptide binding]; other site 1105099001261 Subunit I/II interface [polypeptide binding]; other site 1105099001262 Low-spin heme (heme a) binding site [chemical binding]; other site 1105099001263 Subunit I/VIIa interface [polypeptide binding]; other site 1105099001264 Subunit I/VIa interface [polypeptide binding]; other site 1105099001265 Dimer interface; other site 1105099001266 Putative water exit pathway; other site 1105099001267 Binuclear center (heme a3/CuB) [ion binding]; other site 1105099001268 K-pathway; other site 1105099001269 Subunit I/Vb interface [polypeptide binding]; other site 1105099001270 Putative proton exit pathway; other site 1105099001271 Subunit I/VIb interface; other site 1105099001272 Subunit I/VIc interface [polypeptide binding]; other site 1105099001273 Electron transfer pathway; other site 1105099001274 Subunit I/VIIIb interface [polypeptide binding]; other site 1105099001275 Subunit I/VIIb interface [polypeptide binding]; other site 1105099001276 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1105099001277 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00117 1105099001278 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1105099001279 putative peptidase; Provisional; Region: PRK11649 1105099001280 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105099001281 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1105099001282 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1105099001283 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 1105099001284 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105099001285 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105099001286 cell division protein FtsW; Region: ftsW; TIGR02614 1105099001287 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 1105099001288 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 1105099001289 active site 1105099001290 homodimer interface [polypeptide binding]; other site 1105099001291 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 1105099001292 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105099001293 diaminopimelate epimerase; Region: DapF; TIGR00652 1105099001294 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105099001295 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105099001296 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1105099001297 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105099001298 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 1105099001299 FeS/SAM binding site; other site 1105099001300 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1105099001301 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1105099001302 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 1105099001303 dimer interface [polypeptide binding]; other site 1105099001304 motif 1; other site 1105099001305 active site 1105099001306 motif 2; other site 1105099001307 motif 3; other site 1105099001308 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1105099001309 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 1105099001310 putative tRNA-binding site [nucleotide binding]; other site 1105099001311 B3/4 domain; Region: B3_4; pfam03483 1105099001312 tRNA synthetase B5 domain; Region: B5; smart00874 1105099001313 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 1105099001314 dimer interface [polypeptide binding]; other site 1105099001315 motif 1; other site 1105099001316 motif 3; other site 1105099001317 motif 2; other site 1105099001318 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1105099001319 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 1105099001320 DNA polymerase III subunit beta; Validated; Region: PRK05643 1105099001321 putative DNA binding surface [nucleotide binding]; other site 1105099001322 dimer interface [polypeptide binding]; other site 1105099001323 beta-clamp/clamp loader binding surface; other site 1105099001324 beta-clamp/translesion DNA polymerase binding surface; other site 1105099001325 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1105099001326 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1105099001327 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1105099001328 HIGH motif; other site 1105099001329 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105099001330 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105099001331 active site 1105099001332 KMSKS motif; other site 1105099001333 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1105099001334 tRNA binding surface [nucleotide binding]; other site 1105099001335 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105099001336 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105099001337 catalytic site [active] 1105099001338 putative active site [active] 1105099001339 putative substrate binding site [chemical binding]; other site 1105099001340 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1105099001341 Septum formation initiator; Region: DivIC; pfam04977 1105099001342 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1105099001343 Cytidylyltransferase family; Region: CTP_transf_1; cl17467 1105099001344 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1105099001345 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1105099001346 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 1105099001347 catalytic residue [active] 1105099001348 putative FPP diphosphate binding site; other site 1105099001349 putative FPP binding hydrophobic cleft; other site 1105099001350 dimer interface [polypeptide binding]; other site 1105099001351 putative IPP diphosphate binding site; other site 1105099001352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105099001353 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 1105099001354 dimer interface [polypeptide binding]; other site 1105099001355 phosphorylation site [posttranslational modification] 1105099001356 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 1105099001357 ATP binding site [chemical binding]; other site 1105099001358 Mg2+ binding site [ion binding]; other site 1105099001359 G-X-G motif; other site 1105099001360 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105099001361 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 1105099001362 active site 1105099001363 phosphorylation site [posttranslational modification] 1105099001364 intermolecular recognition site; other site 1105099001365 dimerization interface [polypeptide binding]; other site 1105099001366 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 1105099001367 DNA binding site [nucleotide binding] 1105099001368 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1105099001369 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 1105099001370 homodimer interface [polypeptide binding]; other site 1105099001371 substrate-cofactor binding pocket; other site 1105099001372 catalytic residue [active] 1105099001373 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1105099001374 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1105099001375 dimer interface [polypeptide binding]; other site 1105099001376 active site 1105099001377 catalytic residue [active] 1105099001378 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 1105099001379 SmpB-tmRNA interface; other site 1105099001380 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 1105099001381 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1105099001382 catalytic residues [active] 1105099001383 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1105099001384 CoA binding domain; Region: CoA_binding; pfam02629 1105099001385 CoA-ligase; Region: Ligase_CoA; pfam00549 1105099001386 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1105099001387 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1105099001388 CoA-ligase; Region: Ligase_CoA; pfam00549 1105099001389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1105099001390 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1105099001391 Predicted membrane protein [Function unknown]; Region: COG1238 1105099001392 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1105099001393 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 1105099001394 RecR protein; Region: RecR; pfam02132 1105099001395 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 1105099001396 putative active site [active] 1105099001397 putative metal-binding site [ion binding]; other site 1105099001398 tetramer interface [polypeptide binding]; other site 1105099001399 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1105099001400 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1105099001401 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1105099001402 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1105099001403 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1105099001404 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1105099001405 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1105099001406 Predicted permeases [General function prediction only]; Region: COG0679 1105099001407 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105099001408 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1105099001409 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105099001410 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105099001411 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105099001412 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 1105099001413 active site 1105099001414 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1105099001415 Part of AAA domain; Region: AAA_19; pfam13245 1105099001416 Family description; Region: UvrD_C_2; pfam13538 1105099001417 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1105099001418 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 1105099001419 tetramer interface [polypeptide binding]; other site 1105099001420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105099001421 catalytic residue [active] 1105099001422 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1105099001423 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1105099001424 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 1105099001425 Walker A motif; other site 1105099001426 ATP binding site [chemical binding]; other site 1105099001427 Walker B motif; other site 1105099001428 arginine finger; other site 1105099001429 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1105099001430 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105099001431 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1105099001432 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 1105099001433 homotetramer interface [polypeptide binding]; other site 1105099001434 FMN binding site [chemical binding]; other site 1105099001435 homodimer contacts [polypeptide binding]; other site 1105099001436 putative active site [active] 1105099001437 putative substrate binding site [chemical binding]; other site 1105099001438 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1105099001439 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1105099001440 Substrate binding site; other site 1105099001441 Mg++ binding site; other site 1105099001442 hypothetical protein; Validated; Region: PRK00110 1105099001443 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1105099001444 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105099001445 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 1105099001446 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105099001447 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 1105099001448 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1105099001449 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1105099001450 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1105099001451 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105099001452 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105099001453 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105099001454 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1105099001455 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1105099001456 