-- dump date 20140620_034841 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1105103000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 1105103000002 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 1105103000003 catalytic residues [active] 1105103000004 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1105103000005 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1105103000006 Walker A/P-loop; other site 1105103000007 ATP binding site [chemical binding]; other site 1105103000008 Q-loop/lid; other site 1105103000009 ABC transporter signature motif; other site 1105103000010 Walker B; other site 1105103000011 D-loop; other site 1105103000012 H-loop/switch region; other site 1105103000013 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1105103000014 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1105103000015 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 1105103000016 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105103000017 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 1105103000018 FAD binding pocket [chemical binding]; other site 1105103000019 FAD binding motif [chemical binding]; other site 1105103000020 phosphate binding motif [ion binding]; other site 1105103000021 beta-alpha-beta structure motif; other site 1105103000022 NAD binding pocket [chemical binding]; other site 1105103000023 Iron coordination center [ion binding]; other site 1105103000024 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 1105103000025 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1105103000026 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 1105103000027 active site 1105103000028 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 1105103000029 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1105103000030 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1105103000031 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 1105103000032 trimer interface [polypeptide binding]; other site 1105103000033 active site 1105103000034 UDP-GlcNAc binding site [chemical binding]; other site 1105103000035 lipid binding site [chemical binding]; lipid-binding site 1105103000036 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1105103000037 active site 1105103000038 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1105103000039 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 1105103000040 glucose-6-phosphate isomerase; Provisional; Region: PTZ00430 1105103000041 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1105103000042 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 1105103000043 FMN binding site [chemical binding]; other site 1105103000044 active site 1105103000045 catalytic residues [active] 1105103000046 substrate binding site [chemical binding]; other site 1105103000047 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 1105103000048 NodB motif; other site 1105103000049 putative active site [active] 1105103000050 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1105103000051 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1105103000052 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 1105103000053 intersubunit interface [polypeptide binding]; other site 1105103000054 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1105103000055 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103000056 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1105103000057 active site 1105103000058 NTP binding site [chemical binding]; other site 1105103000059 metal binding triad [ion binding]; metal-binding site 1105103000060 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1105103000061 Competence protein; Region: Competence; pfam03772 1105103000062 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105103000063 AAA domain; Region: AAA_22; pfam13401 1105103000064 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1105103000065 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105103000066 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 1105103000067 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 1105103000068 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105103000069 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1105103000070 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1105103000071 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 1105103000072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1105103000073 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1105103000074 Thioredoxin; Region: Thioredoxin_4; pfam13462 1105103000075 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1105103000076 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105103000077 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 1105103000078 S-adenosylmethionine binding site [chemical binding]; other site 1105103000079 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105103000080 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1105103000081 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1105103000082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103000083 Walker A/P-loop; other site 1105103000084 ATP binding site [chemical binding]; other site 1105103000085 Q-loop/lid; other site 1105103000086 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103000087 ABC transporter signature motif; other site 1105103000088 Walker B; other site 1105103000089 D-loop; other site 1105103000090 H-loop/switch region; other site 1105103000091 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1105103000092 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1105103000093 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 1105103000094 folate binding site [chemical binding]; other site 1105103000095 NADP+ binding site [chemical binding]; other site 1105103000096 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1105103000097 catalytic center binding site [active] 1105103000098 ATP binding site [chemical binding]; other site 1105103000099 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 1105103000100 substrate binding pocket [chemical binding]; other site 1105103000101 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105103000102 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 1105103000103 Cu(I) binding site [ion binding]; other site 1105103000104 Putative transcriptional regulator [Transcription]; Region: COG1678 1105103000105 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1105103000106 Colicin V production protein; Region: Colicin_V; pfam02674 1105103000107 Autotransporter beta-domain; Region: Autotransporter; smart00869 1105103000108 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 1105103000109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1105103000110 active site 1105103000111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1105103000112 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1105103000113 Clp amino terminal domain; Region: Clp_N; pfam02861 1105103000114 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 1105103000115 Walker A motif; other site 1105103000116 ATP binding site [chemical binding]; other site 1105103000117 Walker B motif; other site 1105103000118 arginine finger; other site 1105103000119 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 1105103000120 Walker A motif; other site 1105103000121 ATP binding site [chemical binding]; other site 1105103000122 Walker B motif; other site 1105103000123 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1105103000124 UGMP family protein; Validated; Region: PRK09604 1105103000125 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1105103000126 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 1105103000127 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1105103000128 Di-iron ligands [ion binding]; other site 1105103000129 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 1105103000130 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105103000131 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; cl17355 1105103000132 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1105103000133 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1105103000134 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1105103000135 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1105103000136 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1105103000137 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1105103000138 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 1105103000139 Ligand Binding Site [chemical binding]; other site 1105103000140 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103000141 FtsH Extracellular; Region: FtsH_ext; pfam06480 1105103000142 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1105103000143 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 1105103000144 Walker A motif; other site 1105103000145 ATP binding site [chemical binding]; other site 1105103000146 Walker B motif; other site 1105103000147 arginine finger; other site 1105103000148 Peptidase family M41; Region: Peptidase_M41; pfam01434 1105103000149 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1105103000150 cofactor binding site; other site 1105103000151 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1105103000152 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1105103000153 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1105103000154 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1105103000155 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103000156 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1105103000157 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1105103000158 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1105103000159 membrane protein insertase; Provisional; Region: PRK01318 1105103000160 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1105103000161 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1105103000162 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 1105103000163 S-adenosylmethionine binding site [chemical binding]; other site 1105103000164 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1105103000165 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 1105103000166 active site 1105103000167 catalytic residues [active] 1105103000168 metal binding site [ion binding]; metal-binding site 1105103000169 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105103000170 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1105103000171 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 1105103000172 putative substrate translocation pore; other site 1105103000173 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 1105103000174 active site 1105103000175 multimer interface [polypeptide binding]; other site 1105103000176 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1105103000177 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1105103000178 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1105103000179 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1105103000180 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1105103000181 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1105103000182 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 1105103000183 P-loop; other site 1105103000184 Magnesium ion binding site [ion binding]; other site 1105103000185 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 1105103000186 Magnesium ion binding site [ion binding]; other site 1105103000187 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1105103000188 ParB-like nuclease domain; Region: ParB; smart00470 1105103000189 KorB domain; Region: KorB; pfam08535 1105103000190 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1105103000191 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105103000192 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105103000193 ABC transporter; Region: ABC_tran_2; pfam12848 1105103000194 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105103000195 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 1105103000196 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 1105103000197 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1105103000198 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1105103000199 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1105103000200 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1105103000201 Zn2+ binding site [ion binding]; other site 1105103000202 Mg2+ binding site [ion binding]; other site 1105103000203 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1105103000204 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1105103000205 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1105103000206 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1105103000207 active site 1105103000208 HIGH motif; other site 1105103000209 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105103000210 KMSK motif region; other site 1105103000211 tRNA binding surface [nucleotide binding]; other site 1105103000212 DALR anticodon binding domain; Region: DALR_1; smart00836 1105103000213 anticodon binding site; other site 1105103000214 Sporulation related domain; Region: SPOR; pfam05036 1105103000215 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1105103000216 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 1105103000217 CAP-like domain; other site 1105103000218 active site 1105103000219 primary dimer interface [polypeptide binding]; other site 1105103000220 Gram-negative porin; Region: Porin_4; pfam13609 1105103000221 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105103000222 trimer interface [polypeptide binding]; other site 1105103000223 active site 1105103000224 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 1105103000225 SecA binding site; other site 1105103000226 Preprotein binding site; other site 1105103000227 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105103000228 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 1105103000229 active site 1105103000230 phosphorylation site [posttranslational modification] 1105103000231 intermolecular recognition site; other site 1105103000232 dimerization interface [polypeptide binding]; other site 1105103000233 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 1105103000234 DNA binding site [nucleotide binding] 