-- dump date 20140620_033804 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1032845000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 1032845000002 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 1032845000003 catalytic residues [active] 1032845000004 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1032845000005 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1032845000006 Walker A/P-loop; other site 1032845000007 ATP binding site [chemical binding]; other site 1032845000008 Q-loop/lid; other site 1032845000009 ABC transporter signature motif; other site 1032845000010 Walker B; other site 1032845000011 D-loop; other site 1032845000012 H-loop/switch region; other site 1032845000013 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1032845000014 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1032845000015 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 1032845000016 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1032845000017 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 1032845000018 FAD binding pocket [chemical binding]; other site 1032845000019 FAD binding motif [chemical binding]; other site 1032845000020 phosphate binding motif [ion binding]; other site 1032845000021 beta-alpha-beta structure motif; other site 1032845000022 NAD binding pocket [chemical binding]; other site 1032845000023 Iron coordination center [ion binding]; other site 1032845000024 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 1032845000025 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1032845000026 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 1032845000027 active site 1032845000028 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 1032845000029 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1032845000030 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1032845000031 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 1032845000032 trimer interface [polypeptide binding]; other site 1032845000033 active site 1032845000034 UDP-GlcNAc binding site [chemical binding]; other site 1032845000035 lipid binding site [chemical binding]; lipid-binding site 1032845000036 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1032845000037 active site 1032845000038 potential frameshift: common BLAST hit: gi|67458401|ref|YP_246025.1| alpha-beta hydrolase family esterase 1032845000039 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1032845000040 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 1032845000041 FMN binding site [chemical binding]; other site 1032845000042 active site 1032845000043 catalytic residues [active] 1032845000044 substrate binding site [chemical binding]; other site 1032845000045 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 1032845000046 NodB motif; other site 1032845000047 putative active site [active] 1032845000048 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1032845000049 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1032845000050 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1032845000051 intersubunit interface [polypeptide binding]; other site 1032845000052 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1032845000053 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1032845000054 active site 1032845000055 NTP binding site [chemical binding]; other site 1032845000056 metal binding triad [ion binding]; metal-binding site 1032845000057 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1032845000058 Competence protein; Region: Competence; pfam03772 1032845000059 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1032845000060 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 1032845000061 nucleophilic elbow; other site 1032845000062 catalytic triad; other site 1032845000063 potential frameshift: common BLAST hit: gi|157827192|ref|YP_001496256.1| TPR repeat-containing protein 1032845000064 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1032845000065 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 1032845000066 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 1032845000067 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1032845000068 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1032845000069 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1032845000070 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 1032845000071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1032845000072 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1032845000073 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1032845000074 catalytic residues [active] 1032845000075 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1032845000076 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1032845000077 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 1032845000078 S-adenosylmethionine binding site [chemical binding]; other site 1032845000079 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1032845000080 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1032845000081 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1032845000082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845000083 Walker A/P-loop; other site 1032845000084 ATP binding site [chemical binding]; other site 1032845000085 Q-loop/lid; other site 1032845000086 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845000087 ABC transporter signature motif; other site 1032845000088 Walker B; other site 1032845000089 D-loop; other site 1032845000090 H-loop/switch region; other site 1032845000091 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1032845000092 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1032845000093 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1032845000094 folate binding site [chemical binding]; other site 1032845000095 NADP+ binding site [chemical binding]; other site 1032845000096 potential frameshift: common BLAST hit: gi|67458431|ref|YP_246055.1| folate synthesis bifunctional protein 1032845000097 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 1032845000098 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1032845000099 substrate binding pocket [chemical binding]; other site 1032845000100 dimer interface [polypeptide binding]; other site 1032845000101 inhibitor binding site; inhibition site 1032845000102 potential frameshift: common BLAST hit: gi|67458431|ref|YP_246055.1| folate synthesis bifunctional protein 1032845000103 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1032845000104 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1032845000105 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 1032845000106 Cu(I) binding site [ion binding]; other site 1032845000107 Putative transcriptional regulator [Transcription]; Region: COG1678 1032845000108 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1032845000109 Colicin V production protein; Region: Colicin_V; pfam02674 1032845000110 Autotransporter beta-domain; Region: Autotransporter; smart00869 1032845000111 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 1032845000112 potential frameshift: common BLAST hit: gi|229586268|ref|YP_002844769.1| acetoacetyl-CoA reductase 1032845000113 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1032845000114 Clp amino terminal domain; Region: Clp_N; pfam02861 1032845000115 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 1032845000116 Walker A motif; other site 1032845000117 ATP binding site [chemical binding]; other site 1032845000118 Walker B motif; other site 1032845000119 arginine finger; other site 1032845000120 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 1032845000121 Walker A motif; other site 1032845000122 ATP binding site [chemical binding]; other site 1032845000123 Walker B motif; other site 1032845000124 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1032845000125 UGMP family protein; Validated; Region: PRK09604 1032845000126 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1032845000127 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 1032845000128 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1032845000129 Di-iron ligands [ion binding]; other site 1032845000130 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 1032845000131 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1032845000132 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 1032845000133 DNA binding site [nucleotide binding] 1032845000134 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1032845000135 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1032845000136 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1032845000137 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1032845000138 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1032845000139 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1032845000140 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 1032845000141 Ligand Binding Site [chemical binding]; other site 1032845000142 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845000143 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845000144 FtsH Extracellular; Region: FtsH_ext; pfam06480 1032845000145 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1032845000146 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 1032845000147 Walker A motif; other site 1032845000148 ATP binding site [chemical binding]; other site 1032845000149 Walker B motif; other site 1032845000150 arginine finger; other site 1032845000151 Peptidase family M41; Region: Peptidase_M41; pfam01434 1032845000152 potential frameshift: common BLAST hit: gi|91206207|ref|YP_538562.1| site-specific DNA methylase 1032845000153 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1032845000154 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1032845000155 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1032845000156 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1032845000157 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1032845000158 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845000159 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1032845000160 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1032845000161 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1032845000162 membrane protein insertase; Provisional; Region: PRK01318 1032845000163 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1032845000164 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1032845000165 potential frameshift: common BLAST hit: gi|67458519|ref|YP_246143.1| tellurite resistance protein-related protein 1032845000166 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1032845000167 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 1032845000168 active site 1032845000169 catalytic residues [active] 1032845000170 metal binding site [ion binding]; metal-binding site 1032845000171 TLC ATP/ADP transporter; Region: TLC; pfam03219 1032845000172 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1032845000173 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 1032845000174 putative substrate translocation pore; other site 1032845000175 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 1032845000176 active site 1032845000177 multimer interface [polypeptide binding]; other site 1032845000178 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1032845000179 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1032845000180 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1032845000181 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1032845000182 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1032845000183 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1032845000184 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 1032845000185 P-loop; other site 1032845000186 Magnesium ion binding site [ion binding]; other site 1032845000187 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 1032845000188 Magnesium ion binding site [ion binding]; other site 1032845000189 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1032845000190 ParB-like nuclease domain; Region: ParB; smart00470 1032845000191 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1032845000192 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1032845000193 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1032845000194 ABC transporter; Region: ABC_tran_2; pfam12848 1032845000195 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1032845000196 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 1032845000197 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 1032845000198 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1032845000199 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1032845000200 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1032845000201 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1032845000202 Zn2+ binding site [ion binding]; other site 1032845000203 Mg2+ binding site [ion binding]; other site 1032845000204 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1032845000205 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1032845000206 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1032845000207 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1032845000208 active site 1032845000209 HIGH motif; other site 1032845000210 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1032845000211 KMSK motif region; other site 1032845000212 tRNA binding surface [nucleotide binding]; other site 1032845000213 DALR anticodon binding domain; Region: DALR_1; smart00836 1032845000214 anticodon binding site; other site 1032845000215 Sporulation related domain; Region: SPOR; pfam05036 1032845000216 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1032845000217 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 1032845000218 CAP-like domain; other site 1032845000219 active site 1032845000220 primary dimer interface [polypeptide binding]; other site 1032845000221 Gram-negative porin; Region: Porin_4; pfam13609 1032845000222 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1032845000223 trimer interface [polypeptide binding]; other site 1032845000224 active site 1032845000225 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 1032845000226 SecA binding site; other site 1032845000227 Preprotein binding site; other site 1032845000228 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1032845000229 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 1032845000230 active site 1032845000231 phosphorylation site [posttranslational modification] 1032845000232 intermolecular recognition site; other site 1032845000233 dimerization interface [polypeptide binding]; other site 1032845000234 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 1032845000235 DNA binding site [nucleotide binding] 1032845000236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1032845000237 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1032845000238 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1032845000239 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 1032845000240 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1032845000241 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1032845000242 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1032845000243 EamA-like transporter family; Region: EamA; pfam00892 1032845000244 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1032845000245 EamA-like transporter family; Region: EamA; pfam00892 1032845000246 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 1032845000247 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845000248 putative substrate translocation pore; other site 1032845000249 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1032845000250 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1032845000251 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1032845000252 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1032845000253 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1032845000254 active site 1032845000255 HIGH motif; other site 1032845000256 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1032845000257 KMSKS motif; other site 1032845000258 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1032845000259 tRNA binding surface [nucleotide binding]; other site 1032845000260 anticodon binding site; other site 1032845000261 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 1032845000262 rRNA interaction site [nucleotide binding]; other site 1032845000263 S8 interaction site; other site 1032845000264 putative laminin-1 binding site; other site 1032845000265 elongation factor Ts; Provisional; Region: tsf; PRK09377 1032845000266 UBA/TS-N domain; Region: UBA; pfam00627 1032845000267 Elongation factor TS; Region: EF_TS; pfam00889 1032845000268 Elongation factor TS; Region: EF_TS; pfam00889 1032845000269 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 1032845000270 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1032845000271 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845000272 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1032845000273 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1032845000274 putative acyl-acceptor binding pocket; other site 1032845000275 aspartate aminotransferase; Provisional; Region: PRK05764 1032845000276 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 1032845000277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1032845000278 homodimer interface [polypeptide binding]; other site 1032845000279 catalytic residue [active] 1032845000280 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1032845000281 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 1032845000282 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1032845000283 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1032845000284 binding surface 1032845000285 TPR motif; other site 1032845000286 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1032845000287 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 1032845000288 S-adenosylmethionine binding site [chemical binding]; other site 1032845000289 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1032845000290 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1032845000291 potential frameshift: common BLAST hit: gi|157964158|ref|YP_001498982.1| ribose-phosphate pyrophosphokinase 1032845000292 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1032845000293 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1032845000294 active site 1032845000295 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1032845000296 dimer interface [polypeptide binding]; other site 1032845000297 substrate binding site [chemical binding]; other site 1032845000298 catalytic residues [active] 1032845000299 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1032845000300 Permease; Region: Permease; pfam02405 1032845000301 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1032845000302 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845000303 Walker A/P-loop; other site 1032845000304 ATP binding site [chemical binding]; other site 1032845000305 Q-loop/lid; other site 1032845000306 ABC transporter signature motif; other site 1032845000307 Walker B; other site 1032845000308 D-loop; other site 1032845000309 H-loop/switch region; other site 1032845000310 Nucleopolyhedrovirus late expression factor 3 (LEF-3); Region: Baculo_LEF-3; pfam05847 1032845000311 CheD chemotactic sensory transduction; Region: CheD; cl00810 1032845000312 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 1032845000313 50S ribosomal protein L31; Provisional; Region: PRK01397 1032845000314 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1032845000315 G1 box; other site 1032845000316 GTP/Mg2+ binding site [chemical binding]; other site 1032845000317 Switch I region; other site 1032845000318 G2 box; other site 1032845000319 G3 box; other site 1032845000320 Switch II region; other site 1032845000321 G4 box; other site 1032845000322 G5 box; other site 1032845000323 Acetylglutamate kinase [Amino acid transport and metabolism]; Region: ArgB; COG0548 1032845000324 nucleotide binding site [chemical binding]; other site 1032845000325 substrate binding site [chemical binding]; other site 1032845000326 type IV secretion system protein VirB3; Provisional; Region: PRK13899 1032845000327 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 1032845000328 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1032845000329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845000330 Walker A/P-loop; other site 1032845000331 ATP binding site [chemical binding]; other site 1032845000332 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1032845000333 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1032845000334 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1032845000335 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1032845000336 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1032845000337 potential frameshift: common BLAST hit: gi|67458488|ref|YP_246112.1| phosphate acetyltransferase 1032845000338 potential frameshift: common BLAST hit: gi|67458489|ref|YP_246113.1| acetate kinase 1032845000339 potential frameshift: common BLAST hit: gi|157825284|ref|YP_001493004.1| acetate kinase 1032845000340 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 1032845000341 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1032845000342 hypothetical protein; Provisional; Region: PRK13694 1032845000343 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1032845000344 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1032845000345 Protein export membrane protein; Region: SecD_SecF; pfam02355 1032845000346 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1032845000347 SLBB domain; Region: SLBB; pfam10531 1032845000348 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1032845000349 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1032845000350 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 1032845000351 Catalytic site [active] 1032845000352 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 1032845000353 ribonuclease III; Reviewed; Region: rnc; PRK00102 1032845000354 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 1032845000355 dimerization interface [polypeptide binding]; other site 1032845000356 active site 1032845000357 metal binding site [ion binding]; metal-binding site 1032845000358 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 1032845000359 dsRNA binding site [nucleotide binding]; other site 1032845000360 GTPase Era; Provisional; Region: era; PRK15494 1032845000361 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845000362 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1032845000363 G1 box; other site 1032845000364 GTP/Mg2+ binding site [chemical binding]; other site 1032845000365 Switch I region; other site 1032845000366 G2 box; other site 1032845000367 Switch II region; other site 1032845000368 G3 box; other site 1032845000369 G4 box; other site 1032845000370 G5 box; other site 1032845000371 KH domain; Region: KH_2; pfam07650 1032845000372 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 1032845000373 active site 1032845000374 putative DNA-binding cleft [nucleotide binding]; other site 1032845000375 dimer interface [polypeptide binding]; other site 1032845000376 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1032845000377 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1032845000378 nucleotidyltransferase substrate binding protein, HI0074 family; Region: HI0074; TIGR01987 1032845000379 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1032845000380 active site 1032845000381 NTP binding site [chemical binding]; other site 1032845000382 metal binding triad [ion binding]; metal-binding site 1032845000383 antibiotic binding site [chemical binding]; other site 1032845000384 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1032845000385 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1032845000386 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1032845000387 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 1032845000388 Walker A motif; other site 1032845000389 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 1032845000390 HflK protein; Region: hflK; TIGR01933 1032845000391 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1032845000392 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 1032845000393 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1032845000394 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1032845000395 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 1032845000396 protein binding site [polypeptide binding]; other site 1032845000397 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 1032845000398 protein binding site [polypeptide binding]; other site 1032845000399 hypothetical protein; Validated; Region: PRK01415 1032845000400 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1032845000401 active site residue [active] 1032845000402 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 1032845000403 Iron-sulfur protein interface; other site 1032845000404 proximal quinone binding site [chemical