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105099001457 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105099001458 catalytic site [active] 1105099001459 putative active site [active] 1105099001460 putative substrate binding site [chemical binding]; other site 1105099001461 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1105099001462 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 1105099001463 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1105099001464 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1105099001465 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1105099001466 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105099001467 Na binding site [ion binding]; other site 1105099001468 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105099001469 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 1105099001470 dimer interface [polypeptide binding]; other site 1105099001471 phosphorylation site [posttranslational modification] 1105099001472 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 1105099001473 ATP binding site [chemical binding]; other site 1105099001474 Mg2+ binding site [ion binding]; other site 1105099001475 G-X-G motif; other site 1105099001476 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1105099001477 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 1105099001478 domain interfaces; other site 1105099001479 active site 1105099001480 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1105099001481 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1105099001482 active site 1105099001483 HIGH motif; other site 1105099001484 dimer interface [polypeptide binding]; other site 1105099001485 KMSKS motif; other site 1105099001486 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1105099001487 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105099001488 putative acyl-acceptor binding pocket; other site 1105099001489 Protein required for attachment to host cells [Cell motility and secretion]; Region: COG5622 1105099001490 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1105099001491 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105099001492 HemY protein N-terminus; Region: HemY_N; pfam07219 1105099001493 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 1105099001494 active site 1105099001495 AmpG-like permease; Region: 2A0125; TIGR00901 1105099001496 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 1105099001497 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1105099001498 Ligand binding site; other site 1105099001499 metal-binding site 1105099001500 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105099001501 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1105099001502 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1105099001503 substrate binding pocket [chemical binding]; other site 1105099001504 chain length determination region; other site 1105099001505 substrate-Mg2+ binding site; other site 1105099001506 catalytic residues [active] 1105099001507 aspartate-rich region 1; other site 1105099001508 active site lid residues [active] 1105099001509 aspartate-rich region 2; other site 1105099001510 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1105099001511 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1105099001512 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 1105099001513 active site 1105099001514 arginine:agmatin antiporter; Provisional; Region: PRK10644 1105099001515 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1105099001516 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1105099001517 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1105099001518 trimerization site [polypeptide binding]; other site 1105099001519 active site 1105099001520 cysteine desulfurase; Provisional; Region: PRK14012 1105099001521 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105099001522 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105099001523 catalytic residue [active] 1105099001524 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1105099001525 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105099001526 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105099001527 catalytic residue [active] 1105099001528 Predicted transcriptional regulator [Transcription]; Region: COG1959 1105099001529 Transcriptional regulator; Region: Rrf2; cl17282 1105099001530 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1105099001531 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 1105099001532 GSH binding site (G-site) [chemical binding]; other site 1105099001533 C-terminal domain interface [polypeptide binding]; other site 1105099001534 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1105099001535 N-terminal domain interface [polypeptide binding]; other site 1105099001536 dimer interface [polypeptide binding]; other site 1105099001537 substrate binding pocket (H-site) [chemical binding]; other site 1105099001538 pyruvate, phosphate dikinase; Region: pyru_phos_dikin; TIGR01828 1105099001539 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1105099001540 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1105099001541 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1105099001542 hypothetical protein; Provisional; Region: PRK06661 1105099001543 intersubunit interface [polypeptide binding]; other site 1105099001544 active site 1105099001545 Zn2+ binding site [ion binding]; other site 1105099001546 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1105099001547 uncharacterized protein, YfiH family; Region: TIGR00726 1105099001548 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1105099001549 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1105099001550 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1105099001551 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 1105099001552 non-specific DNA binding site [nucleotide binding]; other site 1105099001553 salt bridge; other site 1105099001554 sequence-specific DNA binding site [nucleotide binding]; other site 1105099001555 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 1105099001556 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105099001557 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01528 1105099001558 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1105099001559 RNA binding site [nucleotide binding]; other site 1105099001560 active site 1105099001561 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 1105099001562 16S/18S rRNA binding site [nucleotide binding]; other site 1105099001563 S13e-L30e interaction site [polypeptide binding]; other site 1105099001564 25S rRNA binding site [nucleotide binding]; other site 1105099001565 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1105099001566 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1105099001567 oligomer interface [polypeptide binding]; other site 1105099001568 RNA binding site [nucleotide binding]; other site 1105099001569 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1105099001570 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1105099001571 RNase E interface [polypeptide binding]; other site 1105099001572 trimer interface [polypeptide binding]; other site 1105099001573 active site 1105099001574 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 1105099001575 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 1105099001576 RNA binding site [nucleotide binding]; other site 1105099001577 domain interface; other site 1105099001578 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1105099001579 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 1105099001580 putative active site [active] 1105099001581 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 1105099001582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1105099001583 OstA-like protein; Region: OstA; pfam03968 1105099001584 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1105099001585 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1105099001586 Walker A/P-loop; other site 1105099001587 ATP binding site [chemical binding]; other site 1105099001588 Q-loop/lid; other site 1105099001589 ABC transporter signature motif; other site 1105099001590 Walker B; other site 1105099001591 D-loop; other site 1105099001592 H-loop/switch region; other site 1105099001593 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1105099001594 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 1105099001595 active site 1105099001596 substrate binding site [chemical binding]; other site 1105099001597 metal binding site [ion binding]; metal-binding site 1105099001598 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1105099001599 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1105099001600 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105099001601 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1105099001602 dimer interface [polypeptide binding]; other site 1105099001603 putative radical transfer pathway; other site 1105099001604 diiron center [ion binding]; other site 1105099001605 tyrosyl radical; other site 1105099001606 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1105099001607 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1105099001608 active site 1105099001609 dimer interface [polypeptide binding]; other site 1105099001610 catalytic residues [active] 1105099001611 effector binding site; other site 1105099001612 R2 peptide binding site; other site 1105099001613 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1105099001614 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105099001615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105099001616 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 1105099001617 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1105099001618 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1105099001619 homodimer interface [polypeptide binding]; other site 1105099001620 NADP binding site [chemical binding]; other site 1105099001621 substrate binding site [chemical binding]; other site 1105099001622 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1105099001623 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 1105099001624 trimer interface [polypeptide binding]; other site 1105099001625 putative metal binding site [ion binding]; other site 1105099001626 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 1105099001627 30S subunit binding site; other site 1105099001628 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1105099001629 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1105099001630 oligomer interface [polypeptide binding]; other site 1105099001631 active site residues [active] 1105099001632 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1105099001633 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 1105099001634 RNA binding site [nucleotide binding]; other site 1105099001635 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 1105099001636 RNA binding site [nucleotide binding]; other site 1105099001637 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 1105099001638 RNA binding site [nucleotide binding]; other site 1105099001639 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 1105099001640 RNA binding site [nucleotide binding]; other site 1105099001641 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 1105099001642 RNA binding site [nucleotide binding]; other site 1105099001643 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 1105099001644 RNA binding site [nucleotide binding]; other site 1105099001645 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 1105099001646 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 1105099001647 CMP-binding site; other site 1105099001648 The sites determining sugar specificity; other site 1105099001649 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 1105099001650 IHF - DNA interface [nucleotide binding]; other site 1105099001651 IHF dimer interface [polypeptide binding]; other site 1105099001652 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1105099001653 