1105103000235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1105103000236 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1105103000237 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1105103000238 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 1105103000239 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1105103000240 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1105103000241 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1105103000242 EamA-like transporter family; Region: EamA; pfam00892 1105103000243 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1105103000244 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 1105103000245 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105103000246 putative substrate translocation pore; other site 1105103000247 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1105103000248 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105103000249 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1105103000250 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105103000251 active site 1105103000252 HIGH motif; other site 1105103000253 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105103000254 KMSKS motif; other site 1105103000255 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105103000256 tRNA binding surface [nucleotide binding]; other site 1105103000257 anticodon binding site; other site 1105103000258 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 1105103000259 rRNA interaction site [nucleotide binding]; other site 1105103000260 S8 interaction site; other site 1105103000261 putative laminin-1 binding site; other site 1105103000262 elongation factor Ts; Provisional; Region: tsf; PRK09377 1105103000263 UBA/TS-N domain; Region: UBA; pfam00627 1105103000264 Elongation factor TS; Region: EF_TS; pfam00889 1105103000265 Elongation factor TS; Region: EF_TS; pfam00889 1105103000266 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1105103000267 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103000268 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1105103000269 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1105103000270 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1105103000271 putative acyl-acceptor binding pocket; other site 1105103000272 aspartate aminotransferase; Provisional; Region: PRK05764 1105103000273 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 1105103000274 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105103000275 homodimer interface [polypeptide binding]; other site 1105103000276 catalytic residue [active] 1105103000277 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 1105103000278 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1105103000279 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 1105103000280 binding surface 1105103000281 TPR motif; other site 1105103000282 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1105103000283 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 1105103000284 S-adenosylmethionine binding site [chemical binding]; other site 1105103000285 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1105103000286 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1105103000287 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 1105103000288 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1105103000289 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1105103000290 active site 1105103000291 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103000292 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1105103000293 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1105103000294 active site 1105103000295 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1105103000296 dimer interface [polypeptide binding]; other site 1105103000297 substrate binding site [chemical binding]; other site 1105103000298 catalytic residues [active] 1105103000299 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1105103000300 Permease; Region: Permease; pfam02405 1105103000301 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1105103000302 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103000303 Walker A/P-loop; other site 1105103000304 ATP binding site [chemical binding]; other site 1105103000305 Q-loop/lid; other site 1105103000306 ABC transporter signature motif; other site 1105103000307 Walker B; other site 1105103000308 D-loop; other site 1105103000309 H-loop/switch region; other site 1105103000310 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 1105103000311 50S ribosomal protein L31; Provisional; Region: PRK01397 1105103000312 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1105103000313 G1 box; other site 1105103000314 GTP/Mg2+ binding site [chemical binding]; other site 1105103000315 Switch I region; other site 1105103000316 G2 box; other site 1105103000317 G3 box; other site 1105103000318 Switch II region; other site 1105103000319 G4 box; other site 1105103000320 G5 box; other site 1105103000321 Acetylglutamate kinase [Amino acid transport and metabolism]; Region: ArgB; COG0548 1105103000322 nucleotide binding site [chemical binding]; other site 1105103000323 substrate binding site [chemical binding]; other site 1105103000324 type IV secretion system protein VirB3; Provisional; Region: PRK13899 1105103000325 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 1105103000326 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105103000327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103000328 Walker A/P-loop; other site 1105103000329 ATP binding site [chemical binding]; other site 1105103000330 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105103000331 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105103000332 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105103000333 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105103000334 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105103000335 potential frameshift: common BLAST hit: gi|67458488|ref|YP_246112.1| phosphate acetyltransferase 1105103000336 potential frameshift: common BLAST hit: gi|67458489|ref|YP_246113.1| acetate kinase 1105103000337 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 1105103000338 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1105103000339 hypothetical protein; Provisional; Region: PRK13694 1105103000340 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1105103000341 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1105103000342 Protein export membrane protein; Region: SecD_SecF; pfam02355 1105103000343 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1105103000344 SLBB domain; Region: SLBB; pfam10531 1105103000345 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1105103000346 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1105103000347 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 1105103000348 Catalytic site [active] 1105103000349 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 1105103000350 ribonuclease III; Reviewed; Region: rnc; PRK00102 1105103000351 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 1105103000352 dimerization interface [polypeptide binding]; other site 1105103000353 active site 1105103000354 metal binding site [ion binding]; metal-binding site 1105103000355 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 1105103000356 dsRNA binding site [nucleotide binding]; other site 1105103000357 GTPase Era; Provisional; Region: era; PRK15494 1105103000358 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103000359 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1105103000360 G1 box; other site 1105103000361 GTP/Mg2+ binding site [chemical binding]; other site 1105103000362 Switch I region; other site 1105103000363 G2 box; other site 1105103000364 Switch II region; other site 1105103000365 G3 box; other site 1105103000366 G4 box; other site 1105103000367 G5 box; other site 1105103000368 KH domain; Region: KH_2; pfam07650 1105103000369 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 1105103000370 active site 1105103000371 putative DNA-binding cleft [nucleotide binding]; other site 1105103000372 dimer interface [polypeptide binding]; other site 1105103000373 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1105103000374 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1105103000375 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 1105103000376 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 1105103000377 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1105103000378 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1105103000379 AAA domain; Region: AAA_31; pfam13614 1105103000380 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 1105103000381 Walker A motif; other site 1105103000382 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 1105103000383 HflK protein; Region: hflK; TIGR01933 1105103000384 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105103000385 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 1105103000386 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1105103000387 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105103000388 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 1105103000389 protein binding site [polypeptide binding]; other site 1105103000390 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 1105103000391 protein binding site [polypeptide binding]; other site 1105103000392 hypothetical protein; Validated; Region: PRK01415 1105103000393 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1105103000394 active site residue [active] 1105103000395 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 1105103000396 Iron-sulfur protein interface; other site 1105103000397 proximal quinone binding site [chemical binding]; other site 1105103000398 SdhD (CybS) interface [polypeptide binding]; other site 1105103000399 proximal heme binding site [chemical binding]; other site 1105103000400 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 1105103000401 putative SdhC subunit interface [polypeptide binding]; other site 1105103000402 putative proximal heme binding site [chemical binding]; other site 1105103000403 putative Iron-sulfur protein interface [polypeptide binding]; other site 1105103000404 putative proximal quinone binding site; other site 1105103000405 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1105103000406 L-aspartate oxidase; Provisional; Region: PRK06175 1105103000407 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1105103000408 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1105103000409 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 1105103000410 dimer interface [polypeptide binding]; other site 1105103000411 conserved gate region; other site 1105103000412 putative PBP binding loops; other site 1105103000413 ABC-ATPase subunit interface; other site 1105103000414 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 1105103000415 S17 interaction site [polypeptide binding]; other site 1105103000416 S8 interaction site; other site 1105103000417 16S rRNA interaction site [nucleotide binding]; other site 1105103000418 streptomycin interaction site [chemical binding]; other site 1105103000419 23S rRNA interaction site [nucleotide binding]; other site 1105103000420 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1105103000421 30S ribosomal protein S7; Validated; Region: PRK05302 1105103000422 elongation factor G; Reviewed; Region: PRK00007 1105103000423 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1105103000424 G1 box; other site 1105103000425 putative GEF interaction site [polypeptide binding]; other site 1105103000426 GTP/Mg2+ binding site [chemical binding]; other site 1105103000427 Switch I region; other site 1105103000428 G2 box; other site 1105103000429 G3 box; other site 1105103000430 Switch II region; other site 1105103000431 G4 box; other site 1105103000432 G5 box; other site 1105103000433 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 1105103000434 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 1105103000435 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 1105103000436 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1105103000437 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1105103000438 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1105103000439 putative homodimer interface [polypeptide binding]; other site 1105103000440 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1105103000441 heterodimer interface [polypeptide binding]; other site 1105103000442 homodimer interface [polypeptide binding]; other site 1105103000443 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1105103000444 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 1105103000445 23S rRNA interface [nucleotide binding]; other site 1105103000446 putative thiostrepton binding site; other site 1105103000447 L7/L12 interface [polypeptide binding]; other site 1105103000448 L25 interface [polypeptide binding]; other site 1105103000449 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 1105103000450 mRNA/rRNA interface [nucleotide binding]; other site 1105103000451 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 1105103000452 23S rRNA interface [nucleotide binding]; other site 1105103000453 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1105103000454 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 1105103000455 core dimer interface [polypeptide binding]; other site 1105103000456 peripheral dimer interface [polypeptide binding]; other site 1105103000457 L10 interface [polypeptide binding]; other site 1105103000458 L11 interface [polypeptide binding]; other site 1105103000459 putative EF-Tu interaction site [polypeptide binding]; other site 1105103000460 putative EF-G interaction site [polypeptide binding]; other site 1105103000461 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1105103000462 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 1105103000463 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1105103000464 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 1105103000465 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1105103000466 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 1105103000467 RPB3 interaction site [polypeptide binding]; other