binding]; other site 1032845000405 SdhD (CybS) interface [polypeptide binding]; other site 1032845000406 proximal heme binding site [chemical binding]; other site 1032845000407 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 1032845000408 putative SdhC subunit interface [polypeptide binding]; other site 1032845000409 putative proximal heme binding site [chemical binding]; other site 1032845000410 putative Iron-sulfur protein interface [polypeptide binding]; other site 1032845000411 putative proximal quinone binding site; other site 1032845000412 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1032845000413 L-aspartate oxidase; Provisional; Region: PRK06175 1032845000414 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1032845000415 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1032845000416 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 1032845000417 dimer interface [polypeptide binding]; other site 1032845000418 conserved gate region; other site 1032845000419 putative PBP binding loops; other site 1032845000420 ABC-ATPase subunit interface; other site 1032845000421 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 1032845000422 S17 interaction site [polypeptide binding]; other site 1032845000423 S8 interaction site; other site 1032845000424 16S rRNA interaction site [nucleotide binding]; other site 1032845000425 streptomycin interaction site [chemical binding]; other site 1032845000426 23S rRNA interaction site [nucleotide binding]; other site 1032845000427 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1032845000428 30S ribosomal protein S7; Validated; Region: PRK05302 1032845000429 elongation factor G; Reviewed; Region: PRK00007 1032845000430 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1032845000431 G1 box; other site 1032845000432 putative GEF interaction site [polypeptide binding]; other site 1032845000433 GTP/Mg2+ binding site [chemical binding]; other site 1032845000434 Switch I region; other site 1032845000435 G2 box; other site 1032845000436 G3 box; other site 1032845000437 Switch II region; other site 1032845000438 G4 box; other site 1032845000439 G5 box; other site 1032845000440 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 1032845000441 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 1032845000442 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 1032845000443 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1032845000444 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1032845000445 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1032845000446 putative homodimer interface [polypeptide binding]; other site 1032845000447 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1032845000448 heterodimer interface [polypeptide binding]; other site 1032845000449 homodimer interface [polypeptide binding]; other site 1032845000450 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1032845000451 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 1032845000452 23S rRNA interface [nucleotide binding]; other site 1032845000453 putative thiostrepton binding site; other site 1032845000454 L7/L12 interface [polypeptide binding]; other site 1032845000455 L25 interface [polypeptide binding]; other site 1032845000456 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 1032845000457 mRNA/rRNA interface [nucleotide binding]; other site 1032845000458 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 1032845000459 23S rRNA interface [nucleotide binding]; other site 1032845000460 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1032845000461 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 1032845000462 core dimer interface [polypeptide binding]; other site 1032845000463 peripheral dimer interface [polypeptide binding]; other site 1032845000464 L10 interface [polypeptide binding]; other site 1032845000465 L11 interface [polypeptide binding]; other site 1032845000466 putative EF-Tu interaction site [polypeptide binding]; other site 1032845000467 putative EF-G interaction site [polypeptide binding]; other site 1032845000468 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1032845000469 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 1032845000470 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1032845000471 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 1032845000472 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1032845000473 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 1032845000474 RPB3 interaction site [polypeptide binding]; other site 1032845000475 RPB1 interaction site [polypeptide binding]; other site 1032845000476 RPB11 interaction site [polypeptide binding]; other site 1032845000477 RPB10 interaction site [polypeptide binding]; other site 1032845000478 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1032845000479 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1032845000480 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1032845000481 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1032845000482 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1032845000483 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1032845000484 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1032845000485 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1032845000486 DNA binding site [nucleotide binding] 1032845000487 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1032845000488 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845000489 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1032845000490 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 1032845000491 interface (dimer of trimers) [polypeptide binding]; other site 1032845000492 Substrate-binding/catalytic site; other site 1032845000493 Zn-binding sites [ion binding]; other site 1032845000494 ATPase MipZ; Region: MipZ; pfam09140 1032845000495 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 1032845000496 P-loop; other site 1032845000497 Magnesium ion binding site [ion binding]; other site 1032845000498 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 1032845000499 Magnesium ion binding site [ion binding]; other site 1032845000500 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1032845000501 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 1032845000502 dimer interface [polypeptide binding]; other site 1032845000503 anticodon binding site; other site 1032845000504 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 1032845000505 homodimer interface [polypeptide binding]; other site 1032845000506 motif 1; other site 1032845000507 active site 1032845000508 motif 2; other site 1032845000509 GAD domain; Region: GAD; pfam02938 1032845000510 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 1032845000511 active site 1032845000512 motif 3; other site 1032845000513 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1032845000514 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1032845000515 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1032845000516 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1032845000517 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1032845000518 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1032845000519 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1032845000520 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 1032845000521 substrate binding pocket [chemical binding]; other site 1032845000522 membrane-bound complex binding site; other site 1032845000523 hinge residues; other site 1032845000524 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1032845000525 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1032845000526 GatB domain; Region: GatB_Yqey; smart00845 1032845000527 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1032845000528 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1032845000529 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1032845000530 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1032845000531 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 1032845000532 hinge region; other site 1032845000533 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 1032845000534 putative nucleotide binding site [chemical binding]; other site 1032845000535 uridine monophosphate binding site [chemical binding]; other site 1032845000536 homohexameric interface [polypeptide binding]; other site 1032845000537 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 1032845000538 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1032845000539 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 1032845000540 putative substrate translocation pore; other site 1032845000541 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 1032845000542 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 1032845000543 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1032845000544 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1032845000545 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1032845000546 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1032845000547 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1032845000548 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1032845000549 Surface antigen; Region: Bac_surface_Ag; pfam01103 1032845000550 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1032845000551 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 1032845000552 active site 1032845000553 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 1032845000554 protein binding site [polypeptide binding]; other site 1032845000555 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 1032845000556 putative substrate binding region [chemical binding]; other site 1032845000557 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 1032845000558 putative RNA binding site [nucleotide binding]; other site 1032845000559 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1032845000560 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 1032845000561 S-adenosylmethionine binding site [chemical binding]; other site 1032845000562 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1032845000563 putative coenzyme Q binding site [chemical binding]; other site 1032845000564 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845000565 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1032845000566 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1032845000567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1032845000568 RNA methyltransferase, RsmE family; Region: TIGR00046 1032845000569 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1032845000570 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1032845000571 Protein export membrane protein; Region: SecD_SecF; cl14618 1032845000572 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 1032845000573 IHF dimer interface [polypeptide binding]; other site 1032845000574 IHF - DNA interface [nucleotide binding]; other site 1032845000575 DNA polymerase III subunit delta'; Validated; Region: PRK06581 1032845000576 signal recognition particle protein; Provisional; Region: PRK10867 1032845000577 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1032845000578 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 1032845000579 P loop; other site 1032845000580 GTP binding site [chemical binding]; other site 1032845000581 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1032845000582 potential frameshift: common BLAST hit: gi|51473374|ref|YP_067131.1| post-proline cleaving enzyme 1032845000583 potential frameshift: common BLAST hit: gi|157828092|ref|YP_001494334.1| peptidase Y4NA (ppcE) 1032845000584 potential frameshift: common BLAST hit: gi|67459496|ref|YP_247120.1| prolyl endopeptidase precursor 1032845000585 potential frameshift: common BLAST hit: gi|67459496|ref|YP_247120.1| prolyl endopeptidase precursor 1032845000586 potential frameshift: common BLAST hit: gi|67459496|ref|YP_247120.1| prolyl endopeptidase precursor 1032845000587 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 1032845000588 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 1032845000589 FeS/SAM binding site; other site 1032845000590 HemN C-terminal domain; Region: HemN_C; pfam06969 1032845000591 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1032845000592 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1032845000593 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1032845000594 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1032845000595 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1032845000596 active site 1032845000597 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1032845000598 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 1032845000599 E3 interaction surface; other site 1032845000600 lipoyl attachment site [posttranslational modification]; other site 1032845000601 e3 binding domain; Region: E3_binding; pfam02817 1032845000602 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1032845000603 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1032845000604 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 1032845000605 TPP-binding site [chemical binding]; other site 1032845000606 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1032845000607 dimer interface [polypeptide binding]; other site 1032845000608 PYR/PP interface [polypeptide binding]; other site 1032845000609 TPP binding site [chemical binding]; other site 1032845000610 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1032845000611 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1032845000612 active site 1032845000613 Zn binding site [ion binding]; other site 1032845000614 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1032845000615 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1032845000616 Walker A/P-loop; other site 1032845000617 ATP binding site [chemical binding]; other site 1032845000618 Q-loop/lid; other site 1032845000619 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1032845000620 ABC transporter signature motif; other site 1032845000621 Walker B; other site 1032845000622 D-loop; other site 1032845000623 H-loop/switch region; other site 1032845000624 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1032845000625 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1032845000626 ChaB; Region: ChaB; cl01887 1032845000627 ChaB; Region: ChaB; cl01887 1032845000628 chaperone protein DnaJ; Provisional; Region: PRK14300 1032845000629 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 1032845000630 HSP70 interaction site [polypeptide binding]; other site 1032845000631 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1032845000632 substrate binding site [polypeptide binding]; other site 1032845000633 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1032845000634 Zn binding sites [ion binding]; other site 1032845000635 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1032845000636 dimer interface [polypeptide binding]; other site 1032845000637 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1032845000638 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1032845000639 nucleotide binding site [chemical binding]; other site 1032845000640 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1032845000641 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1032845000642 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 1032845000643 Lipopolysaccharide-assembly; Region: LptE; cl01125 1032845000644 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1032845000645 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1032845000646 diiron binding motif [ion binding]; other site 1032845000647 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 1032845000648 Subunit III/VIIa interface [polypeptide binding]; other site 1032845000649 Phospholipid binding site [chemical binding]; other site 1032845000650 Subunit I/III interface [polypeptide binding]; other site 1032845000651 Subunit III/VIb interface [polypeptide binding]; other site 1032845000652 Subunit III/VIa interface; other site 1032845000653 Subunit III/Vb interface [polypeptide binding]; other site 1032845000654 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1032845000655 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1032845000656 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1032845000657 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 1032845000658 trimer interface [polypeptide binding]; other site 1032845000659 active site 1032845000660 substrate binding site [chemical binding]; other site 1032845000661 CoA binding site [chemical binding]; other site 1032845000662 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 1032845000663 Transglycosylase; Region: Transgly; pfam00912 1032845000664 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1032845000665 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1032845000666 Autotransporter beta-domain; Region: Autotransporter; smart00869 1032845000667 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 1032845000668 Ligand Binding Site [chemical binding]; other site 1032845000669 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1032845000670 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1032845000671 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1032845000672 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 1032845000673 catalytic loop [active] 1032845000674 iron binding site [ion binding]; other site 1032845000675 chaperone protein HscA; Provisional; Region: hscA; PRK01433 1032845000676 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1032845000677 nucleotide binding site [chemical binding]; other site 1032845000678 co-chaperone HscB; Provisional; Region: hscB; PRK01356 1032845000679 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 1032845000680 HSP70 interaction site [polypeptide binding]; other site 1032845000681 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1032845000682 RNA/DNA hybrid binding site [nucleotide binding]; other site 1032845000683 active site 1032845000684 excinuclease ABC subunit B; Provisional; Region: PRK05298 1032845000685 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 1032845000686 ATP binding site [chemical binding]; other site 1032845000687 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 1032845000688 nucleotide binding region [chemical binding]; other site 1032845000689 ATP-binding site [chemical binding]; other site 1032845000690 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1032845000691 UvrB/uvrC motif; Region: UVR; pfam02151 1032845000692 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 1032845000693 GSH binding site [chemical binding]; other site 1032845000694 catalytic residues [active] 1032845000695 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1032845000696 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1032845000697 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1032845000698 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1032845000699 Walker A/P-loop; other site 1032845000700 ATP binding site [chemical binding]; other site 1032845000701 Q-loop/lid; other site 1032845000702 ABC transporter signature motif; other site 1032845000703 Walker B; other site 1032845000704 D-loop; other site 1032845000705 H-loop/switch region; other site 1032845000706 DNA gyrase subunit A; Validated; Region: PRK05560 1032845000707 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 1032845000708 CAP-like domain; other site 1032845000709 active site 1032845000710 primary dimer interface [polypeptide binding]; other site 1032845000711 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1032845000712 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1032845000713 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1032845000714 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1032845000715 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1032845000716 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1032845000717 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1032845000718 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1032845000719 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1032845000720 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 1032845000721 active site 1032845000722 catalytic residues [active] 1032845000723 metal binding site [ion binding]; metal-binding site 1032845000724 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1032845000725 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1032845000726 putative active site [active] 1032845000727 substrate binding site [chemical binding]; other site 1032845000728 putative cosubstrate binding site; other site 1032845000729 catalytic site [active] 1032845000730 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1032845000731 substrate binding site [chemical binding]; other site 1032845000732 potential frameshift: common BLAST hit: gi|157826977|ref|YP_001496041.1| capsular polysaccharide biosynthesis protein 1032845000733 Predicted ATPase [General function prediction only]; Region: COG1485 1032845000734 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 1032845000735 Walker A motif; other site 1032845000736 ATP binding site [chemical binding]; other site 1032845000737 Walker B motif; other site 1032845000738 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 1032845000739 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1032845000740 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 1032845000741 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1032845000742 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1032845000743 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1032845000744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845000745 Walker A/P-loop; other site 1032845000746 ATP binding site [chemical binding]; other site 1032845000747 Q-loop/lid; other site 1032845000748 ABC transporter signature motif; other site 1032845000749 Walker B; other site 1032845000750 D-loop; other site 1032845000751 H-loop/switch region; other site 1032845000752 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 1032845000753 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1032845000754 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1032845000755 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1032845000756 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 1032845000757 toxin-antitoxin system, toxin component, Txe/YoeB family; Region: toxin_Txe_YoeB; TIGR02116 1032845000758 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1032845000759 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1032845000760 putative metal binding site; other site 1032845000761 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1032845000762 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1032845000763 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1032845000764 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1032845000765 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1032845000766 ATP binding site [chemical binding]; other site 1032845000767 active site 1032845000768 substrate binding site [chemical binding]; other site 1032845000769 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1032845000770 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 1032845000771 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1032845000772 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 1032845000773 active site 1032845000774 dimer interface [polypeptide binding]; other site 1032845000775 motif 1; other site 1032845000776 motif 2; other site 1032845000777 motif 3; other site 1032845000778 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 1032845000779 anticodon binding site; other site 1032845000780 potential frameshift: common BLAST hit: gi|67459373|ref|YP_246997.1| ABC-type multidrug transport system, ATPase and permease components 1032845000781 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845000782 Walker A/P-loop; other site 1032845000783 ATP binding site [chemical binding]; other site 1032845000784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845000785 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1032845000786 ABC transporter signature motif; other site 1032845000787 Walker B; other site 1032845000788 D-loop; other site 1032845000789 H-loop/switch region; other site 1032845000790 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 1032845000791 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 1032845000792 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 1032845000793 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 1032845000794 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1032845000795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1032845000796 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 1032845000797 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1032845000798 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1032845000799 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 1032845000800 ATP binding site [chemical binding]; other site 1032845000801 Mg2+ binding