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105099001654 tandem repeat interface [polypeptide binding]; other site 1105099001655 oligomer interface [polypeptide binding]; other site 1105099001656 active site residues [active] 1105099001657 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1105099001658 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1105099001659 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 1105099001660 RNA binding site [nucleotide binding]; other site 1105099001661 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 1105099001662 multimer interface [polypeptide binding]; other site 1105099001663 Walker A motif; other site 1105099001664 ATP binding site [chemical binding]; other site 1105099001665 Walker B motif; other site 1105099001666 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 1105099001667 S-adenosylmethionine binding site [chemical binding]; other site 1105099001668 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105099001669 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1105099001670 DHH family; Region: DHH; pfam01368 1105099001671 DHHA1 domain; Region: DHHA1; pfam02272 1105099001672 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1105099001673 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1105099001674 RF-1 domain; Region: RF-1; pfam00472 1105099001675 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 1105099001676 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1105099001677 E3 interaction surface; other site 1105099001678 lipoyl attachment site [posttranslational modification]; other site 1105099001679 e3 binding domain; Region: E3_binding; pfam02817 1105099001680 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105099001681 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1105099001682 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1105099001683 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1105099001684 Predicted membrane protein [Function unknown]; Region: COG5346 1105099001685 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1105099001686 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1105099001687 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1105099001688 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1105099001689 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1105099001690 active site 1105099001691 nucleophile elbow; other site 1105099001692 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1105099001693 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1105099001694 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1105099001695 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1105099001696 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 1105099001697 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105099001698 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 1105099001699 dimer interface [polypeptide binding]; other site 1105099001700 allosteric magnesium binding site [ion binding]; other site 1105099001701 active site 1105099001702 aspartate-rich active site metal binding site; other site 1105099001703 Schiff base residues; other site 1105099001704 primosome assembly protein PriA; Validated; Region: PRK05580 1105099001705 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 1105099001706 ATP binding site [chemical binding]; other site 1105099001707 putative Mg++ binding site [ion binding]; other site 1105099001708 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1105099001709 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 1105099001710 Flavoprotein; Region: Flavoprotein; pfam02441 1105099001711 replicative DNA helicase; Provisional; Region: PRK09165 1105099001712 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1105099001713 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 1105099001714 Walker A motif; other site 1105099001715 ATP binding site [chemical binding]; other site 1105099001716 Walker B motif; other site 1105099001717 DNA binding loops [nucleotide binding] 1105099001718 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1105099001719 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 1105099001720 RNA binding surface [nucleotide binding]; other site 1105099001721 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1105099001722 probable active site [active] 1105099001723 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1105099001724 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 1105099001725 S-adenosylmethionine binding site [chemical binding]; other site 1105099001726 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105099001727 DNA repair protein RadA; Provisional; Region: PRK11823 1105099001728 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 1105099001729 Walker A motif; other site 1105099001730 ATP binding site [chemical binding]; other site 1105099001731 Walker B motif; other site 1105099001732 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1105099001733 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 1105099001734 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1105099001735 Recombination protein O N terminal; Region: RecO_N; pfam11967 1105099001736 Recombination protein O C terminal; Region: RecO_C; pfam02565 1105099001737 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1105099001738 Glycoprotease family; Region: Peptidase_M22; pfam00814 1105099001739 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1105099001740 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1105099001741 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1105099001742 G1 box; other site 1105099001743 putative GEF interaction site [polypeptide binding]; other site 1105099001744 GTP/Mg2+ binding site [chemical binding]; other site 1105099001745 Switch I region; other site 1105099001746 G2 box; other site 1105099001747 G3 box; other site 1105099001748 Switch II region; other site 1105099001749 G4 box; other site 1105099001750 G5 box; other site 1105099001751 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 1105099001752 Translation-initiation factor 2; Region: IF-2; pfam11987 1105099001753 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 1105099001754 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1105099001755 NusA N-terminal domain; Region: NusA_N; pfam08529 1105099001756 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 1105099001757 RNA binding site [nucleotide binding]; other site 1105099001758 homodimer interface [polypeptide binding]; other site 1105099001759 NusA-like KH domain; Region: KH_5; pfam13184 1105099001760 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 1105099001761 G-X-X-G motif; other site 1105099001762 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1105099001763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1105099001764 Sm and related proteins; Region: Sm_like; cl00259 1105099001765 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1105099001766 putative oligomer interface [polypeptide binding]; other site 1105099001767 putative RNA binding site [nucleotide binding]; other site 1105099001768 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1105099001769 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 1105099001770 RNA binding surface [nucleotide binding]; other site 1105099001771 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1105099001772 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1105099001773 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1105099001774 active site 1105099001775 HIGH motif; other site 1105099001776 dimer interface [polypeptide binding]; other site 1105099001777 KMSKS motif; other site 1105099001778 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 1105099001779 RNA binding surface [nucleotide binding]; other site 1105099001780 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1105099001781 MG2 domain; Region: A2M_N; pfam01835 1105099001782 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1105099001783 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 1105099001784 surface patch; other site 1105099001785 thioester region; other site 1105099001786 specificity defining residues; other site 1105099001787 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1105099001788 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1105099001789 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1105099001790 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1105099001791 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 1105099001792 substrate binding site [chemical binding]; other site 1105099001793 oxyanion hole (OAH) forming residues; other site 1105099001794 trimer interface [polypeptide binding]; other site 1105099001795 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 1105099001796 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1105099001797 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1105099001798 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1105099001799 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 1105099001800 active site 1105099001801 phosphorylation site [posttranslational modification] 1105099001802 intermolecular recognition site; other site 1105099001803 dimerization interface [polypeptide binding]; other site 1105099001804 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 1105099001805 Walker A motif; other site 1105099001806 ATP binding site [chemical binding]; other site 1105099001807 Walker B motif; other site 1105099001808 arginine finger; other site 1105099001809 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1105099001810 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105099001811 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105099001812 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105099001813 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105099001814 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105099001815 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1105099001816 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105099001817 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105099001818 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1105099001819 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105099001820 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105099001821 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1105099001822 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1105099001823 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 1105099001824 S-adenosylmethionine binding site [chemical binding]; other site 1105099001825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1105099001826 MraZ protein; Region: MraZ; pfam02381 1105099001827 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105099001828 Na binding site [ion binding]; other site 1105099001829 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1105099001830 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1105099001831 GIY-YIG motif/motif A; other site 1105099001832 active site 1105099001833 catalytic site [active] 1105099001834 putative DNA binding site [nucleotide binding]; other site 1105099001835 metal binding site [ion binding]; metal-binding site 1105099001836 UvrB/uvrC motif; Region: UVR; pfam02151 1105099001837 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1105099001838 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1105099001839 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1105099001840 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1105099001841 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1105099001842 SEC-C motif; Region: SEC-C; pfam02810 1105099001843 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 1105099001844 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1105099001845 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1105099001846 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1105099001847 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1105099001848 