site 1105103000468 RPB1 interaction site [polypeptide binding]; other site 1105103000469 RPB11 interaction site [polypeptide binding]; other site 1105103000470 RPB10 interaction site [polypeptide binding]; other site 1105103000471 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1105103000472 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1105103000473 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1105103000474 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1105103000475 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1105103000476 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1105103000477 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1105103000478 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1105103000479 DNA binding site [nucleotide binding] 1105103000480 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1105103000481 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1105103000482 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103000483 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1105103000484 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 1105103000485 interface (dimer of trimers) [polypeptide binding]; other site 1105103000486 Substrate-binding/catalytic site; other site 1105103000487 Zn-binding sites [ion binding]; other site 1105103000488 ATPase MipZ; Region: MipZ; pfam09140 1105103000489 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 1105103000490 P-loop; other site 1105103000491 Magnesium ion binding site [ion binding]; other site 1105103000492 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 1105103000493 Magnesium ion binding site [ion binding]; other site 1105103000494 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1105103000495 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 1105103000496 dimer interface [polypeptide binding]; other site 1105103000497 anticodon binding site; other site 1105103000498 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 1105103000499 homodimer interface [polypeptide binding]; other site 1105103000500 motif 1; other site 1105103000501 active site 1105103000502 motif 2; other site 1105103000503 GAD domain; Region: GAD; pfam02938 1105103000504 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 1105103000505 active site 1105103000506 motif 3; other site 1105103000507 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1105103000508 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1105103000509 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1105103000510 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1105103000511 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1105103000512 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1105103000513 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1105103000514 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 1105103000515 substrate binding pocket [chemical binding]; other site 1105103000516 membrane-bound complex binding site; other site 1105103000517 hinge residues; other site 1105103000518 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1105103000519 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1105103000520 GatB domain; Region: GatB_Yqey; smart00845 1105103000521 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1105103000522 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1105103000523 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1105103000524 Uncharacterized conserved protein [Function unknown]; Region: COG4997 1105103000525 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1105103000526 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 1105103000527 hinge region; other site 1105103000528 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 1105103000529 putative nucleotide binding site [chemical binding]; other site 1105103000530 uridine monophosphate binding site [chemical binding]; other site 1105103000531 homohexameric interface [polypeptide binding]; other site 1105103000532 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 1105103000533 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1105103000534 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 1105103000535 putative substrate translocation pore; other site 1105103000536 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 1105103000537 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 1105103000538 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1105103000539 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105103000540 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105103000541 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105103000542 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105103000543 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105103000544 Surface antigen; Region: Bac_surface_Ag; pfam01103 1105103000545 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1105103000546 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 1105103000547 active site 1105103000548 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 1105103000549 protein binding site [polypeptide binding]; other site 1105103000550 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 1105103000551 putative substrate binding region [chemical binding]; other site 1105103000552 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1105103000553 putative RNA binding site [nucleotide binding]; other site 1105103000554 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1105103000555 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 1105103000556 S-adenosylmethionine binding site [chemical binding]; other site 1105103000557 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1105103000558 putative coenzyme Q binding site [chemical binding]; other site 1105103000559 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103000560 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1105103000561 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1105103000562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1105103000563 RNA methyltransferase, RsmE family; Region: TIGR00046 1105103000564 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1105103000565 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105103000566 Protein export membrane protein; Region: SecD_SecF; cl14618 1105103000567 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 1105103000568 IHF dimer interface [polypeptide binding]; other site 1105103000569 IHF - DNA interface [nucleotide binding]; other site 1105103000570 DNA polymerase III subunit delta'; Validated; Region: PRK06581 1105103000571 signal recognition particle protein; Provisional; Region: PRK10867 1105103000572 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1105103000573 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 1105103000574 P loop; other site 1105103000575 GTP binding site [chemical binding]; other site 1105103000576 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1105103000577 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105103000578 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105103000579 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105103000580 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105103000581 potential frameshift: common BLAST hit: gi|67459496|ref|YP_247120.1| prolyl endopeptidase 1105103000582 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 1105103000583 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 1105103000584 FeS/SAM binding site; other site 1105103000585 HemN C-terminal domain; Region: HemN_C; pfam06969 1105103000586 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 1105103000587 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105103000588 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 1105103000589 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1105103000590 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1105103000591 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1105103000592 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1105103000593 active site 1105103000594 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1105103000595 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 1105103000596 E3 interaction surface; other site 1105103000597 lipoyl attachment site [posttranslational modification]; other site 1105103000598 e3 binding domain; Region: E3_binding; pfam02817 1105103000599 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105103000600 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1105103000601 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 1105103000602 TPP-binding site [chemical binding]; other site 1105103000603 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1105103000604 dimer interface [polypeptide binding]; other site 1105103000605 PYR/PP interface [polypeptide binding]; other site 1105103000606 TPP binding site [chemical binding]; other site 1105103000607 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1105103000608 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1105103000609 active site 1105103000610 Zn binding site [ion binding]; other site 1105103000611 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1105103000612 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105103000613 Walker A/P-loop; other site 1105103000614 ATP binding site [chemical binding]; other site 1105103000615 Q-loop/lid; other site 1105103000616 Allexivirus 40kDa protein; Region: Allexi_40kDa; pfam05549 1105103000617 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105103000618 ABC transporter signature motif; other site 1105103000619 Walker B; other site 1105103000620 D-loop; other site 1105103000621 H-loop/switch region; other site 1105103000622 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1105103000623 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1105103000624 Putative cation transport regulator [General function prediction only]; Region: ChaB; COG4572 1105103000625 chaperone protein DnaJ; Provisional; Region: PRK14300 1105103000626 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 1105103000627 HSP70 interaction site [polypeptide binding]; other site 1105103000628 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1105103000629 substrate binding site [polypeptide binding]; other site 1105103000630 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1105103000631 Zn binding sites [ion binding]; other site 1105103000632 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1105103000633 dimer interface [polypeptide binding]; other site 1105103000634 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1105103000635 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1105103000636 nucleotide binding site [chemical binding]; other site 1105103000637 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1105103000638 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105103000639 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 1105103000640 Lipopolysaccharide-assembly; Region: LptE; cl01125 1105103000641 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1105103000642 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1105103000643 diiron binding motif [ion binding]; other site 1105103000644 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 1105103000645 Subunit III/VIIa interface [polypeptide binding]; other site 1105103000646 Phospholipid binding site [chemical binding]; other site 1105103000647 Subunit I/III interface [polypeptide binding]; other site 1105103000648 Subunit III/VIb interface [polypeptide binding]; other site 1105103000649 Subunit III/VIa interface; other site 1105103000650 Subunit III/Vb interface [polypeptide binding]; other site 1105103000651 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1105103000652 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1105103000653 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1105103000654 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 1105103000655 trimer interface [polypeptide binding]; other site 1105103000656 active site 1105103000657 substrate binding site [chemical binding]; other site 1105103000658 CoA binding site [chemical binding]; other site 1105103000659 potential frameshift: common BLAST hit: gi|15892172|ref|NP_359886.1| bifunctional penicillin-binding protein 1C 1105103000660 potential frameshift: common BLAST hit: gi|350273249|ref|YP_004884562.1| bifunctional penicillin-binding protein 1C 1105103000661 potential frameshift: common BLAST hit: gi|67459460|ref|YP_247084.1| cell surface antigen-like protein Sca8 1105103000662 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 1105103000663 Ligand Binding Site [chemical binding]; other site 1105103000664 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1105103000665 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1105103000666 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1105103000667 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 1105103000668 catalytic loop [active] 1105103000669 iron binding site [ion binding]; other site 1105103000670 chaperone protein HscA; Provisional; Region: hscA; PRK01433 1105103000671 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1105103000672 nucleotide binding site [chemical binding]; other site 1105103000673 co-chaperone HscB; Provisional; Region: hscB; PRK01356 1105103000674 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 1105103000675 HSP70 interaction site [polypeptide binding]; other site 1105103000676 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1105103000677 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105103000678 active site 1105103000679 excinuclease ABC subunit B; Provisional; Region: PRK05298 1105103000680 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 1105103000681 ATP binding site [chemical binding]; other site 1105103000682 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 1105103000683 nucleotide binding region [chemical binding]; other site 1105103000684 ATP-binding site [chemical binding]; other site 1105103000685 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1105103000686 UvrB/uvrC motif; Region: UVR; pfam02151 1105103000687 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 1105103000688 GSH binding site [chemical binding]; other