site [ion binding]; other site 1032845000802 G-X-G motif; other site 1032845000803 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 1032845000804 anchoring element; other site 1032845000805 dimer interface [polypeptide binding]; other site 1032845000806 ATP binding site [chemical binding]; other site 1032845000807 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 1032845000808 active site 1032845000809 metal binding site [ion binding]; metal-binding site 1032845000810 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1032845000811 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1032845000812 C-terminal peptidase (prc); Region: prc; TIGR00225 1032845000813 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 1032845000814 protein binding site [polypeptide binding]; other site 1032845000815 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1032845000816 Catalytic dyad [active] 1032845000817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1032845000818 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 1032845000819 dimer interface [polypeptide binding]; other site 1032845000820 phosphorylation site [posttranslational modification] 1032845000821 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 1032845000822 ATP binding site [chemical binding]; other site 1032845000823 Mg2+ binding site [ion binding]; other site 1032845000824 G-X-G motif; other site 1032845000825 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1032845000826 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 1032845000827 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1032845000828 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1032845000829 Trp docking motif [polypeptide binding]; other site 1032845000830 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 1032845000831 23S rRNA interface [nucleotide binding]; other site 1032845000832 L3 interface [polypeptide binding]; other site 1032845000833 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1032845000834 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1032845000835 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1032845000836 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 1032845000837 aromatic arch; other site 1032845000838 DCoH dimer interaction site [polypeptide binding]; other site 1032845000839 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1032845000840 DCoH tetramer interaction site [polypeptide binding]; other site 1032845000841 substrate binding site [chemical binding]; other site 1032845000842 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 1032845000843 putative active site [active] 1032845000844 Ap4A binding site [chemical binding]; other site 1032845000845 nudix motif; other site 1032845000846 putative metal binding site [ion binding]; other site 1032845000847 response regulator PleD; Reviewed; Region: pleD; PRK09581 1032845000848 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 1032845000849 active site 1032845000850 phosphorylation site [posttranslational modification] 1032845000851 intermolecular recognition site; other site 1032845000852 dimerization interface [polypeptide binding]; other site 1032845000853 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 1032845000854 active site 1032845000855 phosphorylation site [posttranslational modification] 1032845000856 intermolecular recognition site; other site 1032845000857 dimerization interface [polypeptide binding]; other site 1032845000858 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1032845000859 metal binding site [ion binding]; metal-binding site 1032845000860 active site 1032845000861 I-site; other site 1032845000862 elongation factor P; Validated; Region: PRK00529 1032845000863 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1032845000864 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 1032845000865 RNA binding site [nucleotide binding]; other site 1032845000866 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 1032845000867 RNA binding site [nucleotide binding]; other site 1032845000868 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1032845000869 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 1032845000870 active site 1032845000871 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 1032845000872 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1032845000873 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1032845000874 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1032845000875 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1032845000876 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1032845000877 HlyD family secretion protein; Region: HlyD_3; pfam13437 1032845000878 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1032845000879 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1032845000880 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 1032845000881 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1032845000882 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1032845000883 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1032845000884 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1032845000885 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1032845000886 FAD binding domain; Region: FAD_binding_4; pfam01565 1032845000887 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1032845000888 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1032845000889 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1032845000890 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1032845000891 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1032845000892 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1032845000893 Cell division protein FtsQ; Region: FtsQ; pfam03799 1032845000894 cell division protein FtsA; Region: ftsA; TIGR01174 1032845000895 Cell division protein FtsA; Region: FtsA; smart00842 1032845000896 Cell division protein FtsA; Region: FtsA; pfam14450 1032845000897 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1032845000898 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1032845000899 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1032845000900 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1032845000901 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 1032845000902 RNA binding site [nucleotide binding]; other site 1032845000903 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 1032845000904 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1032845000905 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1032845000906 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1032845000907 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1032845000908 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 1032845000909 RNA binding surface [nucleotide binding]; other site 1032845000910 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1032845000911 active site 1032845000912 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1032845000913 Beta-lactamase; Region: Beta-lactamase; pfam00144 1032845000914 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 1032845000915 putative catalytic site [active] 1032845000916 putative phosphate binding site [ion binding]; other site 1032845000917 active site 1032845000918 metal binding site A [ion binding]; metal-binding site 1032845000919 DNA binding site [nucleotide binding] 1032845000920 putative AP binding site [nucleotide binding]; other site 1032845000921 putative metal binding site B [ion binding]; other site 1032845000922 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1032845000923 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 1032845000924 tetramer interface [polypeptide binding]; other site 1032845000925 TPP-binding site [chemical binding]; other site 1032845000926 heterodimer interface [polypeptide binding]; other site 1032845000927 phosphorylation loop region [posttranslational modification] 1032845000928 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1032845000929 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 1032845000930 alpha subunit interface [polypeptide binding]; other site 1032845000931 TPP binding site [chemical binding]; other site 1032845000932 heterodimer interface [polypeptide binding]; other site 1032845000933 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1032845000934 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1032845000935 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1032845000936 G1 box; other site 1032845000937 putative GEF interaction site [polypeptide binding]; other site 1032845000938 GTP/Mg2+ binding site [chemical binding]; other site 1032845000939 Switch I region; other site 1032845000940 G2 box; other site 1032845000941 G3 box; other site 1032845000942 Switch II region; other site 1032845000943 G4 box; other site 1032845000944 G5 box; other site 1032845000945 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 1032845000946 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 1032845000947 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 1032845000948 isocitrate dehydrogenase; Validated; Region: PRK09222 1032845000949 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1032845000950 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1032845000951 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 1032845000952 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 1032845000953 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1032845000954 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 1032845000955 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1032845000956 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1032845000957 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 1032845000958 [2Fe-2S] cluster binding site [ion binding]; other site 1032845000959 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 1032845000960 Qi binding site; other site 1032845000961 cytochrome b; Provisional; Region: CYTB; MTH00191 1032845000962 intrachain domain interface; other site 1032845000963 interchain domain interface [polypeptide binding]; other site 1032845000964 heme bH binding site [chemical binding]; other site 1032845000965 heme bL binding site [chemical binding]; other site 1032845000966 Qo binding site; other site 1032845000967 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 1032845000968 interchain domain interface [polypeptide binding]; other site 1032845000969 intrachain domain interface; other site 1032845000970 Qi binding site; other site 1032845000971 Qo binding site; other site 1032845000972 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1032845000973 catalytic site [active] 1032845000974 metal binding site [ion binding]; metal-binding site 1032845000975 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1032845000976 Cytochrome c; Region: Cytochrom_C; cl11414 1032845000977 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1032845000978 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 1032845000979 putative dimer interface [polypeptide binding]; other site 1032845000980 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1032845000981 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1032845000982 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1032845000983 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1032845000984 RF-1 domain; Region: RF-1; pfam00472 1032845000985 GTP-binding protein LepA; Provisional; Region: PRK05433 1032845000986 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1032845000987 G1 box; other site 1032845000988 putative GEF interaction site [polypeptide binding]; other site 1032845000989 GTP/Mg2+ binding site [chemical binding]; other site 1032845000990 Switch I region; other site 1032845000991 G2 box; other site 1032845000992 G3 box; other site 1032845000993 Switch II region; other site 1032845000994 G4 box; other site 1032845000995 G5 box; other site 1032845000996 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 1032845000997 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 1032845000998 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1032845000999 potential protein location (hypothetical protein Rh054_02095 [Rickettsia heilongjiangensis 054]) that overlaps RNA (tRNA-N) 1032845001000 Phage capsid family; Region: Phage_capsid; pfam05065 1032845001001 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1032845001002 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1032845001003 potential frameshift: common BLAST hit: gi|67458839|ref|YP_246463.1| NACHT domain-containing protein 1032845001004 HD domain; Region: HD_4; pfam13328 1032845001005 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1032845001006 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1032845001007 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1032845001008 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1032845001009 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 1032845001010 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1032845001011 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1032845001012 oligomeric interface; other site 1032845001013 homodimer interface [polypeptide binding]; other site 1032845001014 putative active site [active] 1032845001015 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 1032845001016 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1032845001017 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 1032845001018 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1032845001019 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1032845001020 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1032845001021 VirB7 interaction site; other site 1032845001022 VirB8 protein; Region: VirB8; cl01500 1032845001023 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 1032845001024 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1032845001025 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1032845001026 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1032845001027 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 1032845001028 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 1032845001029 Walker A motif; other site 1032845001030 hexamer interface [polypeptide binding]; other site 1032845001031 ATP binding site [chemical binding]; other site 1032845001032 Walker B motif; other site 1032845001033 type IV secretion system component VirD4; Provisional; Region: PRK13897 1032845001034 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 1032845001035 Walker A motif; other site 1032845001036 ATP binding site [chemical binding]; other site 1032845001037 Walker B motif; other site 1032845001038 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1032845001039 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1032845001040 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1032845001041 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1032845001042 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1032845001043 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1032845001044 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 1032845001045 active site 1032845001046 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1032845001047 MutS domain I; Region: MutS_I; pfam01624 1032845001048 MutS domain II; Region: MutS_II; pfam05188 1032845001049 MutS domain III; Region: MutS_III; pfam05192 1032845001050 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1032845001051 Walker A/P-loop; other site 1032845001052 ATP binding site [chemical binding]; other site 1032845001053 Q-loop/lid; other site 1032845001054 ABC transporter signature motif; other site 1032845001055 Walker B; other site 1032845001056 D-loop; other site 1032845001057 H-loop/switch region; other site 1032845001058 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1032845001059 Peptidase family M23; Region: Peptidase_M23; pfam01551 1032845001060 Protein of unknown function DUF45; Region: DUF45; pfam01863 1032845001061 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1032845001062 translocation protein TolB; Provisional; Region: tolB; PRK05137 1032845001063 TolB amino-terminal domain; Region: TolB_N; pfam04052 1032845001064 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1032845001065 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1032845001066 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1032845001067 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1032845001068 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1032845001069 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 1032845001070 DNA binding residues [nucleotide binding] 1032845001071 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1032845001072 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1032845001073 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 1032845001074 Ligand Binding Site [chemical binding]; other site 1032845001075 amino acid transporter; Region: 2A0306; TIGR00909 1032845001076 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1032845001077 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 1032845001078 dimer interface [polypeptide binding]; other site 1032845001079 motif 1; other site 1032845001080 active site 1032845001081 motif 2; other site 1032845001082 motif 3; other site 1032845001083 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 1032845001084 anticodon binding site; other site 1032845001085 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1032845001086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1032845001087 potential frameshift: common BLAST hit: gi|157827460|ref|YP_001496524.1| ABC transporter ATP-binding protein 1032845001088 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1032845001089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845001090 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1032845001091 ABC transporter signature motif; other site 1032845001092 Walker B; other site 1032845001093 TolQ protein; Region: tolQ; TIGR02796 1032845001094 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1032845001095 TolR protein; Region: tolR; TIGR02801 1032845001096 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1032845001097 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1032845001098 HD domain; Region: HD_4; pfam13328 1032845001099 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 1032845001100 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845001101 putative substrate translocation pore; other site 1032845001102 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1032845001103 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 1032845001104 HlyD family secretion protein; Region: HlyD_3; pfam13437 1032845001105 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1032845001106 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1032845001107 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1032845001108 Walker A/P-loop; other site 1032845001109 ATP binding site [chemical binding]; other site 1032845001110 Q-loop/lid; other site 1032845001111 ABC transporter signature motif; other site 1032845001112 Walker B; other site 1032845001113 D-loop; other site 1032845001114 H-loop/switch region; other site 1032845001115 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1032845001116 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1032845001117 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 1032845001118 nucleotide binding site/active site [active] 1032845001119 HIT family signature motif; other site 1032845001120 catalytic residue [active] 1032845001121 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1032845001122 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1032845001123 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 1032845001124 active site 1032845001125 HslU subunit interaction site [polypeptide binding]; other site 1032845001126 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1032845001127 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 1032845001128 Walker A motif; other site 1032845001129 ATP binding site [chemical binding]; other site 1032845001130 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1032845001131 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1032845001132 potential frameshift: common BLAST hit: gi|91205630|ref|YP_537985.1| Mg chelatase-related protein 1032845001133 potential frameshift: common BLAST hit: gi|67458910|ref|YP_246534.1| Mg chelatase-related protein 1032845001134 potential frameshift: common BLAST hit: gi|165933018|ref|YP_001649807.1| ChlI 1032845001135 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1032845001136 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1032845001137 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1032845001138 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1032845001139 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1032845001140 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1032845001141 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1032845001142 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1032845001143 dimerization interface [polypeptide binding]; other site 1032845001144 frataxin-like protein; Provisional; Region: cyaY; PRK01379 1032845001145 putative iron binding site [ion binding]; other site 1032845001146 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1032845001147 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1032845001148 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1032845001149 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1032845001150 HIGH motif; other site 1032845001151 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1032845001152 active site 1032845001153 KMSKS motif; other site 1032845001154 DNA topoisomerase I; Validated; Region: PRK06599 1032845001155 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 1032845001156 active site 1032845001157 interdomain interaction site; other site 1032845001158 putative metal-binding site [ion binding]; other site 1032845001159 nucleotide binding site [chemical binding]; other site 1032845001160 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 1032845001161 domain I; other site 1032845001162 DNA binding groove [nucleotide binding] 1032845001163 phosphate binding site [ion binding]; other site 1032845001164 domain II; other site 1032845001165 domain III; other site 1032845001166 nucleotide binding site [chemical binding]; other site 1032845001167 catalytic site [active] 1032845001168 domain IV; other site 1032845001169 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1032845001170 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1032845001171 potential frameshift: common BLAST hit: gi|67458923|ref|YP_246547.1| putative DNA processing protein DprA 1032845001172 potential frameshift: common BLAST hit: gi|67458923|ref|YP_246547.1| putative DNA processing protein DprA 1032845001173 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1032845001174 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 1032845001175 dimer interface [polypeptide binding]; other site 1032845001176 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1032845001177 catalytic triad [active] 1032845001178 peroxidatic and resolving cysteines [active] 1032845001179 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1032845001180 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 1032845001181 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1032845001182 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1032845001183 Sulfatase; Region: Sulfatase; pfam00884 1032845001184 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1032845001185 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 1032845001186 sequence-specific DNA binding site [nucleotide binding]; other site 1032845001187 salt bridge; other site 1032845001188 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1032845001189 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1032845001190 NADP binding site [chemical binding]; other site 1032845001191 active site 1032845001192 putative substrate binding site [chemical binding]; other site 1032845001193 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1032845001194 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1032845001195 NAD(P) binding site [chemical binding]; other site 1032845001196 homodimer interface [polypeptide binding]; other site 1032845001197 substrate binding site [chemical binding]; other site 1032845001198 active site 1032845001199 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1032845001200 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1032845001201 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 1032845001202 active site 1032845001203 homodimer interface [polypeptide binding]; other site 1032845001204 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1032845001205 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 1032845001206 S-adenosylmethionine binding site [chemical binding]; other site 1032845001207 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1032845001208 