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 1105099001849 hinge; other site 1105099001850 active site 1105099001851 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1105099001852 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 1105099001853 Mg2+ binding site [ion binding]; other site 1105099001854 G-X-G motif; other site 1105099001855 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 1105099001856 anchoring element; other site 1105099001857 dimer interface [polypeptide binding]; other site 1105099001858 ATP binding site [chemical binding]; other site 1105099001859 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 1105099001860 active site 1105099001861 putative metal-binding site [ion binding]; other site 1105099001862 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105099001863 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1105099001864 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 1105099001865 active site 1105099001866 motif I; other site 1105099001867 motif II; other site 1105099001868 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 1105099001869 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1105099001870 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1105099001871 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 1105099001872 Divalent cation transporter; Region: MgtE; pfam01769 1105099001873 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1105099001874 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1105099001875 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1105099001876 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105099001877 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 1105099001878 Cu(I) binding site [ion binding]; other site 1105099001879 Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]; Region: CcmE; COG2332 1105099001880 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 1105099001881 dimer interface [polypeptide binding]; other site 1105099001882 substrate binding site [chemical binding]; other site 1105099001883 metal binding sites [ion binding]; metal-binding site 1105099001884 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1105099001885 MviN-like protein; Region: MVIN; pfam03023 1105099001886 TraX protein; Region: TraX; pfam05857 1105099001887 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1105099001888 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 1105099001889 ssDNA binding site; other site 1105099001890 generic binding surface II; other site 1105099001891 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 1105099001892 ATP binding site [chemical binding]; other site 1105099001893 putative Mg++ binding site [ion binding]; other site 1105099001894 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 1105099001895 nucleotide binding region [chemical binding]; other site 1105099001896 ATP-binding site [chemical binding]; other site 1105099001897 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1105099001898 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 1105099001899 Mg++ binding site [ion binding]; other site 1105099001900 putative catalytic motif [active] 1105099001901 putative substrate binding site [chemical binding]; other site 1105099001902 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105099001903 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1105099001904 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105099001905 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105099001906 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 1105099001907 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105099001908 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105099001909 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105099001910 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1105099001911 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1105099001912 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 1105099001913 ATP binding site [chemical binding]; other site 1105099001914 putative Mg++ binding site [ion binding]; other site 1105099001915 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 1105099001916 nucleotide binding region [chemical binding]; other site 1105099001917 ATP-binding site [chemical binding]; other site 1105099001918 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1105099001919 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1105099001920 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 1105099001921 active site residue [active] 1105099001922 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1105099001923 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1105099001924 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 1105099001925 Walker A motif; other site 1105099001926 ATP binding site [chemical binding]; other site 1105099001927 Walker B motif; other site 1105099001928 arginine finger; other site 1105099001929 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 1105099001930 DnaA box-binding interface [nucleotide binding]; other site 1105099001931 Patatin [General function prediction only]; Region: COG3621 1105099001932 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 1105099001933 active site 1105099001934 nucleophile elbow; other site 1105099001935 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105099001936 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 1105099001937 putative substrate translocation pore; other site 1105099001938 GTP-binding protein YchF; Reviewed; Region: PRK09601 1105099001939 YchF GTPase; Region: YchF; cd01900 1105099001940 G1 box; other site 1105099001941 GTP/Mg2+ binding site [chemical binding]; other site 1105099001942 Switch I region; other site 1105099001943 G2 box; other site 1105099001944 Switch II region; other site 1105099001945 G3 box; other site 1105099001946 G4 box; other site 1105099001947 G5 box; other site 1105099001948 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 1105099001949 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 1105099001950 putative active site [active] 1105099001951 catalytic residue [active] 1105099001952 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1105099001953 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1105099001954 5S rRNA interface [nucleotide binding]; other site 1105099001955 CTC domain interface [polypeptide binding]; other site 1105099001956 L16 interface [polypeptide binding]; other site 1105099001957 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1105099001958 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1105099001959 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1105099001960 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1105099001961 23S rRNA binding site [nucleotide binding]; other site 1105099001962 L21 binding site [polypeptide binding]; other site 1105099001963 L13 binding site [polypeptide binding]; other site 1105099001964 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1105099001965 ribonuclease P; Reviewed; Region: rnpA; PRK01492 1105099001966 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1105099001967 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 1105099001968 dimerization interface [polypeptide binding]; other site 1105099001969 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 1105099001970 dimer interface [polypeptide binding]; other site 1105099001971 phosphorylation site [posttranslational modification] 1105099001972 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 1105099001973 ATP binding site [chemical binding]; other site 1105099001974 Mg2+ binding site [ion binding]; other site 1105099001975 G-X-G motif; other site 1105099001976 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1105099001977 Uncharacterized conserved protein [Function unknown]; Region: COG5590 1105099001978 COQ9; Region: COQ9; pfam08511 1105099001979 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1105099001980 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105099001981 HIGH motif; other site 1105099001982 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105099001983 active site 1105099001984 KMSKS motif; other site 1105099001985 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1105099001986 tRNA binding surface [nucleotide binding]; other site 1105099001987 anticodon binding site; other site 1105099001988 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1105099001989 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1105099001990 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1105099001991 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1105099001992 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 1105099001993 carboxyltransferase (CT) interaction site; other site 1105099001994 biotinylation site [posttranslational modification]; other site 1105099001995 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1105099001996 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1105099001997 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1105099001998 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1105099001999 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 1105099002000 putative substrate translocation pore; other site 1105099002001 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105099002002 putative acyl-acceptor binding pocket; other site 1105099002003 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1105099002004 acyl-activating enzyme (AAE) consensus motif; other site 1105099002005 putative AMP binding site [chemical binding]; other site 1105099002006 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 1105099002007 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1105099002008 dimer interface [polypeptide binding]; other site 1105099002009 putative PBP binding regions; other site 1105099002010 ABC-ATPase subunit interface; other site 1105099002011 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1105099002012 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 1105099002013 S-adenosylmethionine binding site [chemical binding]; other site 1105099002014 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 1105099002015 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105099002016 HIGH motif; other site 1105099002017 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105099002018 active site 1105099002019 KMSKS motif; other site 1105099002020 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105099002021 HD domain; Region: HD_4; pfam13328 1105099002022 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105099002023 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1105099002024 synthetase active site [active] 1105099002025 NTP binding site [chemical binding]; other site 1105099002026 metal binding site [ion binding]; metal-binding site 1105099002027 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1105099002028 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 1105099002029 ring oligomerisation interface [polypeptide binding]; other site 1105099002030 ATP/Mg binding site [chemical binding]; other site 1105099002031 stacking interactions; other site 1105099002032 hinge regions; other site 1105099002033 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 1105099002034 oligomerisation interface [polypeptide binding]; other site 1105099002035 mobile loop; other site 1105099002036 roof hairpin; other site 1105099002037 ribonuclease PH; Reviewed; Region: rph; PRK00173 1105099002038 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1105099002039 hexamer interface [polypeptide binding]; other site 1105099002040 active site 1105099002041 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1105099002042 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 1105099002043 dimer interface [polypeptide binding]; other site 1105099002044 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1105099002045 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1105099002046 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1105099002047 