site 1105103000689 catalytic residues [active] 1105103000690 potential frameshift: common BLAST hit: gi|157964270|ref|YP_001499094.1| multidrug resistance protein Atm1 1105103000691 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1105103000692 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103000693 Walker A/P-loop; other site 1105103000694 ATP binding site [chemical binding]; other site 1105103000695 Q-loop/lid; other site 1105103000696 Pleckstrin homology-like domain; Region: PH-like; cl17171 1105103000697 DNA gyrase subunit A; Validated; Region: PRK05560 1105103000698 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 1105103000699 CAP-like domain; other site 1105103000700 active site 1105103000701 primary dimer interface [polypeptide binding]; other site 1105103000702 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105103000703 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105103000704 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105103000705 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105103000706 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105103000707 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1105103000708 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1105103000709 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1105103000710 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 1105103000711 active site 1105103000712 catalytic residues [active] 1105103000713 metal binding site [ion binding]; metal-binding site 1105103000714 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1105103000715 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1105103000716 putative active site [active] 1105103000717 substrate binding site [chemical binding]; other site 1105103000718 putative cosubstrate binding site; other site 1105103000719 catalytic site [active] 1105103000720 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1105103000721 substrate binding site [chemical binding]; other site 1105103000722 Protein of unknown function (DUF563); Region: DUF563; cl15705 1105103000723 Predicted ATPase [General function prediction only]; Region: COG1485 1105103000724 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 1105103000725 Walker A motif; other site 1105103000726 ATP binding site [chemical binding]; other site 1105103000727 Walker B motif; other site 1105103000728 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 1105103000729 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1105103000730 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 1105103000731 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1105103000732 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105103000733 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105103000734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103000735 Walker A/P-loop; other site 1105103000736 ATP binding site [chemical binding]; other site 1105103000737 Q-loop/lid; other site 1105103000738 ABC transporter signature motif; other site 1105103000739 Walker B; other site 1105103000740 D-loop; other site 1105103000741 H-loop/switch region; other site 1105103000742 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 1105103000743 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1105103000744 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1105103000745 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1105103000746 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 1105103000747 toxin-antitoxin system, toxin component, Txe/YoeB family; Region: toxin_Txe_YoeB; TIGR02116 1105103000748 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105103000749 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1105103000750 putative metal binding site; other site 1105103000751 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1105103000752 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1105103000753 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1105103000754 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1105103000755 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1105103000756 ATP binding site [chemical binding]; other site 1105103000757 active site 1105103000758 substrate binding site [chemical binding]; other site 1105103000759 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1105103000760 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 1105103000761 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105103000762 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 1105103000763 active site 1105103000764 dimer interface [polypeptide binding]; other site 1105103000765 motif 1; other site 1105103000766 motif 2; other site 1105103000767 motif 3; other site 1105103000768 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 1105103000769 anticodon binding site; other site 1105103000770 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103000771 Walker A/P-loop; other site 1105103000772 ATP binding site [chemical binding]; other site 1105103000773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103000774 ABC transporter signature motif; other site 1105103000775 Walker B; other site 1105103000776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103000777 H-loop/switch region; other site 1105103000778 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 1105103000779 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 1105103000780 V-type ATP synthase subunit I; Validated; Region: PRK05771 1105103000781 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1105103000782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1105103000783 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 1105103000784 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1105103000785 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1105103000786 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 1105103000787 ATP binding site [chemical binding]; other site 1105103000788 Mg2+ binding site [ion binding]; other site 1105103000789 G-X-G motif; other site 1105103000790 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 1105103000791 anchoring element; other site 1105103000792 dimer interface [polypeptide binding]; other site 1105103000793 ATP binding site [chemical binding]; other site 1105103000794 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 1105103000795 active site 1105103000796 metal binding site [ion binding]; metal-binding site 1105103000797 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105103000798 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1105103000799 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1105103000800 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 1105103000801 protein binding site [polypeptide binding]; other site 1105103000802 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1105103000803 Catalytic dyad [active] 1105103000804 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105103000805 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 1105103000806 dimer interface [polypeptide binding]; other site 1105103000807 phosphorylation site [posttranslational modification] 1105103000808 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 1105103000809 ATP binding site [chemical binding]; other site 1105103000810 Mg2+ binding site [ion binding]; other site 1105103000811 G-X-G motif; other site 1105103000812 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1105103000813 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1105103000814 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 1105103000815 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1105103000816 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1105103000817 Trp docking motif [polypeptide binding]; other site 1105103000818 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 1105103000819 23S rRNA interface [nucleotide binding]; other site 1105103000820 L3 interface [polypeptide binding]; other site 1105103000821 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1105103000822 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; cl00942 1105103000823 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1105103000824 DCoH tetramer interaction site [polypeptide binding]; other site 1105103000825 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 1105103000826 putative active site [active] 1105103000827 Ap4A binding site [chemical binding]; other site 1105103000828 nudix motif; other site 1105103000829 putative metal binding site [ion binding]; other site 1105103000830 response regulator PleD; Reviewed; Region: pleD; PRK09581 1105103000831 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 1105103000832 active site 1105103000833 phosphorylation site [posttranslational modification] 1105103000834 intermolecular recognition site; other site 1105103000835 dimerization interface [polypeptide binding]; other site 1105103000836 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 1105103000837 active site 1105103000838 phosphorylation site [posttranslational modification] 1105103000839 intermolecular recognition site; other site 1105103000840 dimerization interface [polypeptide binding]; other site 1105103000841 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1105103000842 metal binding site [ion binding]; metal-binding site 1105103000843 active site 1105103000844 I-site; other site 1105103000845 elongation factor P; Validated; Region: PRK00529 1105103000846 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1105103000847 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 1105103000848 RNA binding site [nucleotide binding]; other site 1105103000849 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 1105103000850 RNA binding site [nucleotide binding]; other site 1105103000851 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105103000852 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 1105103000853 active site 1105103000854 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 1105103000855 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1105103000856 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1105103000857 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1105103000858 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1105103000859 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105103000860 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105103000861 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103000862 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105103000863 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 1105103000864 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1105103000865 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105103000866 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105103000867 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105103000868 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1105103000869 FAD binding domain; Region: FAD_binding_4; pfam01565 1105103000870 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1105103000871 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1105103000872 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1105103000873 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1105103000874 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1105103000875 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1105103000876 Cell division protein FtsQ; Region: FtsQ; pfam03799 1105103000877 cell division protein FtsA; Region: ftsA; TIGR01174 1105103000878 Cell division protein FtsA; Region: FtsA; smart00842 1105103000879 Cell division protein FtsA; Region: FtsA; pfam14450 1105103000880 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1105103000881 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1105103000882 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1105103000883 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1105103000884 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 1105103000885 RNA binding site [nucleotide binding]; other site 1105103000886 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 1105103000887 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1105103000888 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1105103000889 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1105103000890 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105103000891 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 1105103000892 RNA binding surface [nucleotide binding]; other site 1105103000893 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105103000894 active site 1105103000895 potential frameshift: common BLAST hit: gi|238650484|ref|YP_002916336.1| penicillin-binding protein 4* 1105103000896 potential frameshift: common BLAST hit: gi|15892268|ref|NP_359982.1| penicillin-binding protein 4* 1105103000897 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 1105103000898 putative catalytic site [active] 1105103000899 putative phosphate binding site [ion binding]; other site 1105103000900 active site 1105103000901 metal binding site A [ion binding]; metal-binding site 1105103000902 DNA binding site [nucleotide binding] 1105103000903 putative AP binding site [nucleotide binding]; other site 1105103000904 putative metal binding site B [ion binding]; other site 1105103000905 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1105103000906 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 1105103000907 tetramer interface [polypeptide binding]; other site 1105103000908 TPP-binding site [chemical binding]; other site 1105103000909 heterodimer interface [polypeptide binding]; other site 1105103000910 phosphorylation loop region [posttranslational modification] 1105103000911 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1105103000912 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 1105103000913 alpha subunit interface [polypeptide binding]; other site 1105103000914 TPP binding site [chemical binding]; other site 1105103000915 heterodimer interface [polypeptide binding]; other site 1105103000916 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1105103000917 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1105103000918 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1105103000919 G1 box; other site 