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 1032845001209 active site 1032845001210 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1032845001211 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1032845001212 active site 1032845001213 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1032845001214 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1032845001215 HlyD family secretion protein; Region: HlyD_3; pfam13437 1032845001216 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1032845001217 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1032845001218 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1032845001219 catalytic site [active] 1032845001220 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1032845001221 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 1032845001222 putative ADP-binding pocket [chemical binding]; other site 1032845001223 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1032845001224 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1032845001225 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 1032845001226 RNA binding surface [nucleotide binding]; other site 1032845001227 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1032845001228 UbiA prenyltransferase family; Region: UbiA; pfam01040 1032845001229 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1032845001230 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1032845001231 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 1032845001232 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1032845001233 TPR motif; other site 1032845001234 binding surface 1032845001235 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1032845001236 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1032845001237 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1032845001238 RimM N-terminal domain; Region: RimM; pfam01782 1032845001239 PRC-barrel domain; Region: PRC; pfam05239 1032845001240 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1032845001241 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1032845001242 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 1032845001243 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1032845001244 active site 1032845001245 DNA binding site [nucleotide binding] 1032845001246 hypothetical protein; Provisional; Region: PRK14388 1032845001247 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1032845001248 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 1032845001249 putative dimer interface [polypeptide binding]; other site 1032845001250 [2Fe-2S] cluster binding site [ion binding]; other site 1032845001251 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 1032845001252 GIY-YIG motif/motif A; other site 1032845001253 putative active site [active] 1032845001254 putative metal binding site [ion binding]; other site 1032845001255 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1032845001256 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1032845001257 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1032845001258 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1032845001259 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1032845001260 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1032845001261 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1032845001262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1032845001263 potential frameshift: common BLAST hit: gi|67458962|ref|YP_246586.1| Phage uncharacterized protein 1032845001264 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1032845001265 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 1032845001266 active site 1032845001267 DNA binding site [nucleotide binding] 1032845001268 Int/Topo IB signature motif; other site 1032845001269 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 1032845001270 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1032845001271 NAD binding site [chemical binding]; other site 1032845001272 homotetramer interface [polypeptide binding]; other site 1032845001273 homodimer interface [polypeptide binding]; other site 1032845001274 substrate binding site [chemical binding]; other site 1032845001275 active site 1032845001276 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1032845001277 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1032845001278 putative active site [active] 1032845001279 catalytic triad [active] 1032845001280 putative dimer interface [polypeptide binding]; other site 1032845001281 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1032845001282 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1032845001283 amidase catalytic site [active] 1032845001284 Zn binding residues [ion binding]; other site 1032845001285 substrate binding site [chemical binding]; other site 1032845001286 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1032845001287 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 1032845001288 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 1032845001289 TM-ABC transporter signature motif; other site 1032845001290 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1032845001291 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845001292 Walker A/P-loop; other site 1032845001293 ATP binding site [chemical binding]; other site 1032845001294 Q-loop/lid; other site 1032845001295 ABC transporter signature motif; other site 1032845001296 Walker B; other site 1032845001297 D-loop; other site 1032845001298 H-loop/switch region; other site 1032845001299 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 1032845001300 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1032845001301 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 1032845001302 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1032845001303 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1032845001304 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 1032845001305 active site 1032845001306 HIGH motif; other site 1032845001307 KMSKS motif; other site 1032845001308 Predicted permeases [General function prediction only]; Region: COG0679 1032845001309 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1032845001310 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1032845001311 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1032845001312 putative NAD(P) binding site [chemical binding]; other site 1032845001313 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1032845001314 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1032845001315 putative active site [active] 1032845001316 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1032845001317 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845001318 malate dehydrogenase; Reviewed; Region: PRK06223 1032845001319 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1032845001320 NAD(P) binding site [chemical binding]; other site 1032845001321 dimer interface [polypeptide binding]; other site 1032845001322 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1032845001323 substrate binding site [chemical binding]; other site 1032845001324 TLC ATP/ADP transporter; Region: TLC; pfam03219 1032845001325 CTP synthetase; Validated; Region: pyrG; PRK05380 1032845001326 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 1032845001327 Catalytic site [active] 1032845001328 active site 1032845001329 UTP binding site [chemical binding]; other site 1032845001330 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1032845001331 active site 1032845001332 putative oxyanion hole; other site 1032845001333 catalytic triad [active] 1032845001334 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1032845001335 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1032845001336 Ligand binding site; other site 1032845001337 oligomer interface; other site 1032845001338 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1032845001339 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1032845001340 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1032845001341 GTP cyclohydrolase I; Provisional; Region: PLN03044 1032845001342 active site 1032845001343 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1032845001344 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 1032845001345 dimer interface [polypeptide binding]; other site 1032845001346 motif 1; other site 1032845001347 active site 1032845001348 motif 2; other site 1032845001349 motif 3; other site 1032845001350 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 1032845001351 anticodon binding site; other site 1032845001352 Fic family protein [Function unknown]; Region: COG3177 1032845001353 Fic/DOC family; Region: Fic; pfam02661 1032845001354 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1032845001355 RuvA N terminal domain; Region: RuvA_N; pfam01330 1032845001356 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1032845001357 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 1032845001358 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 1032845001359 Walker A motif; other site 1032845001360 ATP binding site [chemical binding]; other site 1032845001361 Walker B motif; other site 1032845001362 arginine finger; other site 1032845001363 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1032845001364 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1032845001365 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1032845001366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845001367 Walker A/P-loop; other site 1032845001368 ATP binding site [chemical binding]; other site 1032845001369 Q-loop/lid; other site 1032845001370 ABC transporter signature motif; other site 1032845001371 Walker B; other site 1032845001372 D-loop; other site 1032845001373 H-loop/switch region; other site 1032845001374 muropeptide transporter; Validated; Region: ampG; cl17669 1032845001375 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1032845001376 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1032845001377 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1032845001378 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845001379 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1032845001380 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1032845001381 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1032845001382 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1032845001383 BON domain; Region: BON; pfam04972 1032845001384 BON domain; Region: BON; pfam04972 1032845001385 Intracellular septation protein A [Cell division and chromosome partitioning]; Region: COG2917 1032845001386 Iron permease FTR1 family; Region: FTR1; cl00475 1032845001387 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1032845001388 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1032845001389 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1032845001390 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 1032845001391 active site 1032845001392 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 1032845001393 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1032845001394 catalytic residues [active] 1032845001395 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1032845001396 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1032845001397 tandem repeat interface [polypeptide binding]; other site 1032845001398 oligomer interface [polypeptide binding]; other site 1032845001399 active site residues [active] 1032845001400 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1032845001401 trimer interface [polypeptide binding]; other site 1032845001402 active site 1032845001403 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1032845001404 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 1032845001405 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1032845001406 catalytic residue [active] 1032845001407 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1032845001408 dimer interface [polypeptide binding]; other site 1032845001409 catalytic triad [active] 1032845001410 Rickettsial palindromic element RPE4 domain; Region: RPE4; TIGR03777 1032845001411 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1032845001412 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1032845001413 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1032845001414 catalytic triad [active] 1032845001415 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 1032845001416 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 1032845001417 Subunit I/III interface [polypeptide binding]; other site 1032845001418 D-pathway; other site 1032845001419 Subunit I/VIIc interface [polypeptide binding]; other site 1032845001420 Subunit I/IV interface [polypeptide binding]; other site 1032845001421 Subunit I/II interface [polypeptide binding]; other site 1032845001422 Low-spin heme (heme a) binding site [chemical binding]; other site 1032845001423 Subunit I/VIIa interface [polypeptide binding]; other site 1032845001424 Subunit I/VIa interface [polypeptide binding]; other site 1032845001425 Dimer interface; other site 1032845001426 Putative water exit pathway; other site 1032845001427 Binuclear center (heme a3/CuB) [ion binding]; other site 1032845001428 K-pathway; other site 1032845001429 Subunit I/Vb interface [polypeptide binding]; other site 1032845001430 Putative proton exit pathway; other site 1032845001431 Subunit I/VIb interface; other site 1032845001432 Subunit I/VIc interface [polypeptide binding]; other site 1032845001433 Electron transfer pathway; other site 1032845001434 Subunit I/VIIIb interface [polypeptide binding]; other site 1032845001435 Subunit I/VIIb interface [polypeptide binding]; other site 1032845001436 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1032845001437 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845001438 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1032845001439 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 1032845001440 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1032845001441 Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]; Region: TagD; COG0615 1032845001442 active site 1032845001443 HIGH motif; other site 1032845001444 nucleotide binding site [chemical binding]; other site 1032845001445 putative peptidase; Provisional; Region: PRK11649 1032845001446 Peptidase family M23; Region: Peptidase_M23; pfam01551 1032845001447 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1032845001448 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1032845001449 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1032845001450 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 1032845001451 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1032845001452 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1032845001453 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1032845001454 cell division protein FtsW; Region: ftsW; TIGR02614 1032845001455 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1032845001456 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 1032845001457 active site 1032845001458 homodimer interface [polypeptide binding]; other site 1032845001459 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1032845001460 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1032845001461 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1032845001462 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1032845001463 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1032845001464 potential frameshift: common BLAST hit: gi|67459034|ref|YP_246658.1| RND family transporter membrane-fusion protein 1032845001465 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1032845001466 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 1032845001467 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1032845001468 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1032845001469 diaminopimelate epimerase; Region: DapF; TIGR00652 1032845001470 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1032845001471 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1032845001472 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1032845001473 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1032845001474 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 1032845001475 FeS/SAM binding site; other site 1032845001476 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1032845001477 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1032845001478 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 1032845001479 dimer interface [polypeptide binding]; other site 1032845001480 motif 1; other site 1032845001481 active site 1032845001482 motif 2; other site 1032845001483 motif 3; other site 1032845001484 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1032845001485 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 1032845001486 putative tRNA-binding site [nucleotide binding]; other site 1032845001487 B3/4 domain; Region: B3_4; pfam03483 1032845001488 tRNA synthetase B5 domain; Region: B5; smart00874 1032845001489 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 1032845001490 dimer interface [polypeptide binding]; other site 1032845001491 motif 1; other site 1032845001492 motif 3; other site 1032845001493 motif 2; other site 1032845001494 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1032845001495 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 1032845001496 DNA polymerase III subunit beta; Validated; Region: PRK05643 1032845001497 putative DNA binding surface [nucleotide binding]; other site 1032845001498 dimer interface [polypeptide binding]; other site 1032845001499 beta-clamp/clamp loader binding surface; other site 1032845001500 beta-clamp/translesion DNA polymerase binding surface; other site 1032845001501 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 1032845001502 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1032845001503 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1032845001504 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1032845001505 HIGH motif; other site 1032845001506 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1032845001507 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1032845001508 active site 1032845001509 KMSKS motif; other site 1032845001510 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1032845001511 tRNA binding surface [nucleotide binding]; other site 1032845001512 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1032845001513 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1032845001514 catalytic site [active] 1032845001515 putative active site [active] 1032845001516 putative substrate binding site [chemical binding]; other site 1032845001517 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1032845001518 Septum formation initiator; Region: DivIC; pfam04977 1032845001519 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1032845001520 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1032845001521 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 1032845001522 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1032845001523 catalytic residue [active] 1032845001524 putative FPP diphosphate binding site; other site 1032845001525 putative FPP binding hydrophobic cleft; other site 1032845001526 dimer interface [polypeptide binding]; other site 1032845001527 putative IPP diphosphate binding site; other site 1032845001528 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1032845001529 HAMP domain; Region: HAMP; pfam00672 1032845001530 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 1032845001531 dimer interface [polypeptide binding]; other site 1032845001532 phosphorylation site [posttranslational modification] 1032845001533 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 1032845001534 ATP binding site [chemical binding]; other site 1032845001535 Mg2+ binding site [ion binding]; other site 1032845001536 G-X-G motif; other site 1032845001537 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1032845001538 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 1032845001539 active site 1032845001540 phosphorylation site [posttranslational modification] 1032845001541 intermolecular recognition site; other site 1032845001542 dimerization interface [polypeptide binding]; other site 1032845001543 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 1032845001544 DNA binding site [nucleotide binding] 1032845001545 branched-chain amino acid aminotransferase; Validated; Region: PRK06606 1032845001546 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1032845001547 homodimer interface [polypeptide binding]; other site 1032845001548 substrate-cofactor binding pocket; other site 1032845001549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1032845001550 catalytic residue [active] 1032845001551 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1032845001552 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1032845001553 dimer interface [polypeptide binding]; other site 1032845001554 active site 1032845001555 catalytic residue [active] 1032845001556 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 1032845001557 SmpB-tmRNA interface; other site 1032845001558 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 1032845001559 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1032845001560 catalytic residues [active] 1032845001561 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1032845001562 CoA binding domain; Region: CoA_binding; pfam02629 1032845001563 CoA-ligase; Region: Ligase_CoA; pfam00549 1032845001564 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1032845001565 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1032845001566 CoA-ligase; Region: Ligase_CoA; pfam00549 1032845001567 potential frameshift: common BLAST hit: gi|229586712|ref|YP_002845213.1| Putative nucleic-acid-binding protein, containing PIN domain 1032845001568 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1032845001569 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1032845001570 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1032845001571 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1032845001572 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1032845001573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1032845001574 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1032845001575 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1032845001576 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1032845001577 Predicted membrane protein [Function unknown]; Region: COG1238 1032845001578 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1032845001579 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 1032845001580 RecR protein; Region: RecR; pfam02132 1032845001581 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 1032845001582 putative active site [active] 1032845001583 putative metal-binding site [ion binding]; other site 1032845001584 tetramer interface [polypeptide binding]; other site 1032845001585 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1032845001586 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1032845001587 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1032845001588 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1032845001589 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1032845001590 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1032845001591 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1032845001592 Predicted permeases [General function prediction only]; Region: COG0679 1032845001593 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1032845001594 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1032845001595 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1032845001596 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1032845001597 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1032845001598 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1032845001599 tetramerization interface [polypeptide binding]; other site 1032845001600 NAD(P) binding site [chemical binding]; other site 1032845001601 catalytic residues [active] 1032845001602 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1032845001603 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 1032845001604 active site 1032845001605 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1032845001606 Part of AAA domain; Region: AAA_19; pfam13245 1032845001607 Family description; Region: UvrD_C_2; pfam13538 1032845001608 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1032845001609 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 1032845001610 tetramer interface [polypeptide binding]; other site 1032845001611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1032845001612 catalytic residue [active] 1032845001613 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1032845001614 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1032845001615 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 1032845001616 Walker A motif; other site 1032845001617 ATP binding site [chemical binding]; other site 1032845001618 Walker B motif; other site 1032845001619 arginine