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1105099002048 hypothetical protein; Validated; Region: PRK06620 1105099002049 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1105099002050 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1105099002051 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1105099002052 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1105099002053 alphaNTD - beta interaction site [polypeptide binding]; other site 1105099002054 alphaNTD homodimer interface [polypeptide binding]; other site 1105099002055 alphaNTD - beta' interaction site [polypeptide binding]; other site 1105099002056 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1105099002057 30S ribosomal protein S11; Validated; Region: PRK05309 1105099002058 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1105099002059 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1105099002060 adenylate kinase; Reviewed; Region: adk; PRK00279 1105099002061 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 1105099002062 AMP-binding site [chemical binding]; other site 1105099002063 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1105099002064 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1105099002065 SecY translocase; Region: SecY; pfam00344 1105099002066 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1105099002067 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 1105099002068 23S rRNA binding site [nucleotide binding]; other site 1105099002069 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1105099002070 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1105099002071 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1105099002072 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 1105099002073 5S rRNA interface [nucleotide binding]; other site 1105099002074 23S rRNA interface [nucleotide binding]; other site 1105099002075 L5 interface [polypeptide binding]; other site 1105099002076 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1105099002077 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105099002078 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105099002079 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1105099002080 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1105099002081 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1105099002082 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1105099002083 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1105099002084 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1105099002085 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1105099002086 RNA binding site [nucleotide binding]; other site 1105099002087 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1105099002088 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1105099002089 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 1105099002090 L23 interface [polypeptide binding]; other site 1105099002091 trigger factor interaction site; other site 1105099002092 23S rRNA interface [nucleotide binding]; other site 1105099002093 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 1105099002094 23S rRNA interface [nucleotide binding]; other site 1105099002095 5S rRNA interface [nucleotide binding]; other site 1105099002096 putative antibiotic binding site [chemical binding]; other site 1105099002097 L25 interface [polypeptide binding]; other site 1105099002098 L27 interface [polypeptide binding]; other site 1105099002099 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 1105099002100 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 1105099002101 G-X-X-G motif; other site 1105099002102 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1105099002103 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 1105099002104 putative translocon binding site; other site 1105099002105 protein-rRNA interface [nucleotide binding]; other site 1105099002106 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1105099002107 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1105099002108 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1105099002109 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1105099002110 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1105099002111 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1105099002112 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1105099002113 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1105099002114 elongation factor Tu; Reviewed; Region: PRK00049 1105099002115 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1105099002116 G1 box; other site 1105099002117 GEF interaction site [polypeptide binding]; other site 1105099002118 GTP/Mg2+ binding site [chemical binding]; other site 1105099002119 Switch I region; other site 1105099002120 G2 box; other site 1105099002121 G3 box; other site 1105099002122 Switch II region; other site 1105099002123 G4 box; other site 1105099002124 G5 box; other site 1105099002125 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 1105099002126 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 1105099002127 Antibiotic Binding Site [chemical binding]; other site 1105099002128 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1105099002129 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1105099002130 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1105099002131 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1105099002132 Class II fumarases; Region: Fumarase_classII; cd01362 1105099002133 active site 1105099002134 tetramer interface [polypeptide binding]; other site 1105099002135 cell division protein FtsZ; Validated; Region: PRK09330 1105099002136 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 1105099002137 nucleotide binding site [chemical binding]; other site 1105099002138 SulA interaction site; other site 1105099002139 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1105099002140 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1105099002141 muropeptide transporter; Validated; Region: ampG; cl17669 1105099002142 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 1105099002143 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1105099002144 ATP binding site [chemical binding]; other site 1105099002145 Mg++ binding site [ion binding]; other site 1105099002146 motif III; other site 1105099002147 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 1105099002148 nucleotide binding region [chemical binding]; other site 1105099002149 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 1105099002150 DNA-binding site [nucleotide binding]; DNA binding site 1105099002151 RNA-binding motif; other site 1105099002152 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1105099002153 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 1105099002154 S-adenosylmethionine binding site [chemical binding]; other site 1105099002155 SurA N-terminal domain; Region: SurA_N_3; cl07813 1105099002156 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1105099002157 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1105099002158 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1105099002159 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 1105099002160 generic binding surface II; other site 1105099002161 generic binding surface I; other site 1105099002162 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 1105099002163 putative catalytic site [active] 1105099002164 putative phosphate binding site [ion binding]; other site 1105099002165 active site 1105099002166 metal binding site A [ion binding]; metal-binding site 1105099002167 DNA binding site [nucleotide binding] 1105099002168 putative AP binding site [nucleotide binding]; other site 1105099002169 putative metal binding site B [ion binding]; other site 1105099002170 Uncharacterized conserved protein [Function unknown]; Region: COG4095 1105099002171 GTP-binding protein Der; Reviewed; Region: PRK00093 1105099002172 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1105099002173 G1 box; other site 1105099002174 GTP/Mg2+ binding site [chemical binding]; other site 1105099002175 Switch I region; other site 1105099002176 G2 box; other site 1105099002177 Switch II region; other site 1105099002178 G3 box; other site 1105099002179 G4 box; other site 1105099002180 G5 box; other site 1105099002181 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1105099002182 G1 box; other site 1105099002183 GTP/Mg2+ binding site [chemical binding]; other site 1105099002184 Switch I region; other site 1105099002185 G2 box; other site 1105099002186 G3 box; other site 1105099002187 Switch II region; other site 1105099002188 G4 box; other site 1105099002189 G5 box; other site 1105099002190 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1105099002191 ABC1 family; Region: ABC1; pfam03109 1105099002192 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 1105099002193 active site 1105099002194 ATP binding site [chemical binding]; other site 1105099002195 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1105099002196 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 1105099002197 S-adenosylmethionine binding site [chemical binding]; other site 1105099002198 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1105099002199 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1105099002200 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1105099002201 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1105099002202 active site 1105099002203 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1105099002204 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1105099002205 active site 1105099002206 HIGH motif; other site 1105099002207 KMSKS motif; other site 1105099002208 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1105099002209 tRNA binding surface [nucleotide binding]; other site 1105099002210 anticodon binding site; other site 1105099002211 thymidylate kinase; Validated; Region: tmk; PRK00698 1105099002212 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 1105099002213 TMP-binding site; other site 1105099002214 ATP-binding site [chemical binding]; other site 1105099002215 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105099002216 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 1105099002217 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 1105099002218 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105099002219 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1105099002220 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105099002221 active site 1105099002222 HIGH motif; other site 1105099002223 nucleotide binding site [chemical binding]; other site 1105099002224 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105099002225 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1105099002226 active site 1105099002227 KMSKS motif; other site 1105099002228 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1105099002229 tRNA binding surface [nucleotide binding]; other site 1105099002230 anticodon binding site; other site 1105099002231 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105099002232 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105099002233 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105099002234 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1105099002235 RmuC family; Region: RmuC; pfam02646 1105099002236 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1105099002237 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1105099002238 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 1105099002239 Walker A motif; other site 1105099002240 ATP binding site [chemical binding]; other site 1105099002241 Walker B motif; other site 1105099002242 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105099002243 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1105099002244 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1105099002245 Coenzyme A binding pocket [chemical binding]; other site 1105099002246 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 1105099002247 Ligand Binding Site [chemical binding]; other site 1105099002248 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1105099002249 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105099002250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099002251 Walker A/P-loop; other site 1105099002252 ATP binding site [chemical binding]; other site 1105099002253 Q-loop/lid; other site 1105099002254 ABC transporter signature motif; other site 1105099002255 Walker B; other site 1105099002256 D-loop; other site 1105099002257 H-loop/switch region; other site 1105099002258 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 1105099002259 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 1105099002260 putative substrate translocation pore; other site 1105099002261 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1105099002262 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1105099002263 FtsX-like permease family; Region: FtsX; pfam02687 1105099002264 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1105099002265 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1105099002266 Walker A/P-loop; other site 1105099002267 ATP binding site [chemical binding]; other site 1105099002268 Q-loop/lid; other site 1105099002269 ABC transporter signature motif; other site 1105099002270 Walker B; other site 1105099002271 D-loop; other site 1105099002272 H-loop/switch region; other site 1105099002273 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1105099002274 Domain of unknown function DUF21; Region: DUF21; pfam01595 1105099002275 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 1105099002276 Transporter associated domain; Region: CorC_HlyC; smart01091 1105099002277 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1105099002278 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 1105099002279 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1105099002280 Autotransporter beta-domain; Region: Autotransporter; smart00869 1105099002281 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1105099002282 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1105099002283 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1105099002284 DNA binding residues [nucleotide binding] 1105099002285 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 1105099002286 IHF dimer interface [polypeptide binding]; other site 1105099002287 IHF - DNA interface [nucleotide binding]; other site 1105099002288 potential frameshift: common BLAST hit: gi|67459873|ref|YP_247495.1| patatin-like phospholipase 1105099002289 MULE transposase domain; Region: MULE; pfam10551 1105099002290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1105099002291 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1105099002292 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1105099002293 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 1105099002294 catalytic residues [active] 1105099002295 catalytic nucleophile [active] 1105099002296 Presynaptic Site I dimer interface [polypeptide binding]; other site 1105099002297 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1105099002298 Synaptic Flat tetramer interface [polypeptide binding]; other site 1105099002299 Synaptic Site I dimer interface [polypeptide binding]; other site 1105099002300 potential frameshift: common BLAST hit: gi|157827060|ref|YP_001496124.1| ankyrin repeat-containing protein 1105099002301 potential frameshift: common BLAST hit: gi|67459879|ref|YP_247501.1| transposase 1105099002302 potential frameshift: common BLAST hit: gi|67459879|ref|YP_247501.1| transposase 1105099002303 potential frameshift: common BLAST hit: gi|157827003|ref|YP_001496067.1| ankyrin repeat-containing protein 1105099002304 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 1105099002305 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1105099002306 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1105099002307 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1105099002308 putative acyl-acceptor binding pocket; other site 1105099002309 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1105099002310 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1105099002311 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1105099002312 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 1105099002313 nucleotide binding pocket [chemical binding]; other site 1105099002314 K-X-D-G motif; other site 1105099002315 catalytic site [active] 1105099002316 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1105099002317 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1105099002318 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 1105099002319 Dimer interface [polypeptide binding]; other site 1105099002320 BRCT sequence motif; other site 1105099002321 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1105099002322 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1105099002323 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1105099002324 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1105099002325 mce related protein; Region: MCE; pfam02470 1105099002326 hypothetical protein; Provisional; Region: PRK06630 1105099002327 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1105099002328 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105099002329 active site 1105099002330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1105099002331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1105099002332 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1105099002333 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 1105099002334 CoA-binding site [chemical binding]; other site 1105099002335 ATP-binding [chemical binding]; other site 1105099002336 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1105099002337 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 1105099002338 active site 1105099002339 catalytic site [active] 1105099002340 substrate binding site [chemical binding]; other site 1105099002341 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 1105099002342 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105099002343 Part of AAA domain; Region: AAA_19; pfam13245 1105099002344 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105099002345 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1105099002346 Family description; Region: UvrD_C_2; pfam13538 1105099002347 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1105099002348 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1105099002349 acetyl-CoA acetyltransferase; Provisional; Region: PRK06633 1105099002350 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 1105099002351 dimer interface [polypeptide binding]; other site 1105099002352 active site 1105099002353 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1105099002354 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1105099002355 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105099002356 FOG: CBS domain [General function prediction only]; Region: COG0517 1105099002357 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 1105099002358 Transporter associated domain; Region: CorC_HlyC; smart01091 1105099002359 metal-binding heat shock protein; Provisional; Region: PRK00016 1105099002360 lipoyl synthase; Provisional; Region: PRK05481 1105099002361 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 1105099002362 FeS/SAM binding site; other site 1105099002363 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1105099002364 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 1105099002365 dimer interface [polypeptide binding]; other site 1105099002366 active site 1105099002367 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1105099002368 folate binding site [chemical binding]; other site 1105099002369 putative hydrolase; Provisional; Region: PRK11460 1105099002370 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1105099002371 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 1105099002372 putative GSH binding site [chemical binding]; other site 1105099002373 catalytic residues [active] 1105099002374 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1105099002375 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1105099002376 minor groove reading motif; other site 1105099002377 helix-hairpin-helix signature motif; other site 1105099002378 substrate binding pocket [chemical binding]; other site 1105099002379 active site 1105099002380 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1105099002381 Predicted methyltransferases [General function prediction only]; Region: COG0313 1105099002382 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1105099002383 putative SAM binding site [chemical binding]; other site 1105099002384 putative homodimer interface [polypeptide binding]; other site 1105099002385 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1105099002386 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1105099002387 putative ligand binding site [chemical binding]; other site 1105099002388 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 1105099002389 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1105099002390 tetramer interfaces [polypeptide binding]; other site 1105099002391 binuclear metal-binding site [ion binding]; other site 1105099002392 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1105099002393 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1105099002394 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1105099002395 aspartate kinase; Reviewed; Region: PRK06635 1105099002396 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 1105099002397 putative catalytic residues [active] 1105099002398 putative nucleotide binding site [chemical binding]; other site 1105099002399 putative aspartate binding site [chemical binding]; other site 1105099002400 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105099002401 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 1105099002402 putative allosteric regulatory residue; other site 1105099002403 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1105099002404 salt bridge; other site 1105099002405 non-specific DNA binding site [nucleotide binding]; other site 1105099002406 sequence-specific DNA binding site [nucleotide binding]; other site 1105099002407 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 1105099002408 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105099002409 putative substrate translocation pore; other site 1105099002410 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1105099002411 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1105099002412 Helix-turn-helix domain; Region: HTH_25; pfam13413 1105099002413 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 1105099002414 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1105099002415 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1105099002416 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1105099002417 Adenovirus IVa2 protein; Region: Adeno_IVa2; pfam02456 1105099002418 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1105099002419 G1 box; other site 1105099002420 GTP/Mg2+ binding site [chemical binding]; other site 1105099002421 Switch I region; other site 1105099002422 G2 box; other site 1105099002423 Switch II region; other site 1105099002424 G3 box; other site 1105099002425 G4 box; other site 1105099002426 G5 box; other site 1105099002427 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1105099002428 recombinase A; Provisional; Region: recA; PRK09354 1105099002429 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 1105099002430 hexamer interface [polypeptide binding]; other site 1105099002431 Walker A motif; other site 1105099002432 ATP binding site [chemical binding]; other site 1105099002433 Walker B motif; other site 1105099002434 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1105099002435 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1105099002436 homotetramer interface [polypeptide binding]; other site 1105099002437 NAD(P) binding site [chemical binding]; other site 1105099002438 homodimer interface [polypeptide binding]; other site 1105099002439 active site 1105099002440 acyl carrier protein; Provisional; Region: acpP; PRK00982 1105099002441 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1105099002442 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 1105099002443 dimer interface [polypeptide binding]; other site 1105099002444 active site 1105099002445 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1105099002446 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 1105099002447 catalytic site [active] 1105099002448 G-X2-G-X-G-K; other site 1105099002449 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 1105099002450 sequence-specific DNA binding site [nucleotide binding]; other site 1105099002451 salt bridge; other site 1105099002452 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1105099002453 rod shape-determining protein MreC; Region: MreC; pfam04085 1105099002454 rod shape-determining protein MreB; Provisional; Region: PRK13927 1105099002455 MreB and similar proteins; Region: MreB_like; cd10225 1105099002456 nucleotide binding site [chemical binding]; other site 1105099002457 Mg binding site [ion binding]; other site 1105099002458 putative protofilament interaction site [polypeptide binding]; other site 1105099002459 RodZ interaction site [polypeptide binding]; other site 1105099002460 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105099002461 Predicted permeases [General function prediction only]; Region: COG0795 1105099002462 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1105099002463 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1105099002464 ligand binding site [chemical binding]; other site 1105099002465 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 1105099002466 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 1105099002467 dimer interface [polypeptide binding]; other site 1105099002468 active site 1105099002469 CoA binding pocket [chemical binding]; other site 1105099002470 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1105099002471 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1105099002472 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1105099002473 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1105099002474 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 1105099002475 P loop; other site 1105099002476 GTP binding site [chemical binding]; other site 1105099002477 DNA polymerase I; Region: pola; TIGR00593 1105099002478 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1105099002479 active site 1105099002480 metal binding site 1 [ion binding]; metal-binding site 1105099002481 putative 5' ssDNA interaction site; other site 1105099002482 metal binding site 3; metal-binding site 1105099002483 metal binding site 2 [ion binding]; metal-binding site 1105099002484 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1105099002485 putative DNA binding site [nucleotide binding]; other site 1105099002486 putative metal binding site [ion binding]; other site 1105099002487 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1105099002488 active site 1105099002489 DNA binding site [nucleotide binding] 1105099002490 catalytic site [active] 1105099002491 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1105099002492 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1105099002493 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1105099002494 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1105099002495 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1105099002496 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1105099002497 putative active site [active] 1105099002498 putative PHP Thumb interface [polypeptide binding]; other site 1105099002499 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 1105099002500 generic binding surface II; other site 1105099002501 generic binding surface I; other site 1105099002502 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1105099002503 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1105099002504 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1105099002505 Protein of unknown function; Region: DUF3971; pfam13116 1105099002506 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105099002507 muropeptide transporter; Validated; Region: ampG; cl17669 1105099002508 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 1105099002509 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1105099002510 seryl-tRNA synthetase; Provisional; Region: PRK05431 1105099002511 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1105099002512 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 1105099002513 dimer interface [polypeptide binding]; other site 1105099002514 active site 1105099002515 motif 1; other site 1105099002516 motif 2; other site 1105099002517 motif 3; other site 1105099002518 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1105099002519 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105099002520 Integral membrane protein TerC family; Region: TerC; cl10468 1105099002521 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1105099002522 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105099002523 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 1105099002524 S-adenosylmethionine binding site [chemical binding]; other site 1105099002525 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105099002526 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1105099002527 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1105099002528 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1105099002529 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1105099002530 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1105099002531 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105099002532 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1105099002533 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105099002534 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 1105099002535 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099002536 Walker A/P-loop; other site 1105099002537 ATP binding site [chemical binding]; other site 1105099002538 Q-loop/lid; other site 1105099002539 ABC transporter signature motif; other site 1105099002540 Walker B; other site 1105099002541 D-loop; other site 1105099002542 H-loop/switch region; other site 1105099002543 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1105099002544 4Fe-4S binding domain; Region: Fer4; cl02805 1105099002545 4Fe-4S binding domain; Region: Fer4; pfam00037 1105099002546 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1105099002547 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1105099002548 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1105099002549 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 1105099002550 catalytic loop [active] 1105099002551 iron binding site [ion binding]; other site 1105099002552 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1105099002553 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 1105099002554 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1105099002555 Predicted membrane protein [Function unknown]; Region: COG3671 1105099002556 aconitate hydratase; Validated; Region: PRK09277 1105099002557 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1105099002558 substrate binding site [chemical binding]; other site 1105099002559 ligand binding site [chemical binding]; other site 1105099002560 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 1105099002561 substrate binding site [chemical binding]; other site 1105099002562 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 1105099002563 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1105099002564 gamma subunit interface [polypeptide binding]; other site 1105099002565 epsilon subunit interface [polypeptide binding]; other site 1105099002566 LBP interface [polypeptide binding]; other site 1105099002567 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1105099002568 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105099002569 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 1105099002570 alpha subunit interaction interface [polypeptide binding]; other site 1105099002571 Walker A motif; other site 1105099002572 ATP binding site [chemical binding]; other site 1105099002573 Walker B motif; other site 1105099002574 inhibitor binding site; inhibition site 1105099002575 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105099002576 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1105099002577 core domain interface [polypeptide binding]; other site 1105099002578 delta subunit interface [polypeptide binding]; other site 1105099002579 epsilon subunit interface [polypeptide binding]; other site 1105099002580 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1105099002581 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105099002582 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 1105099002583 beta subunit interaction interface [polypeptide binding]; other site 1105099002584 Walker A motif; other site 1105099002585 ATP binding site [chemical binding]; other site 1105099002586 Walker B motif; other site 1105099002587 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105099002588 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1105099002589 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1105099002590 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1105099002591 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1105099002592 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105099002593 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105099002594 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1105099002595 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1105099002596 dimerization interface [polypeptide binding]; other site 1105099002597 DPS ferroxidase diiron center [ion binding]; other site 1105099002598 ion pore; other site 1105099002599 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1105099002600 Transglycosylase; Region: Transgly; pfam00912 1105099002601 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105099002602 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1105099002603 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105099002604 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 1105099002605 FeS/SAM binding site; other site 1105099002606 TRAM domain; Region: TRAM; pfam01938 1105099002607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1105099002608 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105099002609 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105099002610 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1105099002611 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1105099002612 TrkA-N domain; Region: TrkA_N; pfam02254 1105099002613 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1105099002614 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105099002615 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 1105099002616 rRNA binding site [nucleotide binding]; other site 1105099002617 predicted 30S ribosome binding site; other site 1105099002618 Maf-like protein; Region: Maf; pfam02545 1105099002619 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 1105099002620 active site 1105099002621 dimer interface [polypeptide binding]; other site 1105099002622 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1105099002623 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1105099002624 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 1105099002625 active site 1105099002626 DNA binding site [nucleotide binding] 1105099002627 Int/Topo IB signature motif; other site 1105099002628 Phasin protein; Region: Phasin_2; pfam09361 1105099002629 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1105099002630 PLD-like domain; Region: PLDc_2; pfam13091 1105099002631 putative active site [active] 1105099002632 catalytic site [active] 1105099002633 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1105099002634 