1105103000920 putative GEF interaction site [polypeptide binding]; other site 1105103000921 GTP/Mg2+ binding site [chemical binding]; other site 1105103000922 Switch I region; other site 1105103000923 G2 box; other site 1105103000924 G3 box; other site 1105103000925 Switch II region; other site 1105103000926 G4 box; other site 1105103000927 G5 box; other site 1105103000928 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 1105103000929 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 1105103000930 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1105103000931 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 1105103000932 isocitrate dehydrogenase; Validated; Region: PRK09222 1105103000933 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1105103000934 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1105103000935 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 1105103000936 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 1105103000937 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1105103000938 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 1105103000939 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1105103000940 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1105103000941 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 1105103000942 [2Fe-2S] cluster binding site [ion binding]; other site 1105103000943 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 1105103000944 Qi binding site; other site 1105103000945 cytochrome b; Provisional; Region: CYTB; MTH00191 1105103000946 intrachain domain interface; other site 1105103000947 interchain domain interface [polypeptide binding]; other site 1105103000948 heme bH binding site [chemical binding]; other site 1105103000949 heme bL binding site [chemical binding]; other site 1105103000950 Qo binding site; other site 1105103000951 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 1105103000952 interchain domain interface [polypeptide binding]; other site 1105103000953 intrachain domain interface; other site 1105103000954 Qi binding site; other site 1105103000955 Qo binding site; other site 1105103000956 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1105103000957 catalytic site [active] 1105103000958 metal binding site [ion binding]; metal-binding site 1105103000959 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1105103000960 Cytochrome c; Region: Cytochrom_C; cl11414 1105103000961 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1105103000962 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 1105103000963 putative dimer interface [polypeptide binding]; other site 1105103000964 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1105103000965 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1105103000966 PCRF domain; Region: PCRF; pfam03462 1105103000967 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1105103000968 RF-1 domain; Region: RF-1; pfam00472 1105103000969 GTP-binding protein LepA; Provisional; Region: PRK05433 1105103000970 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1105103000971 G1 box; other site 1105103000972 putative GEF interaction site [polypeptide binding]; other site 1105103000973 GTP/Mg2+ binding site [chemical binding]; other site 1105103000974 Switch I region; other site 1105103000975 G2 box; other site 1105103000976 G3 box; other site 1105103000977 Switch II region; other site 1105103000978 G4 box; other site 1105103000979 G5 box; other site 1105103000980 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 1105103000981 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 1105103000982 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1105103000983 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 1105103000984 potential frameshift: common BLAST hit: gi|15892293|ref|NP_360007.1| ATP-dependent protease subunit C (ClpC) 1105103000985 potential frameshift: common BLAST hit: gi|67458839|ref|YP_246463.1| NACHT domain-containing protein 1105103000986 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105103000987 HD domain; Region: HD_4; pfam13328 1105103000988 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105103000989 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1105103000990 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1105103000991 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105103000992 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105103000993 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 1105103000994 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105103000995 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 1105103000996 oligomeric interface; other site 1105103000997 putative active site [active] 1105103000998 homodimer interface [polypeptide binding]; other site 1105103000999 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 1105103001000 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105103001001 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 1105103001002 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105103001003 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1105103001004 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1105103001005 VirB7 interaction site; other site 1105103001006 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105103001007 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 1105103001008 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105103001009 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1105103001010 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1105103001011 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 1105103001012 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 1105103001013 Walker A motif; other site 1105103001014 hexamer interface [polypeptide binding]; other site 1105103001015 ATP binding site [chemical binding]; other site 1105103001016 Walker B motif; other site 1105103001017 type IV secretion system component VirD4; Provisional; Region: PRK13897 1105103001018 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 1105103001019 Walker A motif; other site 1105103001020 ATP binding site [chemical binding]; other site 1105103001021 Walker B motif; other site 1105103001022 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1105103001023 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1105103001024 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1105103001025 Phage portal protein; Region: Phage_portal; pfam04860 1105103001026 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105103001027 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105103001028 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105103001029 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 1105103001030 active site 1105103001031 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1105103001032 MutS domain I; Region: MutS_I; pfam01624 1105103001033 MutS domain II; Region: MutS_II; pfam05188 1105103001034 MutS domain III; Region: MutS_III; pfam05192 1105103001035 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1105103001036 Walker A/P-loop; other site 1105103001037 ATP binding site [chemical binding]; other site 1105103001038 Q-loop/lid; other site 1105103001039 ABC transporter signature motif; other site 1105103001040 Walker B; other site 1105103001041 D-loop; other site 1105103001042 H-loop/switch region; other site 1105103001043 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1105103001044 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105103001045 Protein of unknown function DUF45; Region: DUF45; pfam01863 1105103001046 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1105103001047 translocation protein TolB; Provisional; Region: tolB; PRK05137 1105103001048 TolB amino-terminal domain; Region: TolB_N; pfam04052 1105103001049 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1105103001050 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1105103001051 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1105103001052 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1105103001053 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105103001054 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105103001055 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 1105103001056 DNA binding residues [nucleotide binding] 1105103001057 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1105103001058 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1105103001059 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 1105103001060 Ligand Binding Site [chemical binding]; other site 1105103001061 amino acid transporter; Region: 2A0306; TIGR00909 1105103001062 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1105103001063 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 1105103001064 dimer interface [polypeptide binding]; other site 1105103001065 motif 1; other site 1105103001066 active site 1105103001067 motif 2; other site 1105103001068 motif 3; other site 1105103001069 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 1105103001070 anticodon binding site; other site 1105103001071 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1105103001072 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105103001073 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1105103001074 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105103001075 TolQ protein; Region: tolQ; TIGR02796 1105103001076 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1105103001077 TolR protein; Region: tolR; TIGR02801 1105103001078 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1105103001079 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105103001080 HD domain; Region: HD_4; pfam13328 1105103001081 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 1105103001082 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105103001083 putative substrate translocation pore; other site 1105103001084 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1105103001085 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 1105103001086 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105103001087 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1105103001088 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1105103001089 Walker A/P-loop; other site 1105103001090 ATP binding site [chemical binding]; other site 1105103001091 Q-loop/lid; other site 1105103001092 ABC transporter signature motif; other site 1105103001093 Walker B; other site 1105103001094 D-loop; other site 1105103001095 H-loop/switch region; other site 1105103001096 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1105103001097 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1105103001098 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 1105103001099 nucleotide binding site/active site [active] 1105103001100 HIT family signature motif; other site 1105103001101 catalytic residue [active] 1105103001102 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1105103001103 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105103001104 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 1105103001105 active site 1105103001106 HslU subunit interaction site [polypeptide binding]; other site 1105103001107 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1105103001108 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 1105103001109 Walker A motif; other site 1105103001110 ATP binding site [chemical binding]; other site 1105103001111 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1105103001112 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105103001113 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1105103001114 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1105103001115 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1105103001116 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1105103001117 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1105103001118 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103001119 Uncharacterized conserved protein [Function unknown]; Region: COG5464 1105103001120 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103001121 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1105103001122 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1105103001123 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105103001124 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1105103001125 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1105103001126 dimerization interface [polypeptide binding]; other site 1105103001127 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1105103001128 putative iron binding site [ion binding]; other site 1105103001129 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1105103001130 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105103001131 HIGH motif; other site 1105103001132 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105103001133 active site 1105103001134 KMSKS motif; other site 1105103001135 DNA topoisomerase I; Validated; Region: PRK06599 1105103001136 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 1105103001137 active site 1105103001138 interdomain interaction site; other site 1105103001139 putative metal-binding site [ion binding]; other site 1105103001140 nucleotide binding site [chemical binding]; other site 1105103001141 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 1105103001142 domain I; other site 1105103001143 DNA binding groove [nucleotide binding] 1105103001144 phosphate binding site [ion binding]; other site 1105103001145 domain II; other site 1105103001146 domain III; other site 1105103001147 nucleotide binding site [chemical binding]; other site 1105103001148 catalytic site [active] 1105103001149 domain IV; other site 1105103001150 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1105103001151 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1105103001152 DNA protecting protein DprA; Region: dprA; TIGR00732 1105103001153 DNA protecting protein DprA; Region: dprA; TIGR00732 1105103001154 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1105103001155 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 1105103001156 dimer interface [polypeptide binding]; other site 1105103001157 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1105103001158 catalytic