finger; other site 1032845001620 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1032845001621 potential frameshift: common BLAST hit: gi|67459085|ref|YP_246709.1| cell surface antigen Sca3 1032845001622 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 1032845001623 30S subunit binding site; other site 1032845001624 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1032845001625 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 1032845001626 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1032845001627 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1032845001628 homodimer interface [polypeptide binding]; other site 1032845001629 NADP binding site [chemical binding]; other site 1032845001630 substrate binding site [chemical binding]; other site 1032845001631 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1032845001632 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1032845001633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1032845001634 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1032845001635 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1032845001636 potential frameshift: common BLAST hit: gi|157827080|ref|YP_001496144.1| P pilus assembly, fimbrial usher protein 1032845001637 potential frameshift: common BLAST hit: gi|67459098|ref|YP_246722.1| P pilus assembly protein FimD 1032845001638 potential frameshift: common BLAST hit: gi|67459098|ref|YP_246722.1| P pilus assembly protein FimD 1032845001639 Spore Coat Protein U domain; Region: SCPU; pfam05229 1032845001640 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1032845001641 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1032845001642 active site 1032845001643 dimer interface [polypeptide binding]; other site 1032845001644 catalytic residues [active] 1032845001645 effector binding site; other site 1032845001646 R2 peptide binding site; other site 1032845001647 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1032845001648 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1032845001649 dimer interface [polypeptide binding]; other site 1032845001650 putative radical transfer pathway; other site 1032845001651 diiron center [ion binding]; other site 1032845001652 tyrosyl radical; other site 1032845001653 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1032845001654 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1032845001655 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1032845001656 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1032845001657 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 1032845001658 active site 1032845001659 substrate binding site [chemical binding]; other site 1032845001660 metal binding site [ion binding]; metal-binding site 1032845001661 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1032845001662 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845001663 Walker A/P-loop; other site 1032845001664 ATP binding site [chemical binding]; other site 1032845001665 Q-loop/lid; other site 1032845001666 ABC transporter signature motif; other site 1032845001667 Walker B; other site 1032845001668 D-loop; other site 1032845001669 H-loop/switch region; other site 1032845001670 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845001671 OstA-like protein; Region: OstA; pfam03968 1032845001672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1032845001673 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1032845001674 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 1032845001675 putative active site [active] 1032845001676 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 1032845001677 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1032845001678 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1032845001679 oligomer interface [polypeptide binding]; other site 1032845001680 RNA binding site [nucleotide binding]; other site 1032845001681 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1032845001682 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1032845001683 RNase E interface [polypeptide binding]; other site 1032845001684 trimer interface [polypeptide binding]; other site 1032845001685 active site 1032845001686 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 1032845001687 putative nucleic acid binding region [nucleotide binding]; other site 1032845001688 G-X-X-G motif; other site 1032845001689 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 1032845001690 RNA binding site [nucleotide binding]; other site 1032845001691 domain interface; other site 1032845001692 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 1032845001693 16S/18S rRNA binding site [nucleotide binding]; other site 1032845001694 S13e-L30e interaction site [polypeptide binding]; other site 1032845001695 25S rRNA binding site [nucleotide binding]; other site 1032845001696 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK14846 1032845001697 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1032845001698 RNA binding site [nucleotide binding]; other site 1032845001699 active site 1032845001700 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845001701 TLC ATP/ADP transporter; Region: TLC; pfam03219 1032845001702 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 1032845001703 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1032845001704 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 1032845001705 non-specific DNA binding site [nucleotide binding]; other site 1032845001706 salt bridge; other site 1032845001707 sequence-specific DNA binding site [nucleotide binding]; other site 1032845001708 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1032845001709 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1032845001710 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1032845001711 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1032845001712 uncharacterized protein, YfiH family; Region: TIGR00726 1032845001713 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 1032845001714 active site 1032845001715 catalytic residues [active] 1032845001716 metal binding site [ion binding]; metal-binding site 1032845001717 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1032845001718 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1032845001719 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1032845001720 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1032845001721 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1032845001722 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1032845001723 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 1032845001724 GSH binding site (G-site) [chemical binding]; other site 1032845001725 C-terminal domain interface [polypeptide binding]; other site 1032845001726 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1032845001727 N-terminal domain interface [polypeptide binding]; other site 1032845001728 dimer interface [polypeptide binding]; other site 1032845001729 substrate binding pocket (H-site) [chemical binding]; other site 1032845001730 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1032845001731 conserved cys residue [active] 1032845001732 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1032845001733 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1032845001734 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1032845001735 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1032845001736 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1032845001737 potential frameshift: common BLAST hit: gi|157964571|ref|YP_001499395.1| putative esterase of the alpha/beta hydrolase superfamily protein 1032845001738 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1032845001739 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1032845001740 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1032845001741 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 1032845001742 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 1032845001743 Predicted membrane protein [Function unknown]; Region: COG5346 1032845001744 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1032845001745 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1032845001746 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1032845001747 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 1032845001748 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1032845001749 E3 interaction surface; other site 1032845001750 lipoyl attachment site [posttranslational modification]; other site 1032845001751 e3 binding domain; Region: E3_binding; pfam02817 1032845001752 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1032845001753 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1032845001754 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1032845001755 RF-1 domain; Region: RF-1; pfam00472 1032845001756 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1032845001757 DHH family; Region: DHH; pfam01368 1032845001758 DHHA1 domain; Region: DHHA1; pfam02272 1032845001759 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 1032845001760 S-adenosylmethionine binding site [chemical binding]; other site 1032845001761 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1032845001762 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1032845001763 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1032845001764 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 1032845001765 RNA binding site [nucleotide binding]; other site 1032845001766 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 1032845001767 multimer interface [polypeptide binding]; other site 1032845001768 Walker A motif; other site 1032845001769 ATP binding site [chemical binding]; other site 1032845001770 Walker B motif; other site 1032845001771 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1032845001772 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1032845001773 tandem repeat interface [polypeptide binding]; other site 1032845001774 oligomer interface [polypeptide binding]; other site 1032845001775 active site residues [active] 1032845001776 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 1032845001777 IHF - DNA interface [nucleotide binding]; other site 1032845001778 IHF dimer interface [polypeptide binding]; other site 1032845001779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3022 1032845001780 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1032845001781 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 1032845001782 non-specific DNA binding site [nucleotide binding]; other site 1032845001783 salt bridge; other site 1032845001784 sequence-specific DNA binding site [nucleotide binding]; other site 1032845001785 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 1032845001786 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 1032845001787 CMP-binding site; other site 1032845001788 The sites determining sugar specificity; other site 1032845001789 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1032845001790 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 1032845001791 RNA binding site [nucleotide binding]; other site 1032845001792 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 1032845001793 RNA binding site [nucleotide binding]; other site 1032845001794 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 1032845001795 RNA binding site [nucleotide binding]; other site 1032845001796 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 1032845001797 RNA binding site [nucleotide binding]; other site 1032845001798 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 1032845001799 RNA binding site [nucleotide binding]; other site 1032845001800 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 1032845001801 RNA binding site [nucleotide binding]; other site 1032845001802 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1032845001803 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1032845001804 oligomer interface [polypeptide binding]; other site 1032845001805 active site residues [active] 1032845001806 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1032845001807 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 1032845001808 homotetramer interface [polypeptide binding]; other site 1032845001809 FMN binding site [chemical binding]; other site 1032845001810 homodimer contacts [polypeptide binding]; other site 1032845001811 putative active site [active] 1032845001812 putative substrate binding site [chemical binding]; other site 1032845001813 potential frameshift: common BLAST hit: gi|157827377|ref|YP_001496441.1| acetyltransferase 1032845001814 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1032845001815 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1032845001816 Substrate binding site; other site 1032845001817 Mg++ binding site; other site 1032845001818 hypothetical protein; Validated; Region: PRK00110 1032845001819 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1032845001820 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1032845001821 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 1032845001822 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1032845001823 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 1032845001824 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1032845001825 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1032845001826 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 1032845001827 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1032845001828 S-adenosylmethionine binding site [chemical binding]; other site 1032845001829 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1032845001830 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1032845001831 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1032845001832 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1032845001833 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1032845001834 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1032845001835 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1032845001836 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1032845001837 catalytic site [active] 1032845001838 putative active site [active] 1032845001839 putative substrate binding site [chemical binding]; other site 1032845001840 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1032845001841 Uncharacterized conserved protein [Function unknown]; Region: COG1723 1032845001842 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1032845001843 Rickettsial palindromic element RPE2 domain; Region: RPE2; TIGR03774 1032845001844 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1032845001845 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1032845001846 potential frameshift: common BLAST hit: gi|157964645|ref|YP_001499469.1| ankyrin repeat-containing protein 1032845001847 potential frameshift: common BLAST hit: gi|15892625|ref|NP_360339.1| sodium/pantothenate symporter 1032845001848 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1032845001849 dimer interface [polypeptide binding]; other site 1032845001850 catalytic triad [active] 1032845001851 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 1032845001852 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 1032845001853 domain interfaces; other site 1032845001854 active site 1032845001855 AAA domain; Region: AAA_14; pfam13173 1032845001856 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1032845001857 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1032845001858 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1032845001859 active site 1032845001860 HIGH motif; other site 1032845001861 dimer interface [polypeptide binding]; other site 1032845001862 KMSKS motif; other site 1032845001863 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1032845001864 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1032845001865 putative acyl-acceptor binding pocket; other site 1032845001866 Protein required for attachment to host cells; Region: Host_attach; cl02398 1032845001867 RelB antitoxin; Region: RelB; cl01171 1032845001868 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1032845001869 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1032845001870 HemY protein N-terminus; Region: HemY_N; pfam07219 1032845001871 Rickettsial palindromic element RPE2 domain; Region: RPE2; TIGR03774 1032845001872 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1032845001873 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 1032845001874 active site 1032845001875 Lysine efflux permease [General function prediction only]; Region: COG1279 1032845001876 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1032845001877 AmpG-like permease; Region: 2A0125; TIGR00901 1032845001878 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1032845001879 potential frameshift: common BLAST hit: gi|157827788|ref|YP_001496852.1| transposase 1032845001880 potential frameshift: common BLAST hit: gi|67459228|ref|YP_246852.1| lipopolysaccharide 1,2-glucosyltransferase RfaJ 1032845001881 potential frameshift: common BLAST hit: gi|67459228|ref|YP_246852.1| lipopolysaccharide 1,2-glucosyltransferase RfaJ 1032845001882 TLC ATP/ADP transporter; Region: TLC; pfam03219 1032845001883 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1032845001884 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1032845001885 substrate binding pocket [chemical binding]; other site 1032845001886 chain length determination region; other site 1032845001887 substrate-Mg2+ binding site; other site 1032845001888 catalytic residues [active] 1032845001889 aspartate-rich region 1; other site 1032845001890 active site lid residues [active] 1032845001891 aspartate-rich region 2; other site 1032845001892 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1032845001893 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1032845001894 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845001895 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 1032845001896 active site 1032845001897 arginine:agmatin antiporter; Provisional; Region: PRK10644 1032845001898 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1032845001899 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1032845001900 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1032845001901 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1032845001902 trimerization site [polypeptide binding]; other site 1032845001903 active site 1032845001904 cysteine desulfurase; Provisional; Region: PRK14012 1032845001905 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1032845001906 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1032845001907 catalytic residue [active] 1032845001908 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1032845001909 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1032845001910 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1032845001911 catalytic residue [active] 1032845001912 Predicted transcriptional regulator [Transcription]; Region: COG1959 1032845001913 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1032845001914 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1032845001915 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00196 1032845001916 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1032845001917 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 1032845001918 dimer interface [polypeptide binding]; other site 1032845001919 allosteric magnesium binding site [ion binding]; other site 1032845001920 active site 1032845001921 aspartate-rich active site metal binding site; other site 1032845001922 Schiff base residues; other site 1032845001923 primosome assembly protein PriA; Validated; Region: PRK05580 1032845001924 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 1032845001925 ATP binding site [chemical binding]; other site 1032845001926 putative Mg++ binding site [ion binding]; other site 1032845001927 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1032845001928 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 1032845001929 Flavoprotein; Region: Flavoprotein; pfam02441 1032845001930 replicative DNA helicase; Provisional; Region: PRK09165 1032845001931 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1032845001932 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 1032845001933 Walker A motif; other site 1032845001934 ATP binding site [chemical binding]; other site 1032845001935 Walker B motif; other site 1032845001936 DNA binding loops [nucleotide binding] 1032845001937 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1032845001938 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1032845001939 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 1032845001940 RNA binding surface [nucleotide binding]; other site 1032845001941 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1032845001942 active site 1032845001943 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1032845001944 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1032845001945 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1032845001946 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1032845001947 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1032845001948 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1032845001949 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1032845001950 S-adenosylmethionine binding site [chemical binding]; other site 1032845001951 DNA repair protein RadA; Provisional; Region: PRK11823 1032845001952 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1032845001953 Walker A motif/ATP binding site; other site 1032845001954 ATP binding site [chemical binding]; other site 1032845001955 Walker B motif; other site 1032845001956 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1032845001957 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1032845001958 Recombination protein O N terminal; Region: RecO_N; pfam11967 1032845001959 Recombination protein O C terminal; Region: RecO_C; pfam02565 1032845001960 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1032845001961 Glycoprotease family; Region: Peptidase_M22; pfam00814 1032845001962 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1032845001963 translation initiation factor IF-2; Validated; Region: infB; PRK05306 1032845001964 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1032845001965 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1032845001966 G1 box; other site 1032845001967 putative GEF interaction site [polypeptide binding]; other site 1032845001968 GTP/Mg2+ binding site [chemical binding]; other site 1032845001969 Switch I region; other site 1032845001970 G2 box; other site 1032845001971 G3 box; other site 1032845001972 Switch II region; other site 1032845001973 G4 box; other site 1032845001974 G5 box; other site 1032845001975 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 1032845001976 Translation-initiation factor 2; Region: IF-2; pfam11987 1032845001977 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 1032845001978 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1032845001979 NusA N-terminal domain; Region: NusA_N; pfam08529 1032845001980 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 1032845001981 RNA binding site [nucleotide binding]; other site 1032845001982 homodimer interface [polypeptide binding]; other site 1032845001983 NusA-like KH domain; Region: KH_5; pfam13184 1032845001984 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 1032845001985 G-X-X-G motif; other site 1032845001986 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1032845001987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1032845001988 Sm and related proteins; Region: Sm_like; cl00259 1032845001989 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1032845001990 putative oligomer interface [polypeptide binding]; other site 1032845001991 putative RNA binding site [nucleotide binding]; other site 1032845001992 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1032845001993 NAD binding pocket [chemical binding]; other site 1032845001994 Predicted transcriptional regulator [Transcription]; Region: COG1959 1032845001995 Transcriptional regulator; Region: Rrf2; cl17282 1032845001996 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1032845001997 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 1032845001998 RNA binding surface [nucleotide binding]; other site 1032845001999 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1032845002000 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1032845002001 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1032845002002 active site 1032845002003 HIGH motif; other site 1032845002004 dimer interface [polypeptide binding]; other site 1032845002005 KMSKS motif; other site 1032845002006 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 1032845002007 RNA binding surface [nucleotide binding]; other site 1032845002008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 1032845002009 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1032845002010 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1032845002011 Leucine-rich repeats; other