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105099002635 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1105099002636 periplasmic folding chaperone; Provisional; Region: PRK10788 1105099002637 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1105099002638 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1105099002639 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1105099002640 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1105099002641 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 1105099002642 active site 1105099002643 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1105099002644 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 1105099002645 Mg++ binding site [ion binding]; other site 1105099002646 putative catalytic motif [active] 1105099002647 putative substrate binding site [chemical binding]; other site 1105099002648 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1105099002649 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105099002650 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105099002651 Ferredoxin [Energy production and conversion]; Region: COG1146 1105099002652 4Fe-4S binding domain; Region: Fer4; cl02805 1105099002653 heme exporter protein CcmC; Region: ccmC; TIGR01191 1105099002654 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 1105099002655 nucleoside/Zn binding site; other site 1105099002656 dimer interface [polypeptide binding]; other site 1105099002657 catalytic motif [active] 1105099002658 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1105099002659 Cation efflux family; Region: Cation_efflux; cl00316 1105099002660 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1105099002661 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1105099002662 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1105099002663 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1105099002664 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105099002665 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105099002666 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1105099002667 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1105099002668 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 1105099002669 dimer interface [polypeptide binding]; other site 1105099002670 ssDNA binding site [nucleotide binding]; other site 1105099002671 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105099002672 hypothetical protein; Reviewed; Region: PRK01530 1105099002673 heat shock protein 90; Provisional; Region: PRK05218 1105099002674 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 1105099002675 ATP binding site [chemical binding]; other site 1105099002676 Mg2+ binding site [ion binding]; other site 1105099002677 G-X-G motif; other site 1105099002678 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1105099002679 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 1105099002680 substrate-cofactor binding pocket; other site 1105099002681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105099002682 catalytic residue [active] 1105099002683 trigger factor; Provisional; Region: tig; PRK01490 1105099002684 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105099002685 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1105099002686 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1105099002687 GTP1/OBG; Region: GTP1_OBG; pfam01018 1105099002688 Obg GTPase; Region: Obg; cd01898 1105099002689 G1 box; other site 1105099002690 GTP/Mg2+ binding site [chemical binding]; other site 1105099002691 Switch I region; other site 1105099002692 G2 box; other site 1105099002693 G3 box; other site 1105099002694 Switch II region; other site 1105099002695 G4 box; other site 1105099002696 G5 box; other site 1105099002697 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 1105099002698 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1105099002699 dimer interface [polypeptide binding]; other site 1105099002700 active site 1105099002701 citrylCoA binding site [chemical binding]; other site 1105099002702 NADH binding [chemical binding]; other site 1105099002703 cationic pore residues; other site 1105099002704 oxalacetate/citrate binding site [chemical binding]; other site 1105099002705 coenzyme A binding site [chemical binding]; other site 1105099002706 catalytic triad [active] 1105099002707 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1105099002708 Fe-S cluster binding site [ion binding]; other site 1105099002709 active site 1105099002710 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105099002711 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 1105099002712 RNA binding surface [nucleotide binding]; other site 1105099002713 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105099002714 active site 1105099002715 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 1105099002716 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 1105099002717 S-adenosylmethionine binding site [chemical binding]; other site 1105099002718 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1105099002719 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1105099002720 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1105099002721 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 1105099002722 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105099002723 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1105099002724 motif 1; other site 1105099002725 dimer interface [polypeptide binding]; other site 1105099002726 active site 1105099002727 motif 2; other site 1105099002728 motif 3; other site 1105099002729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1105099002730 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 1105099002731 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105099002732 putative substrate translocation pore; other site 1105099002733 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1105099002734 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 1105099002735 motif 1; other site 1105099002736 active site 1105099002737 motif 2; other site 1105099002738 motif 3; other site 1105099002739 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105099002740 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1105099002741 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1105099002742 dimerization interface 3.5A [polypeptide binding]; other site 1105099002743 active site 1105099002744 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1105099002745 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1105099002746 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105099002747 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1105099002748 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105099002749 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1105099002750 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 1105099002751 DNA binding residues [nucleotide binding] 1105099002752 DNA primase, catalytic core; Region: dnaG; TIGR01391 1105099002753 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1105099002754 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1105099002755 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 1105099002756 active site 1105099002757 metal binding site [ion binding]; metal-binding site 1105099002758 interdomain interaction site; other site 1105099002759 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1105099002760 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1105099002761 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1105099002762 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1105099002763 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105099002764 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1105099002765 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1105099002766 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105099002767 ligand binding site [chemical binding]; other site 1105099002768 homodimer interface [polypeptide binding]; other site 1105099002769 NAD(P) binding site [chemical binding]; other site 1105099002770 trimer interface B [polypeptide binding]; other site 1105099002771 trimer interface A [polypeptide binding]; other site 1105099002772 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1105099002773 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1105099002774 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 1105099002775 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 1105099002776 Walker A motif; other site 1105099002777 ATP binding site [chemical binding]; other site 1105099002778 Walker B motif; other site 1105099002779 arginine finger; other site 1105099002780 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1105099002781 hypothetical protein; Validated; Region: PRK00153 1105099002782 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1105099002783 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1105099002784 catalytic motif [active] 1105099002785 Catalytic residue [active] 1105099002786 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1105099002787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105099002788 Walker A/P-loop; other site 1105099002789 ATP binding site [chemical binding]; other site 1105099002790 Q-loop/lid; other site 1105099002791 ABC transporter signature motif; other site 1105099002792 Walker B; other site 1105099002793 D-loop; other site 1105099002794 H-loop/switch region; other site 1105099002795 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1105099002796 putative hydrolase; Provisional; Region: PRK02113 1105099002797 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 1105099002798 active site 1105099002799 Predicted permeases [General function prediction only]; Region: COG0795 1105099002800 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105099002801 DNA polymerase III subunit chi; Provisional; Region: PRK06646 1105099002802 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 1105099002803 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1105099002804 metal binding site [ion binding]; metal-binding site 1105099002805 dimer interface [polypeptide binding]; other site 1105099002806 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1105099002807 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 1105099002808 putative active site [active] 1105099002809 lipoate-protein ligase B; Provisional; Region: PRK14347 1105099002810 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1105099002811 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 1105099002812 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1105099002813 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 1105099002814 ATP binding site [chemical binding]; other site 1105099002815 Mg2+ binding site [ion binding]; other site 1105099002816 G-X-G motif; other site 1105099002817 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 1105099002818 ATP binding site [chemical binding]; other site 1105099002819 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1105099002820 Zinc-finger domain; Region: zf-CHCC; cl01821 1105099002821 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 1105099002822 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105099002823 putative substrate translocation pore; other site 1105099002824 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1105099002825 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1105099002826 TIGR00701 family protein; Region: TIGR00701 1105099002827 ferrochelatase; Reviewed; Region: hemH; PRK00035 1105099002828 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 1105099002829 C-terminal domain interface [polypeptide binding]; other site 1105099002830 active site 1105099002831 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 1105099002832 active site 1105099002833 N-terminal domain interface [polypeptide binding]; other site 1105099002834 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 1105099002835 substrate binding site [chemical binding]; other site 1105099002836 active site