triad [active] 1105103001159 peroxidatic and resolving cysteines [active] 1105103001160 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105103001161 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 1105103001162 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1105103001163 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1105103001164 Sulfatase; Region: Sulfatase; pfam00884 1105103001165 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1105103001166 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 1105103001167 sequence-specific DNA binding site [nucleotide binding]; other site 1105103001168 salt bridge; other site 1105103001169 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1105103001170 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1105103001171 NADP binding site [chemical binding]; other site 1105103001172 active site 1105103001173 putative substrate binding site [chemical binding]; other site 1105103001174 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1105103001175 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1105103001176 NAD(P) binding site [chemical binding]; other site 1105103001177 homodimer interface [polypeptide binding]; other site 1105103001178 substrate binding site [chemical binding]; other site 1105103001179 active site 1105103001180 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1105103001181 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1105103001182 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 1105103001183 active site 1105103001184 homodimer interface [polypeptide binding]; other site 1105103001185 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105103001186 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 1105103001187 S-adenosylmethionine binding site [chemical binding]; other site 1105103001188 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105103001189 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 1105103001190 active site 1105103001191 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105103001192 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 1105103001193 active site 1105103001194 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1105103001195 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105103001196 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105103001197 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105103001198 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105103001199 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1105103001200 catalytic site [active] 1105103001201 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105103001202 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 1105103001203 putative ADP-binding pocket [chemical binding]; other site 1105103001204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103001205 Walker A/P-loop; other site 1105103001206 ATP binding site [chemical binding]; other site 1105103001207 Q-loop/lid; other site 1105103001208 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1105103001209 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1105103001210 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 1105103001211 RNA binding surface [nucleotide binding]; other site 1105103001212 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1105103001213 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105103001214 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1105103001215 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1105103001216 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 1105103001217 TPR repeat; Region: TPR_11; pfam13414 1105103001218 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 1105103001219 TPR motif; other site 1105103001220 binding surface 1105103001221 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1105103001222 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105103001223 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1105103001224 RimM N-terminal domain; Region: RimM; pfam01782 1105103001225 PRC-barrel domain; Region: PRC; pfam05239 1105103001226 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105103001227 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1105103001228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 1105103001229 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1105103001230 active site 1105103001231 DNA binding site [nucleotide binding] 1105103001232 YCII-related domain; Region: YCII; cl00999 1105103001233 hypothetical protein; Provisional; Region: PRK14388 1105103001234 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1105103001235 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 1105103001236 putative dimer interface [polypeptide binding]; other site 1105103001237 [2Fe-2S] cluster binding site [ion binding]; other site 1105103001238 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1105103001239 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1105103001240 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1105103001241 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1105103001242 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1105103001243 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1105103001244 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1105103001245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1105103001246 potential frameshift: common BLAST hit: gi|67458962|ref|YP_246586.1| phage protein 1105103001247 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1105103001248 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 1105103001249 active site 1105103001250 DNA binding site [nucleotide binding] 1105103001251 Int/Topo IB signature motif; other site 1105103001252 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 1105103001253 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1105103001254 NAD binding site [chemical binding]; other site 1105103001255 homotetramer interface [polypeptide binding]; other site 1105103001256 homodimer interface [polypeptide binding]; other site 1105103001257 substrate binding site [chemical binding]; other site 1105103001258 active site 1105103001259 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1105103001260 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1105103001261 putative active site [active] 1105103001262 catalytic triad [active] 1105103001263 putative dimer interface [polypeptide binding]; other site 1105103001264 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1105103001265 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 1105103001266 amidase catalytic site [active] 1105103001267 Zn binding residues [ion binding]; other site 1105103001268 substrate binding site [chemical binding]; other site 1105103001269 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1105103001270 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 1105103001271 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 1105103001272 TM-ABC transporter signature motif; other site 1105103001273 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1105103001274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103001275 Walker A/P-loop; other site 1105103001276 ATP binding site [chemical binding]; other site 1105103001277 Q-loop/lid; other site 1105103001278 ABC transporter signature motif; other site 1105103001279 Walker B; other site 1105103001280 D-loop; other site 1105103001281 H-loop/switch region; other site 1105103001282 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 1105103001283 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1105103001284 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1105103001285 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 1105103001286 active site 1105103001287 HIGH motif; other site 1105103001288 KMSKS motif; other site 1105103001289 Predicted permeases [General function prediction only]; Region: COG0679 1105103001290 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1105103001291 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1105103001292 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1105103001293 putative NAD(P) binding site [chemical binding]; other site 1105103001294 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1105103001295 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 1105103001296 putative active site [active] 1105103001297 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1105103001298 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105103001299 malate dehydrogenase; Reviewed; Region: PRK06223 1105103001300 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1105103001301 NAD(P) binding site [chemical binding]; other site 1105103001302 dimer interface [polypeptide binding]; other site 1105103001303 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105103001304 substrate binding site [chemical binding]; other site 1105103001305 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 1105103001306 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105103001307 CTP synthetase; Validated; Region: pyrG; PRK05380 1105103001308 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 1105103001309 Catalytic site [active] 1105103001310 active site 1105103001311 UTP binding site [chemical binding]; other site 1105103001312 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1105103001313 active site 1105103001314 putative oxyanion hole; other site 1105103001315 catalytic triad [active] 1105103001316 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1105103001317 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1105103001318 Ligand binding site; other site 1105103001319 oligomer interface; other site 1105103001320 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 1105103001321 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1105103001322 GTP cyclohydrolase I; Provisional; Region: PLN03044 1105103001323 active site 1105103001324 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1105103001325 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 1105103001326 dimer interface [polypeptide binding]; other site 1105103001327 motif 1; other site 1105103001328 active site 1105103001329 motif 2; other site 1105103001330 motif 3; other site 1105103001331 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 1105103001332 anticodon binding site; other site 1105103001333 Fic family protein [Function unknown]; Region: COG3177 1105103001334 Fic/DOC family; Region: Fic; pfam02661 1105103001335 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1105103001336 RuvA N terminal domain; Region: RuvA_N; pfam01330 1105103001337 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1105103001338 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 1105103001339 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 1105103001340 Walker A motif; other site 1105103001341 ATP binding site [chemical binding]; other site 1105103001342 Walker B motif; other site 1105103001343 arginine finger; other site 1105103001344 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1105103001345 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105103001346 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105103001347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103001348 Walker A/P-loop; other site 1105103001349 ATP binding site [chemical binding]; other site 1105103001350 Q-loop/lid; other site 1105103001351 ABC transporter signature motif; other site 1105103001352 Walker B; other site 1105103001353 D-loop; other site 1105103001354 H-loop/switch region; other site 1105103001355 muropeptide transporter; Validated; Region: ampG; cl17669 1105103001356 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1105103001357 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1105103001358 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1105103001359 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103001360 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105103001361 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1105103001362 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1105103001363 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1105103001364 BON domain; Region: BON; pfam04972 1105103001365 BON domain; Region: BON; pfam04972 1105103001366 Intracellular septation protein A [Cell division and chromosome partitioning]; Region: COG2917 1105103001367 Iron permease FTR1 family; Region: FTR1; cl00475 1105103001368 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1105103001369 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105103001370 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1105103001371 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 1105103001372 active site 1105103001373 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 1105103001374 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1105103001375 catalytic residues [active] 1105103001376 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1105103001377 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105103001378 tandem repeat interface [polypeptide binding]; other site 1105103001379 oligomer interface [polypeptide binding]; other site 1105103001380 active site residues [active] 1105103001381 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105103001382 trimer interface [polypeptide binding]; other site 1105103001383 active site 1105103001384 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105103001385 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 1105103001386 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105103001387 catalytic residue [active] 1105103001388 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1105103001389 dimer interface [polypeptide binding]; other site 1105103001390 catalytic triad [active] 1105103001391 Rickettsial palindromic element RPE4 domain; Region: RPE4; TIGR03777 1105103001392 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1105103001393 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1105103001394 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1105103001395 catalytic triad [active] 1105103001396 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 1105103001397 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 1105103001398 Subunit I/III interface [polypeptide