site 1032845002012 Substrate binding site [chemical binding]; other site 1032845002013 potential frameshift: common BLAST hit: gi|157826966|ref|YP_001496030.1| guanosine polyphosphate pyrophosphohydrolase/synthetase 1032845002014 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845002015 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845002016 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1032845002017 active site 1032845002018 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1032845002019 MG2 domain; Region: A2M_N; pfam01835 1032845002020 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1032845002021 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 1032845002022 surface patch; other site 1032845002023 thioester region; other site 1032845002024 specificity defining residues; other site 1032845002025 potential frameshift: common BLAST hit: gi|67459282|ref|YP_246906.1| 3-hydroxyacyl-CoA dehydrogenase FadB 1032845002026 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1032845002027 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 1032845002028 substrate binding site [chemical binding]; other site 1032845002029 oxyanion hole (OAH) forming residues; other site 1032845002030 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1032845002031 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1032845002032 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1032845002033 active site 1032845002034 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845002035 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 1032845002036 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1032845002037 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1032845002038 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1032845002039 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 1032845002040 active site 1032845002041 phosphorylation site [posttranslational modification] 1032845002042 intermolecular recognition site; other site 1032845002043 dimerization interface [polypeptide binding]; other site 1032845002044 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 1032845002045 Walker A motif; other site 1032845002046 ATP binding site [chemical binding]; other site 1032845002047 Walker B motif; other site 1032845002048 arginine finger; other site 1032845002049 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1032845002050 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1032845002051 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1032845002052 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1032845002053 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1032845002054 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1032845002055 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1032845002056 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1032845002057 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1032845002058 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1032845002059 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1032845002060 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1032845002061 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 1032845002062 S-adenosylmethionine binding site [chemical binding]; other site 1032845002063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1032845002064 MraZ protein; Region: MraZ; pfam02381 1032845002065 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1032845002066 Na binding site [ion binding]; other site 1032845002067 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1032845002068 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1032845002069 GIY-YIG motif/motif A; other site 1032845002070 active site 1032845002071 catalytic site [active] 1032845002072 putative DNA binding site [nucleotide binding]; other site 1032845002073 metal binding site [ion binding]; metal-binding site 1032845002074 UvrB/uvrC motif; Region: UVR; pfam02151 1032845002075 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1032845002076 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1032845002077 potential frameshift: common BLAST hit: gi|157964712|ref|YP_001499536.1| putative DNA alkylation repair protein 1032845002078 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1032845002079 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1032845002080 DNA binding site [nucleotide binding] 1032845002081 active site 1032845002082 potential frameshift: common BLAST hit: gi|91205217|ref|YP_537572.1| Type I site-specific restriction-modification system, R 1032845002083 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1032845002084 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1032845002085 potential frameshift: common BLAST hit: gi|91205221|ref|YP_537576.1| Type I restriction-modification system, M subunit 1032845002086 potential frameshift: common BLAST hit: gi|91205221|ref|YP_537576.1| Type I restriction-modification system, M subunit 1032845002087 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1032845002088 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 1032845002089 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; cl02529 1032845002090 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 1032845002091 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1032845002092 mannonate dehydratase; Region: uxuA; TIGR00695 1032845002093 HEPN domain; Region: HEPN; cl00824 1032845002094 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1032845002095 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1032845002096 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1032845002097 SEC-C motif; Region: SEC-C; pfam02810 1032845002098 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 1032845002099 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1032845002100 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1032845002101 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1032845002102 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1032845002103 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 1032845002104 hinge; other site 1032845002105 active site 1032845002106 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1032845002107 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 1032845002108 ATP binding site [chemical binding]; other site 1032845002109 Mg2+ binding site [ion binding]; other site 1032845002110 G-X-G motif; other site 1032845002111 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 1032845002112 anchoring element; other site 1032845002113 dimer interface [polypeptide binding]; other site 1032845002114 ATP binding site [chemical binding]; other site 1032845002115 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 1032845002116 active site 1032845002117 putative metal-binding site [ion binding]; other site 1032845002118 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1032845002119 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1032845002120 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 1032845002121 active site 1032845002122 motif I; other site 1032845002123 motif II; other site 1032845002124 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 1032845002125 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1032845002126 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1032845002127 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 1032845002128 Divalent cation transporter; Region: MgtE; pfam01769 1032845002129 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1032845002130 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 1032845002131 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1032845002132 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1032845002133 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1032845002134 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1032845002135 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1032845002136 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 1032845002137 Cu(I) binding site [ion binding]; other site 1032845002138 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1032845002139 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 1032845002140 dimer interface [polypeptide binding]; other site 1032845002141 substrate binding site [chemical binding]; other site 1032845002142 metal binding sites [ion binding]; metal-binding site 1032845002143 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845002144 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1032845002145 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1032845002146 TraX protein; Region: TraX; pfam05857 1032845002147 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1032845002148 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 1032845002149 ssDNA binding site; other site 1032845002150 generic binding surface II; other site 1032845002151 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 1032845002152 ATP binding site [chemical binding]; other site 1032845002153 putative Mg++ binding site [ion binding]; other site 1032845002154 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 1032845002155 nucleotide binding region [chemical binding]; other site 1032845002156 ATP-binding site [chemical binding]; other site 1032845002157 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1032845002158 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1032845002159 potential frameshift: common BLAST hit: gi|67458764|ref|YP_246388.1| tryptophan repressor binding protein 1032845002160 V-type ATP synthase subunit I; Validated; Region: PRK05771 1032845002161 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1032845002162 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 1032845002163 Mg++ binding site [ion binding]; other site 1032845002164 putative catalytic motif [active] 1032845002165 putative substrate binding site [chemical binding]; other site 1032845002166 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1032845002167 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1032845002168 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1032845002169 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1032845002170 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1032845002171 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1032845002172 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1032845002173 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1032845002174 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1032845002175 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1032845002176 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 1032845002177 ATP binding site [chemical binding]; other site 1032845002178 putative Mg++ binding site [ion binding]; other site 1032845002179 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 1032845002180 nucleotide binding region [chemical binding]; other site 1032845002181 ATP-binding site [chemical binding]; other site 1032845002182 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1032845002183 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1032845002184 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 1032845002185 active site residue [active] 1032845002186 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1032845002187 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1032845002188 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 1032845002189 Walker A motif; other site 1032845002190 ATP binding site [chemical binding]; other site 1032845002191 Walker B motif; other site 1032845002192 arginine finger; other site 1032845002193 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 1032845002194 DnaA box-binding interface [nucleotide binding]; other site 1032845002195 Patatin [General function prediction only]; Region: COG3621 1032845002196 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 1032845002197 active site 1032845002198 nucleophile elbow; other site 1032845002199 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1032845002200 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 1032845002201 putative substrate translocation pore; other site 1032845002202 HEPN domain; Region: HEPN; pfam05168 1032845002203 GTP-binding protein YchF; Reviewed; Region: PRK09601 1032845002204 YchF GTPase; Region: YchF; cd01900 1032845002205 G1 box; other site 1032845002206 GTP/Mg2+ binding site [chemical binding]; other site 1032845002207 Switch I region; other site 1032845002208 G2 box; other site 1032845002209 Switch II region; other site 1032845002210 G3 box; other site 1032845002211 G4 box; other site 1032845002212 G5 box; other site 1032845002213 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 1032845002214 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 1032845002215 putative active site [active] 1032845002216 catalytic residue [active] 1032845002217 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1032845002218 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1032845002219 5S rRNA interface [nucleotide binding]; other site 1032845002220 CTC domain interface [polypeptide binding]; other site 1032845002221 L16 interface [polypeptide binding]; other site 1032845002222 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1032845002223 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 1032845002224 FeS/SAM binding site; other site 1032845002225 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1032845002226 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1032845002227 23S rRNA binding site [nucleotide binding]; other site 1032845002228 L21 binding site [polypeptide binding]; other site 1032845002229 L13 binding site [polypeptide binding]; other site 1032845002230 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1032845002231 ribonuclease P; Reviewed; Region: rnpA; PRK01492 1032845002232 ankyrin repeat protein; Provisional; Region: PHA02874 1032845002233 potential frameshift: common BLAST hit: gi|157828796|ref|YP_001495038.1| magnesium and cobalt transport protein CorA 1032845002234 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; cl17270 1032845002235 Phosphotransferase enzyme family; Region: APH; pfam01636 1032845002236 substrate binding site [chemical binding]; other site 1032845002237 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; cl17270 1032845002238 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1032845002239 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 1032845002240 dimerization interface [polypeptide binding]; other site 1032845002241 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 1032845002242 dimer interface [polypeptide binding]; other site 1032845002243 phosphorylation site [posttranslational modification] 1032845002244 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 1032845002245 ATP binding site [chemical binding]; other site 1032845002246 Mg2+ binding site [ion binding]; other site 1032845002247 G-X-G motif; other site 1032845002248 Ribosomal protein S21 [Translation, ribosomal structure and biogenesis]; Region: RpsU; COG0828 1032845002249 Uncharacterized conserved protein [Function unknown]; Region: COG5590 1032845002250 COQ9; Region: COQ9; pfam08511 1032845002251 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1032845002252 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1032845002253 HIGH motif; other site 1032845002254 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1032845002255 active site 1032845002256 KMSKS motif; other site 1032845002257 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1032845002258 tRNA binding surface [nucleotide binding]; other site 1032845002259 anticodon binding site; other site 1032845002260 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1032845002261 TPR motif; other site 1032845002262 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1032845002263 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1032845002264 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1032845002265 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1032845002266 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 1032845002267 carboxyltransferase (CT) interaction site; other site 1032845002268 biotinylation site [posttranslational modification]; other site 1032845002269 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1032845002270 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1032845002271 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1032845002272 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1032845002273 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 1032845002274 putative substrate translocation pore; other site 1032845002275 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1032845002276 putative acyl-acceptor binding pocket; other site 1032845002277 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1032845002278 acyl-activating enzyme (AAE) consensus motif; other site 1032845002279 putative AMP binding site [chemical binding]; other site 1032845002280 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 1032845002281 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1032845002282 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 1032845002283 ABC-ATPase subunit interface; other site 1032845002284 dimer interface [polypeptide binding]; other site 1032845002285 putative PBP binding regions; other site 1032845002286 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1032845002287 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845002288 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 1032845002289 S-adenosylmethionine binding site [chemical binding]; other site 1032845002290 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 1032845002291 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1032845002292 HIGH motif; other site 1032845002293 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1032845002294 active site 1032845002295 KMSKS motif; other site 1032845002296 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845002297 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1032845002298 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1032845002299 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1032845002300 synthetase active site [active] 1032845002301 NTP binding site [chemical binding]; other site 1032845002302 metal binding site [ion binding]; metal-binding site 1032845002303 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1032845002304 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 1032845002305 ring oligomerisation interface [polypeptide binding]; other site 1032845002306 ATP/Mg binding site [chemical binding]; other site 1032845002307 stacking interactions; other site 1032845002308 hinge regions; other site 1032845002309 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 1032845002310 oligomerisation interface [polypeptide binding]; other site 1032845002311 mobile loop; other site 1032845002312 roof hairpin; other site 1032845002313 potential frameshift: common BLAST hit: gi|67458799|ref|YP_246423.1| glycosyltransferase 1032845002314 potential frameshift: common BLAST hit: gi|67458799|ref|YP_246423.1| glycosyltransferase 1032845002315 ribonuclease PH; Reviewed; Region: rph; PRK00173 1032845002316 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1032845002317 hexamer interface [polypeptide binding]; other site 1032845002318 active site 1032845002319 GrpE; Region: GrpE; pfam01025 1032845002320 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 1032845002321 dimer interface [polypeptide binding]; other site 1032845002322 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1032845002323 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1032845002324 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1032845002325 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1032845002326 hypothetical protein; Validated; Region: PRK06620 1032845002327 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845002328 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845002329 potential frameshift: common BLAST hit: gi|67458789|ref|YP_246413.1| MFS type sugar transporter 1032845002330 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1032845002331 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1032845002332 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1032845002333 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1032845002334 alphaNTD - beta interaction site [polypeptide binding]; other site 1032845002335 alphaNTD homodimer interface [polypeptide binding]; other site 1032845002336 alphaNTD - beta' interaction site [polypeptide binding]; other site 1032845002337 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1032845002338 30S ribosomal protein S11; Validated; Region: PRK05309 1032845002339 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1032845002340 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1032845002341 adenylate kinase; Reviewed; Region: adk; PRK00279 1032845002342 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 1032845002343 AMP-binding site [chemical binding]; other site 1032845002344 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1032845002345 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1032845002346 SecY translocase; Region: SecY; pfam00344 1032845002347 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1032845002348 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 1032845002349 23S rRNA binding site [nucleotide binding]; other site 1032845002350 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1032845002351 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1032845002352 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1032845002353 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 1032845002354 5S rRNA interface [nucleotide binding]; other site 1032845002355 23S rRNA interface [nucleotide binding]; other site 1032845002356 L5 interface [polypeptide binding]; other site 1032845002357 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1032845002358 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1032845002359 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1032845002360 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1032845002361 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1032845002362 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1032845002363 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1032845002364 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1032845002365 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1032845002366 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1032845002367 RNA binding site [nucleotide binding]; other site 1032845002368 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1032845002369 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1032845002370 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 1032845002371 L23 interface [polypeptide binding]; other site 1032845002372 trigger factor interaction site; other site 1032845002373 23S rRNA interface [nucleotide binding]; other site 1032845002374 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 1032845002375 23S rRNA interface [nucleotide binding]; other site 1032845002376 5S rRNA interface [nucleotide binding]; other site 1032845002377 putative antibiotic binding site [chemical binding]; other site 1032845002378 L25 interface [polypeptide binding]; other site 1032845002379 L27 interface [polypeptide binding]; other site 1032845002380 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1032845002381 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 1032845002382 G-X-X-G motif; other site 1032845002383 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1032845002384 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 1032845002385 putative translocon binding site; other site 1032845002386 protein-rRNA interface [nucleotide binding]; other site 1032845002387 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1032845002388 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1032845002389 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1032845002390 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1032845002391 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1032845002392 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1032845002393 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1032845002394 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1032845002395 elongation factor Tu; Reviewed; Region: PRK00049 1032845002396 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1032845002397 G1 box; other site 1032845002398 GEF interaction site [polypeptide binding]; other site 1032845002399 GTP/Mg2+ binding site [chemical binding]; other site 1032845002400 Switch I region; other site 1032845002401 G2 box; other site 1032845002402 G3 box; other site 1032845002403 Switch II region; other site 1032845002404 G4 box; other site 1032845002405 G5 box; other site 1032845002406 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 1032845002407 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 1032845002408 Antibiotic Binding Site [chemical binding]; other site 1032845002409 potential protein location (hypothetical protein Rh054_05550 [Rickettsia heilongjiangensis 054]) that overlaps RNA (tRNA-G) 1032845002410 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1032845002411 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1032845002412 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1032845002413 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1032845002414 Class II fumarases; Region: Fumarase_classII; cd01362 1032845002415 active site 1032845002416 tetramer interface [polypeptide binding]; other site 1032845002417 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1032845002418 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1032845002419 putative active site [active] 1032845002420 cell division protein FtsZ; Validated; Region: PRK09330 1032845002421 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 1032845002422 nucleotide binding site [chemical binding]; other site 1032845002423 SulA interaction site; other site 1032845002424 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 1032845002425 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1032845002426 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1032845002427 muropeptide transporter; Validated; Region: ampG; cl17669 1032845002428 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 1032845002429 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1032845002430 ATP binding site [chemical binding]; other site 1032845002431 Mg++ binding site [ion binding]; other site 1032845002432 motif III; other site 1032845002433 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 1032845002434 nucleotide binding region [chemical binding]; other site 1032845002435 ATP-binding site [chemical binding]; other site 1032845002436 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 1032845002437 DNA-binding site [nucleotide binding]; DNA binding site 1032845002438 RNA-binding motif; other site 1032845002439 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1032845002440 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 1032845002441 S-adenosylmethionine binding site [chemical binding]; other site 1032845002442 SurA N-terminal domain; Region: SurA_N_3; cl07813 1032845002443 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1032845002444 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1032845002445 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1032845002446 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 1032845002447 generic binding surface II; other site 1032845002448 generic binding surface I; other site 1032845002449 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1032845002450 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 1032845002451 putative catalytic site [active] 1032845002452 putative phosphate binding site [ion binding]; other site 1032845002453 active site 1032845002454 metal binding site A [ion binding]; metal-binding site 1032845002455 DNA binding site [nucleotide binding] 1032845002456 putative AP binding site [nucleotide binding]; other site 1032845002457 putative metal binding site B [ion binding]; other site 1032845002458 Uncharacterized conserved protein [Function unknown]; Region: COG4095 1032845002459 GTP-binding protein Der; Reviewed; Region: PRK00093 1032845002460 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1032845002461 G1 box; other site 1032845002462 GTP/Mg2+ binding site [chemical binding]; other site 1032845002463 Switch I region; other site 1032845002464 G2 box; other site 1032845002465 Switch II region; other site 1032845002466 G3 box; other site 1032845002467 G4 box; other site 1032845002468 G5 box; other site 1032845002469 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1032845002470 G1 box; other site 1032845002471 GTP/Mg2+ binding site [chemical binding]; other site 1032845002472 Switch I region; other site 1032845002473 G2 box; other site 1032845002474 G3 box; other site 1032845002475 Switch II region; other site 1032845002476 G4 box; other site 1032845002477 G5 box; other site 1032845002478 potential frameshift: common BLAST hit: gi|67458639|ref|YP_246263.1| ATPase 1032845002479 potential frameshift: common BLAST hit: gi|67458639|ref|YP_246263.1| ATPase 1032845002480 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: GRS1; COG0423 1032845002481 ABC1 family; Region: ABC1; cl17513 1032845002482 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1032845002483 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1032845002484 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 1032845002485 S-adenosylmethionine binding site [chemical binding]; other site 1032845002486 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1032845002487 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1032845002488 DNA binding site [nucleotide binding] 1032845002489 catalytic residue [active] 1032845002490 H2TH interface [polypeptide binding]; other site 1032845002491 putative catalytic residues [active] 1032845002492 turnover-facilitating residue; other site 1032845002493 intercalation triad [nucleotide binding]; other site 1032845002494 8OG recognition residue [nucleotide binding]; other site 1032845002495 putative reading head residues; other site 1032845002496 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1032845002497 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1032845002498 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845002499 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1032845002500 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 1032845002501 potential frameshift: common BLAST hit: gi|67458633|ref|YP_246257.1| mannose-1-phosphate guanylyltransferase 1032845002502 potential frameshift: common BLAST hit: gi|157964831|ref|YP_001499655.1| Poly-beta-hydroxyalkanoate depolymerase 1032845002503 potential frameshift: common BLAST hit: gi|67458630|ref|YP_246254.1| Poly-beta-hydroxyalkanoate depolymerase 1032845002504 Protein of unknown function (DUF511); Region: DUF511; cl01114 1032845002505 Protein of unknown function (DUF511); Region: DUF511; cl01114 1032845002506 Protein of unknown function (DUF511); Region: DUF511; cl01114 1032845002507 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1032845002508 active site 1032845002509 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1032845002510 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1032845002511 HIGH motif; other site 1032845002512 active site 1032845002513 KMSKS motif; other site 1032845002514 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1032845002515 tRNA binding surface [nucleotide binding]; other site 1032845002516 anticodon binding site; other site 1032845002517 thymidylate kinase; Validated; Region: tmk; PRK00698 1032845002518 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 1032845002519 TMP-binding site; other site 1032845002520 ATP-binding site [chemical binding]; other site 1032845002521 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845002522 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 1032845002523 UbiA prenyltransferase family; Region: UbiA; pfam01040 1032845002524 potential frameshift: common BLAST hit: gi|67458622|ref|YP_246246.1| transposase 1032845002525 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1032845002526 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1032845002527 active site 1032845002528 HIGH motif; other site 1032845002529 nucleotide binding site [chemical binding]; other site 1032845002530 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1032845002531 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1032845002532 active site 1032845002533 KMSKS motif; other site 1032845002534 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1032845002535 tRNA binding surface [nucleotide binding]; other site 1032845002536 anticodon binding site; other site 1032845002537 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1032845002538 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1032845002539 potential frameshift: common BLAST hit: gi|67458618|ref|YP_246242.1| ATPase 1032845002540 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1032845002541 RmuC family; Region: RmuC; pfam02646 1032845002542 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1032845002543 DoxX-like family; Region: DoxX_3; pfam13781 1032845002544 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 1032845002545 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1032845002546 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1032845002547 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 1032845002548 Walker A motif; other site 1032845002549 ATP binding site [chemical binding]; other site 1032845002550 Walker B motif; other site 1032845002551 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1032845002552 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1032845002553 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1032845002554 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 1032845002555 Ligand Binding Site [chemical binding]; other site 1032845002556 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1032845002557 HicB family; Region: HicB; pfam05534 1032845002558 YcfA-like protein; Region: YcfA; cl00752 1032845002559 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1032845002560 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1032845002561 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845002562 Walker A/P-loop; other site 1032845002563 ATP binding site [chemical binding]; other site 1032845002564 Q-loop/lid; other site 1032845002565 ABC transporter signature motif; other site 1032845002566 Walker B; other site 1032845002567 D-loop; other site 1032845002568 H-loop/switch region; other site 1032845002569 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 1032845002570 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 1032845002571 putative substrate translocation pore; other site 1032845002572 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1032845002573 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1032845002574 FtsX-like permease family; Region: FtsX; pfam02687 1032845002575 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1032845002576 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1032845002577 Walker A/P-loop; other site 1032845002578 ATP binding site [chemical binding]; other site 1032845002579 Q-loop/lid; other site 1032845002580 ABC transporter signature motif; other site 1032845002581 Walker B; other site 1032845002582 D-loop; other site 1032845002583 H-loop/switch region; other site 1032845002584 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1032845002585 Domain of unknown function DUF21; Region: DUF21; pfam01595 1032845002586 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 1032845002587 Transporter associated domain; Region: CorC_HlyC; smart01091 1032845002588 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1032845002589 potential frameshift: common BLAST hit: gi|157826967|ref|YP_001496031.1| TPR repeat-containing protein 1032845002590 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 1032845002591 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1032845002592 Autotransporter beta-domain; Region: Autotransporter; smart00869 1032845002593 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1032845002594 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1032845002595 synthetase active site [active] 1032845002596 NTP binding site [chemical binding]; other site 1032845002597 metal binding site [ion binding]; metal-binding site 1032845002598 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1032845002599 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1032845002600 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1032845002601 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1032845002602 DNA binding residues [nucleotide binding] 1032845002603 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 1032845002604 IHF dimer interface [polypeptide binding]; other site 1032845002605 IHF - DNA interface [nucleotide binding]; other site 1032845002606 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1032845002607 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1032845002608 catalytic triad [active] 1032845002609 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1032845002610 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1032845002611 putative acyl-acceptor binding pocket; other site 1032845002612 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1032845002613 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1032845002614 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1032845002615 Peptidase family M23; Region: Peptidase_M23; pfam01551 1032845002616 Protein of unknown function (DUF519); Region: DUF519; pfam04378 1032845002617 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1032845002618 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 1032845002619 nucleotide binding pocket [chemical binding]; other site 1032845002620 K-X-D-G motif; other site 1032845002621 catalytic site [active] 1032845002622 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1032845002623 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1032845002624 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 1032845002625 Dimer interface [polypeptide binding]; other site 1032845002626 BRCT sequence motif; other site 1032845002627 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1032845002628 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1032845002629 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1032845002630 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1032845002631 HD domain; Region: HD_4; pfam13328 1032845002632 potential frameshift: common BLAST hit: gi|91205620|ref|YP_537975.1| proline/betaine transporter 1032845002633 potential frameshift: common BLAST hit: gi|67458578|ref|YP_246202.1| proline/betaine transporter 1032845002634 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1032845002635 mce related protein; Region: MCE; pfam02470 1032845002636 hypothetical protein; Provisional; Region: PRK06630 1032845002637 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1032845002638 RNA/DNA hybrid binding site [nucleotide binding]; other site 1032845002639 active site 1032845002640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1032845002641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1032845002642 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1032845002643 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 1032845002644 CoA-binding site [chemical binding]; other site 1032845002645 ATP-binding [chemical binding]; other site 1032845002646 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1032845002647 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 1032845002648 active site 1032845002649 catalytic site [active] 1032845002650 substrate binding site [chemical binding]; other site 1032845002651 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 1032845002652 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1032845002653 Part of AAA domain; Region: AAA_19; pfam13245 1032845002654 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1032845002655 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1032845002656 Family description; Region: UvrD_C_2; pfam13538 1032845002657 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1032845002658 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1032845002659 potential frameshift: common BLAST hit: gi|67458557|ref|YP_246181.1| superfamily I DNA/RNA helicase 1032845002660 potential frameshift: common BLAST hit: gi|67458557|ref|YP_246181.1| superfamily I DNA/RNA helicase 1032845002661 Part of AAA domain; Region: AAA_19; pfam13245 1032845002662 acetyl-CoA acetyltransferase; Provisional; Region: PRK06633 1032845002663 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 1032845002664 dimer interface [polypeptide binding]; other site 1032845002665 active site 1032845002666 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1032845002667 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1032845002668 potential frameshift: common BLAST hit: gi|238650631|ref|YP_002916483.1| Poly-beta-hydroxybutyrate polymerase 1032845002669 TLC ATP/ADP transporter; Region: TLC; pfam03219 1032845002670 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 1032845002671 nudix motif; other site 1032845002672 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1032845002673 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 1032845002674 Transporter associated domain; Region: CorC_HlyC; smart01091 1032845002675 metal-binding heat shock protein; Provisional; Region: PRK00016 1032845002676 lipoyl synthase; Provisional; Region: PRK05481 1032845002677 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 1032845002678 FeS/SAM binding site; other site 1032845002679 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1032845002680 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 1032845002681 dimer interface [polypeptide binding]; other site 1032845002682 active site 1032845002683 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1032845002684 folate binding site [chemical binding]; other site 1032845002685 Predicted esterase [General function prediction only]; Region: COG0400 1032845002686 putative hydrolase; Provisional; Region: PRK11460 1032845002687 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 1032845002688 putative GSH binding site [chemical binding]; other site 1032845002689 catalytic residues [active] 1032845002690 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1032845002691 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1032845002692 minor groove reading motif; other site 1032845002693 helix-hairpin-helix signature motif; other site 1032845002694 substrate binding pocket [chemical binding]; other site 1032845002695 active site 1032845002696 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1032845002697 Ycf1; Provisional; Region: ycf1; CHL00204 1032845002698 Predicted small secreted protein [Function unknown]; Region: COG5510 1032845002699 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1032845002700 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1032845002701 Predicted methyltransferases [General function prediction only]; Region: COG0313 1032845002702 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1032845002703 putative SAM binding site [chemical binding]; other site 1032845002704 putative homodimer interface [polypeptide binding]; other site 1032845002705 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1032845002706 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1032845002707 putative ligand binding site [chemical binding]; other site 1032845002708 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 1032845002709 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1032845002710 tetramer interfaces [polypeptide binding]; other site 1032845002711 binuclear metal-binding site [ion binding]; other site 1032845002712 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1032845002713 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1032845002714 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1032845002715 aspartate kinase; Reviewed; Region: PRK06635 1032845002716 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1032845002717 putative nucleotide binding site [chemical binding]; other site 1032845002718 putative catalytic residues [active] 1032845002719 putative Mg ion binding site [ion binding]; other site 1032845002720 putative aspartate binding site [chemical binding]; other site 1032845002721 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 1032845002722 putative allosteric regulatory residue; other site 1032845002723 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1032845002724 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1032845002725 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1032845002726 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 1032845002727 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845002728 putative substrate translocation pore; other site 1032845002729 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1032845002730 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845002731 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1032845002732 Helix-turn-helix domain; Region: HTH_25; pfam13413 1032845002733 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 1032845002734 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1032845002735 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1032845002736 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1032845002737 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1032845002738 G1 box; other site 1032845002739 GTP/Mg2+ binding site [chemical binding]; other site 1032845002740 Switch I region; other site 1032845002741 G2 box; other site 1032845002742 Switch II region; other site 1032845002743 G3 box; other site 1032845002744 G4 box; other site 1032845002745 G5 box; other site 1032845002746 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1032845002747 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1032845002748 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1032845002749 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1032845002750 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 1032845002751 recombinase A; Provisional; Region: recA; PRK09354 1032845002752 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 1032845002753 hexamer interface [polypeptide binding]; other site 1032845002754 Walker A motif; other site 1032845002755 ATP binding site [chemical binding]; other site 1032845002756 Walker B motif; other site 1032845002757 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1032845002758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1032845002759 NAD(P) binding site [chemical binding]; other site 1032845002760 active site 1032845002761 acyl carrier protein; Provisional; Region: acpP; PRK00982 1032845002762 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1032845002763 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 1032845002764 dimer interface [polypeptide binding]; other site 1032845002765 active site 1032845002766 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1032845002767 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1032845002768 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1032845002769 AAA domain; Region: AAA_14; pfam13173 1032845002770 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1032845002771 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845002772 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1032845002773 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 1032845002774 catalytic site [active] 1032845002775 G-X2-G-X-G-K; other site 1032845002776 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 1032845002777 sequence-specific DNA binding site [nucleotide binding]; other site 1032845002778 salt bridge; other site 1032845002779 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1032845002780 rod shape-determining protein MreC; Region: MreC; pfam04085 1032845002781 rod shape-determining protein MreB; Provisional; Region: PRK13927 1032845002782 MreB and similar proteins; Region: MreB_like; cd10225 1032845002783 nucleotide binding site [chemical binding]; other site 1032845002784 Mg binding site [ion binding]; other site 1032845002785 putative protofilament interaction site [polypeptide binding]; other site 1032845002786 RodZ interaction site [polypeptide binding]; other site 1032845002787 Predicted permeases [General function prediction only]; Region: COG0795 1032845002788 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1032845002789 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1032845002790 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1032845002791 ligand binding site [chemical binding]; other site 1032845002792 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1032845002793 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1032845002794 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 1032845002795 dimer interface [polypeptide binding]; other site 1032845002796 active site 1032845002797 CoA binding pocket [chemical binding]; other site 1032845002798 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1032845002799 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1032845002800 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1032845002801 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1032845002802 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1032845002803 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 1032845002804 P loop; other site 1032845002805 GTP binding site [chemical binding]; other site 1032845002806 DNA polymerase I; Provisional; Region: PRK05755 1032845002807 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1032845002808 active site 1032845002809 metal binding site 