binding]; other site 1105103001399 D-pathway; other site 1105103001400 Subunit I/VIIc interface [polypeptide binding]; other site 1105103001401 Subunit I/IV interface [polypeptide binding]; other site 1105103001402 Subunit I/II interface [polypeptide binding]; other site 1105103001403 Low-spin heme (heme a) binding site [chemical binding]; other site 1105103001404 Subunit I/VIIa interface [polypeptide binding]; other site 1105103001405 Subunit I/VIa interface [polypeptide binding]; other site 1105103001406 Dimer interface; other site 1105103001407 Putative water exit pathway; other site 1105103001408 Binuclear center (heme a3/CuB) [ion binding]; other site 1105103001409 K-pathway; other site 1105103001410 Subunit I/Vb interface [polypeptide binding]; other site 1105103001411 Putative proton exit pathway; other site 1105103001412 Subunit I/VIb interface; other site 1105103001413 Subunit I/VIc interface [polypeptide binding]; other site 1105103001414 Electron transfer pathway; other site 1105103001415 Subunit I/VIIIb interface [polypeptide binding]; other site 1105103001416 Subunit I/VIIb interface [polypeptide binding]; other site 1105103001417 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 1105103001418 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 1105103001419 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103001420 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1105103001421 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 1105103001422 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1105103001423 putative peptidase; Provisional; Region: PRK11649 1105103001424 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105103001425 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1105103001426 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1105103001427 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1105103001428 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 1105103001429 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105103001430 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105103001431 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105103001432 cell division protein FtsW; Region: ftsW; TIGR02614 1105103001433 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1105103001434 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 1105103001435 active site 1105103001436 homodimer interface [polypeptide binding]; other site 1105103001437 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105103001438 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105103001439 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1105103001440 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105103001441 potential frameshift: common BLAST hit: gi|67459034|ref|YP_246658.1| RND family transporter membrane-fusion protein 1105103001442 potential frameshift: common BLAST hit: gi|67459035|ref|YP_246659.1| RND efflux system, outer membrane protein 1105103001443 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105103001444 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 1105103001445 potential frameshift: common BLAST hit: gi|374319263|ref|YP_005065762.1| Transposase-like protein 1105103001446 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103001447 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103001448 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103001449 diaminopimelate epimerase; Region: DapF; TIGR00652 1105103001450 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105103001451 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105103001452 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1105103001453 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105103001454 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 1105103001455 FeS/SAM binding site; other site 1105103001456 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1105103001457 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1105103001458 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 1105103001459 dimer interface [polypeptide binding]; other site 1105103001460 motif 1; other site 1105103001461 active site 1105103001462 motif 2; other site 1105103001463 motif 3; other site 1105103001464 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1105103001465 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 1105103001466 putative tRNA-binding site [nucleotide binding]; other site 1105103001467 B3/4 domain; Region: B3_4; pfam03483 1105103001468 tRNA synthetase B5 domain; Region: B5; smart00874 1105103001469 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 1105103001470 dimer interface [polypeptide binding]; other site 1105103001471 motif 1; other site 1105103001472 motif 3; other site 1105103001473 motif 2; other site 1105103001474 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1105103001475 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 1105103001476 DNA polymerase III subunit beta; Validated; Region: PRK05643 1105103001477 putative DNA binding surface [nucleotide binding]; other site 1105103001478 dimer interface [polypeptide binding]; other site 1105103001479 beta-clamp/clamp loader binding surface; other site 1105103001480 beta-clamp/translesion DNA polymerase binding surface; other site 1105103001481 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 1105103001482 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 1105103001483 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1105103001484 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1105103001485 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1105103001486 HIGH motif; other site 1105103001487 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105103001488 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105103001489 active site 1105103001490 KMSKS motif; other site 1105103001491 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1105103001492 tRNA binding surface [nucleotide binding]; other site 1105103001493 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105103001494 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105103001495 catalytic site [active] 1105103001496 putative active site [active] 1105103001497 putative substrate binding site [chemical binding]; other site 1105103001498 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1105103001499 Septum formation initiator; Region: DivIC; pfam04977 1105103001500 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1105103001501 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1105103001502 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 1105103001503 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1105103001504 catalytic residue [active] 1105103001505 putative FPP diphosphate binding site; other site 1105103001506 putative FPP binding hydrophobic cleft; other site 1105103001507 dimer interface [polypeptide binding]; other site 1105103001508 putative IPP diphosphate binding site; other site 1105103001509 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105103001510 HAMP domain; Region: HAMP; pfam00672 1105103001511 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 1105103001512 dimer interface [polypeptide binding]; other site 1105103001513 phosphorylation site [posttranslational modification] 1105103001514 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 1105103001515 ATP binding site [chemical binding]; other site 1105103001516 Mg2+ binding site [ion binding]; other site 1105103001517 G-X-G motif; other site 1105103001518 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105103001519 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 1105103001520 active site 1105103001521 phosphorylation site [posttranslational modification] 1105103001522 intermolecular recognition site; other site 1105103001523 dimerization interface [polypeptide binding]; other site 1105103001524 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 1105103001525 DNA binding site [nucleotide binding] 1105103001526 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1105103001527 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1105103001528 homodimer interface [polypeptide binding]; other site 1105103001529 substrate-cofactor binding pocket; other site 1105103001530 catalytic residue [active] 1105103001531 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1105103001532 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1105103001533 dimer interface [polypeptide binding]; other site 1105103001534 active site 1105103001535 catalytic residue [active] 1105103001536 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 1105103001537 SmpB-tmRNA interface; other site 1105103001538 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 1105103001539 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1105103001540 catalytic residues [active] 1105103001541 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1105103001542 CoA binding domain; Region: CoA_binding; pfam02629 1105103001543 CoA-ligase; Region: Ligase_CoA; pfam00549 1105103001544 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1105103001545 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1105103001546 CoA-ligase; Region: Ligase_CoA; pfam00549 1105103001547 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1105103001548 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1105103001549 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; cl00859 1105103001550 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1105103001551 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105103001552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1105103001553 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1105103001554 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1105103001555 Predicted membrane protein [Function unknown]; Region: COG1238 1105103001556 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1105103001557 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 1105103001558 RecR protein; Region: RecR; pfam02132 1105103001559 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 1105103001560 putative active site [active] 1105103001561 putative metal-binding site [ion binding]; other site 1105103001562 tetramer interface [polypeptide binding]; other site 1105103001563 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1105103001564 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1105103001565 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1105103001566 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1105103001567 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1105103001568 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1105103001569 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1105103001570 Predicted permeases [General function prediction only]; Region: COG0679 1105103001571 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105103001572 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1105103001573 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105103001574 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105103001575 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1105103001576 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1105103001577 tetramerization interface [polypeptide binding]; other site 1105103001578 NAD(P) binding site [chemical binding]; other site 1105103001579 catalytic residues [active] 1105103001580 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105103001581 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 1105103001582 active site 1105103001583 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1105103001584 Part of AAA domain; Region: AAA_19; pfam13245 1105103001585 Family description; Region: UvrD_C_2; pfam13538 1105103001586 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 1105103001587 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1105103001588 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 1105103001589 tetramer interface [polypeptide binding]; other site 1105103001590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105103001591 catalytic residue [active] 1105103001592 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1105103001593 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1105103001594 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 1105103001595 Walker A motif; other site 1105103001596 ATP binding site [chemical binding]; other site 1105103001597 Walker B motif; other site 1105103001598 arginine finger; other site 1105103001599 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1105103001600 potential frameshift: common BLAST hit: gi|67459085|ref|YP_246709.1| cell surface antigen Sca3 1105103001601 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 1105103001602 30S subunit binding site; other site 1105103001603 potential frameshift: common BLAST hit: gi|238650270|ref|YP_002916122.1| carbonic anhydrase 1105103001604 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 1105103001605 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1105103001606 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1105103001607 homodimer interface [polypeptide binding]; other site 1105103001608 NADP binding site [chemical binding]; other site 1105103001609 substrate binding site [chemical binding]; other site 1105103001610 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1105103001611 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105103001612 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105103001613 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1105103001614 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1105103001615 potential frameshift: common BLAST hit: gi|91205792|ref|YP_538147.1| P pilus assembly, fimbrial usher protein 1105103001616 potential frameshift: common BLAST hit: gi|67459098|ref|YP_246722.1| P pilus assembly protein FimD 1105103001617 potential frameshift: common BLAST hit: gi|67459098|ref|YP_246722.1| P pilus assembly protein FimD 1105103001618 Spore Coat Protein U domain; Region: SCPU; pfam05229 1105103001619 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1105103001620 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1105103001621 active site 1105103001622 dimer interface [polypeptide binding]; other site 1105103001623 