1 [ion binding]; metal-binding site 1032845002810 putative 5' ssDNA interaction site; other site 1032845002811 metal binding site 3; metal-binding site 1032845002812 metal binding site 2 [ion binding]; metal-binding site 1032845002813 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1032845002814 putative DNA binding site [nucleotide binding]; other site 1032845002815 putative metal binding site [ion binding]; other site 1032845002816 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1032845002817 active site 1032845002818 substrate binding site [chemical binding]; other site 1032845002819 catalytic site [active] 1032845002820 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1032845002821 active site 1032845002822 DNA binding site [nucleotide binding] 1032845002823 catalytic site [active] 1032845002824 potential frameshift: common BLAST hit: gi|157826229|ref|YP_001493949.1| S-adenosylmethionine synthetase 1032845002825 potential frameshift: common BLAST hit: gi|157826229|ref|YP_001493949.1| S-adenosylmethionine synthetase 1032845002826 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1032845002827 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1032845002828 putative active site [active] 1032845002829 putative PHP Thumb interface [polypeptide binding]; other site 1032845002830 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 1032845002831 generic binding surface I; other site 1032845002832 generic binding surface II; other site 1032845002833 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1032845002834 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1032845002835 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1032845002836 Protein of unknown function; Region: DUF3971; pfam13116 1032845002837 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1032845002838 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 1032845002839 putative substrate translocation pore; other site 1032845002840 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1032845002841 seryl-tRNA synthetase; Provisional; Region: PRK05431 1032845002842 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1032845002843 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 1032845002844 dimer interface [polypeptide binding]; other site 1032845002845 active site 1032845002846 motif 1; other site 1032845002847 motif 2; other site 1032845002848 motif 3; other site 1032845002849 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1032845002850 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1032845002851 Integral membrane protein TerC family; Region: TerC; cl10468 1032845002852 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1032845002853 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1032845002854 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 1032845002855 S-adenosylmethionine binding site [chemical binding]; other site 1032845002856 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1032845002857 Predicted transcriptional regulator [Transcription]; Region: COG2944 1032845002858 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 1032845002859 salt bridge; other site 1032845002860 non-specific DNA binding site [nucleotide binding]; other site 1032845002861 sequence-specific DNA binding site [nucleotide binding]; other site 1032845002862 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1032845002863 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1032845002864 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1032845002865 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1032845002866 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1032845002867 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1032845002868 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1032845002869 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1032845002870 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 1032845002871 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845002872 Walker A/P-loop; other site 1032845002873 ATP binding site [chemical binding]; other site 1032845002874 Q-loop/lid; other site 1032845002875 ABC transporter signature motif; other site 1032845002876 Walker B; other site 1032845002877 D-loop; other site 1032845002878 H-loop/switch region; other site 1032845002879 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1032845002880 4Fe-4S binding domain; Region: Fer4; cl02805 1032845002881 4Fe-4S binding domain; Region: Fer4; pfam00037 1032845002882 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1032845002883 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1032845002884 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1032845002885 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 1032845002886 catalytic loop [active] 1032845002887 iron binding site [ion binding]; other site 1032845002888 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1032845002889 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 1032845002890 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1032845002891 Predicted membrane protein [Function unknown]; Region: COG3671 1032845002892 aconitate hydratase; Validated; Region: PRK09277 1032845002893 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1032845002894 substrate binding site [chemical binding]; other site 1032845002895 ligand binding site [chemical binding]; other site 1032845002896 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 1032845002897 substrate binding site [chemical binding]; other site 1032845002898 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 1032845002899 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1032845002900 gamma subunit interface [polypeptide binding]; other site 1032845002901 epsilon subunit interface [polypeptide binding]; other site 1032845002902 LBP interface [polypeptide binding]; other site 1032845002903 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1032845002904 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1032845002905 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 1032845002906 alpha subunit interaction interface [polypeptide binding]; other site 1032845002907 Walker A motif; other site 1032845002908 ATP binding site [chemical binding]; other site 1032845002909 Walker B motif; other site 1032845002910 inhibitor binding site; inhibition site 1032845002911 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1032845002912 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1032845002913 core domain interface [polypeptide binding]; other site 1032845002914 delta subunit interface [polypeptide binding]; other site 1032845002915 epsilon subunit interface [polypeptide binding]; other site 1032845002916 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1032845002917 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1032845002918 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 1032845002919 beta subunit interaction interface [polypeptide binding]; other site 1032845002920 Walker A motif; other site 1032845002921 ATP binding site [chemical binding]; other site 1032845002922 Walker B motif; other site 1032845002923 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1032845002924 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1032845002925 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1032845002926 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1032845002927 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1032845002928 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1032845002929 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1032845002930 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1032845002931 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1032845002932 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1032845002933 Transglycosylase; Region: Transgly; pfam00912 1032845002934 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1032845002935 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1032845002936 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1032845002937 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 1032845002938 FeS/SAM binding site; other site 1032845002939 TRAM domain; Region: TRAM; pfam01938 1032845002940 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1032845002941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1032845002942 Bacterial SH3 domain; Region: SH3_4; pfam06347 1032845002943 Bacterial SH3 domain; Region: SH3_4; pfam06347 1032845002944 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1032845002945 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1032845002946 TrkA-N domain; Region: TrkA_N; pfam02254 1032845002947 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1032845002948 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1032845002949 potential frameshift: common BLAST hit: gi|67459682|ref|YP_247306.1| cell surface antigen-like protein Sca13 1032845002950 potential frameshift: common BLAST hit: gi|67459682|ref|YP_247306.1| cell surface antigen-like protein Sca13 1032845002951 potential frameshift: common BLAST hit: gi|15893184|ref|NP_360898.1| putative cell surface antigen 1032845002952 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 1032845002953 rRNA binding site [nucleotide binding]; other site 1032845002954 predicted 30S ribosome binding site; other site 1032845002955 Maf-like protein; Region: Maf; pfam02545 1032845002956 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 1032845002957 active site 1032845002958 dimer interface [polypeptide binding]; other site 1032845002959 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1032845002960 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1032845002961 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 1032845002962 active site 1032845002963 DNA binding site [nucleotide binding] 1032845002964 Int/Topo IB signature motif; other site 1032845002965 Phasin protein; Region: Phasin_2; pfam09361 1032845002966 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1032845002967 PLD-like domain; Region: PLDc_2; pfam13091 1032845002968 putative active site [active] 1032845002969 catalytic site [active] 1032845002970 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1032845002971 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1032845002972 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1032845002973 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1032845002974 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1032845002975 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1032845002976 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1032845002977 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1032845002978 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1032845002979 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1032845002980 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1032845002981 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 1032845002982 active site 1032845002983 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1032845002984 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1032845002985 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1032845002986 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 1032845002987 Mg++ binding site [ion binding]; other site 1032845002988 putative catalytic motif [active] 1032845002989 putative substrate binding site [chemical binding]; other site 1032845002990 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1032845002991 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1032845002992 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1032845002993 Ferredoxin [Energy production and conversion]; Region: COG1146 1032845002994 4Fe-4S binding domain; Region: Fer4; cl02805 1032845002995 heme exporter protein CcmC; Region: ccmC; TIGR01191 1032845002996 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 1032845002997 nucleoside/Zn binding site; other site 1032845002998 dimer interface [polypeptide binding]; other site 1032845002999 catalytic motif [active] 1032845003000 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1032845003001 Cation efflux family; Region: Cation_efflux; cl00316 1032845003002 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1032845003003 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1032845003004 substrate binding site [chemical binding]; other site 1032845003005 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1032845003006 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1032845003007 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1032845003008 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1032845003009 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1032845003010 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1032845003011 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1032845003012 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 1032845003013 dimer interface [polypeptide binding]; other site 1032845003014 ssDNA binding site [nucleotide binding]; other site 1032845003015 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1032845003016 Phage-related lysozyme (muraminidase) [General function prediction only]; Region: COG3772 1032845003017 hypothetical protein; Reviewed; Region: PRK01530 1032845003018 heat shock protein 90; Provisional; Region: PRK05218 1032845003019 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 1032845003020 ATP binding site [chemical binding]; other site 1032845003021 Mg2+ binding site [ion binding]; other site 1032845003022 G-X-G motif; other site 1032845003023 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1032845003024 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 1032845003025 substrate-cofactor binding pocket; other site 1032845003026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1032845003027 catalytic residue [active] 1032845003028 trigger factor; Provisional; Region: tig; PRK01490 1032845003029 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1032845003030 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1032845003031 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1032845003032 GTP1/OBG; Region: GTP1_OBG; pfam01018 1032845003033 Obg GTPase; Region: Obg; cd01898 1032845003034 G1 box; other site 1032845003035 GTP/Mg2+ binding site [chemical binding]; other site 1032845003036 Switch I region; other site 1032845003037 G2 box; other site 1032845003038 G3 box; other site 1032845003039 Switch II region; other site 1032845003040 G4 box; other site 1032845003041 G5 box; other site 1032845003042 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 1032845003043 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1032845003044 dimer interface [polypeptide binding]; other site 1032845003045 active site 1032845003046 citrylCoA binding site [chemical binding]; other site 1032845003047 NADH binding [chemical binding]; other site 1032845003048 cationic pore residues; other site 1032845003049 oxalacetate/citrate binding site [chemical binding]; other site 1032845003050 coenzyme A binding site [chemical binding]; other site 1032845003051 catalytic triad [active] 1032845003052 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1032845003053 Fe-S cluster binding site [ion binding]; other site 1032845003054 active site 1032845003055 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1032845003056 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 1032845003057 RNA binding surface [nucleotide binding]; other site 1032845003058 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1032845003059 active site 1032845003060 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1032845003061 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 1032845003062 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 1032845003063 S-adenosylmethionine binding site [chemical binding]; other site 1032845003064 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1032845003065 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1032845003066 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1032845003067 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 1032845003068 DALR anticodon binding domain; Region: DALR_1; pfam05746 1032845003069 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1032845003070 motif 1; other site 1032845003071 dimer interface [polypeptide binding]; other site 1032845003072 active site 1032845003073 motif 2; other site 1032845003074 motif 3; other site 1032845003075 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1032845003076 oligomeric interface; other site 1032845003077 putative active site [active] 1032845003078 homodimer interface [polypeptide binding]; other site 1032845003079 prevent-host-death family protein; Region: phd_fam; TIGR01552 1032845003080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1032845003081 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 1032845003082 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845003083 putative substrate translocation pore; other site 1032845003084 ADP-specific Phosphofructokinase/Glucokinase conserved region; Region: ADP_PFK_GK; cl14060 1032845003085 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1032845003086 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 1032845003087 motif 1; other site 1032845003088 active site 1032845003089 motif 2; other site 1032845003090 motif 3; other site 1032845003091 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1032845003092 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1032845003093 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1032845003094 dimerization interface 3.5A [polypeptide binding]; other site 1032845003095 active site 1032845003096 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1032845003097 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1032845003098 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1032845003099 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1032845003100 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1032845003101 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 1032845003102 DNA binding residues [nucleotide binding] 1032845003103 DNA primase, catalytic core; Region: dnaG; TIGR01391 1032845003104 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1032845003105 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1032845003106 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 1032845003107 active site 1032845003108 metal binding site [ion binding]; metal-binding site 1032845003109 interdomain interaction site; other site 1032845003110 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1032845003111 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1032845003112 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1032845003113 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1032845003114 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1032845003115 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1032845003116 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1032845003117 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1032845003118 ligand binding site [chemical binding]; other site 1032845003119 homodimer interface [polypeptide binding]; other site 1032845003120 NAD(P) binding site [chemical binding]; other site 1032845003121 trimer interface B [polypeptide binding]; other site 1032845003122 trimer interface A [polypeptide binding]; other site 1032845003123 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1032845003124 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1032845003125 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 1032845003126 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 1032845003127 Walker A motif; other site 1032845003128 ATP binding site [chemical binding]; other site 1032845003129 Walker B motif; other site 1032845003130 arginine finger; other site 1032845003131 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1032845003132 hypothetical protein; Validated; Region: PRK00153 1032845003133 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; cl02529 1032845003134 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1032845003135 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1032845003136 catalytic motif [active] 1032845003137 Catalytic residue [active] 1032845003138 Beta-lactamase; Region: Beta-lactamase; cl17358 1032845003139 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1032845003140 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1032845003141 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1032845003142 Walker A/P-loop; other site 1032845003143 ATP binding site [chemical binding]; other site 1032845003144 Q-loop/lid; other site 1032845003145 ABC transporter signature motif; other site 1032845003146 Walker B; other site 1032845003147 D-loop; other site 1032845003148 H-loop/switch region; other site 1032845003149 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1032845003150 putative hydrolase; Provisional; Region: PRK02113 1032845003151 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 1032845003152 active site 1032845003153 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 1032845003154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1032845003155 Predicted permeases [General function prediction only]; Region: COG0795 1032845003156 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1032845003157 DNA polymerase III subunit chi; Provisional; Region: PRK06646 1032845003158 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1032845003159 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1032845003160 metal binding site [ion binding]; metal-binding site 1032845003161 dimer interface [polypeptide binding]; other site 1032845003162 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1032845003163 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1032845003164 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1032845003165 potential frameshift: common BLAST hit: gi|157827849|ref|YP_001496913.1| Type I restriction-modification system methyltransferase subunit 1032845003166 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1032845003167 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 1032845003168 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1032845003169 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 1032845003170 putative active site [active] 1032845003171 lipoate-protein ligase B; Provisional; Region: PRK14347 1032845003172 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1032845003173 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1032845003174 amidase catalytic site [active] 1032845003175 Zn binding residues [ion binding]; other site 1032845003176 substrate binding site [chemical binding]; other site 1032845003177 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1032845003178 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1032845003179 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 1032845003180 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1032845003181 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 1032845003182 ATP binding site [chemical binding]; other site 1032845003183 Mg2+ binding site [ion binding]; other site 1032845003184 G-X-G motif; other site 1032845003185 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 1032845003186 ATP binding site [chemical binding]; other site 1032845003187 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1032845003188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1032845003189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1032845003190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1032845003191 NAD(P) binding site [chemical binding]; other site 1032845003192 active site 1032845003193 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1032845003194 TPR motif; other site 1032845003195 binding surface 1032845003196 potential frameshift: common BLAST hit: gi|165933928|ref|YP_001650717.1| tetratricopeptide repeat family protein 1032845003197 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 1032845003198 metabolite-proton symporter; Region: 2A0106; TIGR00883 1032845003199 putative substrate translocation pore; other site 1032845003200 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1032845003201 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1032845003202 potential frameshift: common BLAST hit: gi|67459789|ref|YP_247413.1| prophage antirepressor 1032845003203 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1032845003204 ferrochelatase; Reviewed; Region: hemH; PRK00035 1032845003205 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 1032845003206 C-terminal domain interface [polypeptide binding]; other site 1032845003207 active site 1032845003208 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 1032845003209 active site 1032845003210 N-terminal domain interface [polypeptide binding]; other site 1032845003211 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 1032845003212 substrate binding site [chemical binding]; other site 1032845003213 active site