catalytic residues [active] 1105103001624 effector binding site; other site 1105103001625 R2 peptide binding site; other site 1105103001626 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1105103001627 dimer interface [polypeptide binding]; other site 1105103001628 putative radical transfer pathway; other site 1105103001629 diiron center [ion binding]; other site 1105103001630 tyrosyl radical; other site 1105103001631 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105103001632 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1105103001633 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1105103001634 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1105103001635 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 1105103001636 active site 1105103001637 substrate binding site [chemical binding]; other site 1105103001638 metal binding site [ion binding]; metal-binding site 1105103001639 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1105103001640 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103001641 Walker A/P-loop; other site 1105103001642 ATP binding site [chemical binding]; other site 1105103001643 Q-loop/lid; other site 1105103001644 ABC transporter signature motif; other site 1105103001645 Walker B; other site 1105103001646 D-loop; other site 1105103001647 H-loop/switch region; other site 1105103001648 OstA-like protein; Region: OstA; pfam03968 1105103001649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1105103001650 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1105103001651 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 1105103001652 putative active site [active] 1105103001653 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 1105103001654 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1105103001655 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1105103001656 RNase E interface [polypeptide binding]; other site 1105103001657 trimer interface [polypeptide binding]; other site 1105103001658 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1105103001659 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1105103001660 RNase E interface [polypeptide binding]; other site 1105103001661 trimer interface [polypeptide binding]; other site 1105103001662 active site 1105103001663 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 1105103001664 putative nucleic acid binding region [nucleotide binding]; other site 1105103001665 G-X-X-G motif; other site 1105103001666 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 1105103001667 RNA binding site [nucleotide binding]; other site 1105103001668 domain interface; other site 1105103001669 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 1105103001670 16S/18S rRNA binding site [nucleotide binding]; other site 1105103001671 S13e-L30e interaction site [polypeptide binding]; other site 1105103001672 25S rRNA binding site [nucleotide binding]; other site 1105103001673 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK14846 1105103001674 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1105103001675 RNA binding site [nucleotide binding]; other site 1105103001676 active site 1105103001677 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103001678 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105103001679 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 1105103001680 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1105103001681 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 1105103001682 non-specific DNA binding site [nucleotide binding]; other site 1105103001683 salt bridge; other site 1105103001684 sequence-specific DNA binding site [nucleotide binding]; other site 1105103001685 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1105103001686 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1105103001687 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1105103001688 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1105103001689 uncharacterized protein, YfiH family; Region: TIGR00726 1105103001690 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; cl00234 1105103001691 catalytic residues [active] 1105103001692 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103001693 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1105103001694 putative active site [active] 1105103001695 homotetrameric interface [polypeptide binding]; other site 1105103001696 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1105103001697 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1105103001698 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1105103001699 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1105103001700 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1105103001701 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 1105103001702 GSH binding site (G-site) [chemical binding]; other site 1105103001703 C-terminal domain interface [polypeptide binding]; other site 1105103001704 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1105103001705 N-terminal domain interface [polypeptide binding]; other site 1105103001706 dimer interface [polypeptide binding]; other site 1105103001707 substrate binding pocket (H-site) [chemical binding]; other site 1105103001708 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1105103001709 conserved cys residue [active] 1105103001710 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1105103001711 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1105103001712 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1105103001713 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1105103001714 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1105103001715 potential frameshift: common BLAST hit: gi|157964571|ref|YP_001499395.1| putative esterase of the alpha/beta hydrolase superfamily protein 1105103001716 potential frameshift: common BLAST hit: gi|157964571|ref|YP_001499395.1| putative esterase of the alpha/beta hydrolase superfamily protein 1105103001717 potential frameshift: common BLAST hit: gi|157964571|ref|YP_001499395.1| putative esterase of the alpha/beta hydrolase superfamily protein 1105103001718 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1105103001719 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1105103001720 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1105103001721 Uncharacterized conserved protein [Function unknown]; Region: COG5448 1105103001722 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 1105103001723 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 1105103001724 Predicted membrane protein [Function unknown]; Region: COG5346 1105103001725 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1105103001726 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1105103001727 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1105103001728 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 1105103001729 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1105103001730 E3 interaction surface; other site 1105103001731 lipoyl attachment site [posttranslational modification]; other site 1105103001732 e3 binding domain; Region: E3_binding; pfam02817 1105103001733 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105103001734 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1105103001735 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1105103001736 RF-1 domain; Region: RF-1; pfam00472 1105103001737 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1105103001738 DHH family; Region: DHH; pfam01368 1105103001739 DHHA1 domain; Region: DHHA1; pfam02272 1105103001740 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 1105103001741 S-adenosylmethionine binding site [chemical binding]; other site 1105103001742 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105103001743 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1105103001744 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1105103001745 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 1105103001746 RNA binding site [nucleotide binding]; other site 1105103001747 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 1105103001748 multimer interface [polypeptide binding]; other site 1105103001749 Walker A motif; other site 1105103001750 ATP binding site [chemical binding]; other site 1105103001751 Walker B motif; other site 1105103001752 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1105103001753 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105103001754 tandem repeat interface [polypeptide binding]; other site 1105103001755 oligomer interface [polypeptide binding]; other site 1105103001756 active site residues [active] 1105103001757 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 1105103001758 IHF - DNA interface [nucleotide binding]; other site 1105103001759 IHF dimer interface [polypeptide binding]; other site 1105103001760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3022 1105103001761 hypothetical protein; Region: PHA00670 1105103001762 hypothetical protein; Region: PHA00670 1105103001763 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1105103001764 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1105103001765 active site 1105103001766 HIGH motif; other site 1105103001767 dimer interface [polypeptide binding]; other site 1105103001768 KMSKS motif; other site 1105103001769 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1105103001770 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105103001771 putative acyl-acceptor binding pocket; other site 1105103001772 Protein required for attachment to host cells [Cell motility and secretion]; Region: COG5622 1105103001773 RelB antitoxin; Region: RelB; cl01171 1105103001774 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1105103001775 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105103001776 HemY protein N-terminus; Region: HemY_N; pfam07219 1105103001777 Rickettsial palindromic element RPE2 domain; Region: RPE2; TIGR03774 1105103001778 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1105103001779 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 1105103001780 active site 1105103001781 Lysine efflux permease [General function prediction only]; Region: COG1279 1105103001782 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1105103001783 AmpG-like permease; Region: 2A0125; TIGR00901 1105103001784 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1105103001785 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 1105103001786 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105103001787 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1105103001788 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1105103001789 substrate binding pocket [chemical binding]; other site 1105103001790 chain length determination region; other site 1105103001791 substrate-Mg2+ binding site; other site 1105103001792 catalytic residues [active] 1105103001793 aspartate-rich region 1; other site 1105103001794 active site lid residues [active] 1105103001795 aspartate-rich region 2; other site 1105103001796 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1105103001797 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1105103001798 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 1105103001799 active site 1105103001800 arginine:agmatin antiporter; Provisional; Region: PRK10644 1105103001801 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1105103001802 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1105103001803 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1105103001804 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1105103001805 trimerization site [polypeptide binding]; other site 1105103001806 active site 1105103001807 cysteine desulfurase; Provisional; Region: PRK14012 1105103001808 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105103001809 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105103001810 catalytic residue [active] 1105103001811 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1105103001812 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105103001813 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105103001814 catalytic residue [active] 1105103001815 Predicted transcriptional regulator [Transcription]; Region: COG1959 1105103001816 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1105103001817 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1105103001818 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1105103001819 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1105103001820 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1105103001821 Coenzyme A binding pocket [chemical binding]; other site 1105103001822 Predicted acetyltransferase [General function prediction only]; Region: COG5628 1105103001823 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1105103001824 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 1105103001825 homotetramer interface [polypeptide binding]; other site 1105103001826 FMN binding site [chemical binding]; other site 1105103001827 homodimer contacts [polypeptide binding]; other site 1105103001828 putative active site [active] 1105103001829 putative substrate binding site [chemical binding]; other site 1105103001830 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1105103001831 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1105103001832 oligomer interface [polypeptide binding]; other site 1105103001833 active site residues [active] 1105103001834 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1105103001835 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 1105103001836 RNA binding site [nucleotide binding]; other site 1105103001837 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 1105103001838 RNA binding site [nucleotide binding]; other site 1105103001839 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 1105103001840 RNA binding site [nucleotide binding]; other site 1105103001841 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 1105103001842 RNA binding site [nucleotide binding]; other site 1105103001843 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 1105103001844 RNA binding site [nucleotide binding]; other site 1105103001845 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 1105103001846 RNA binding site [nucleotide binding]; other site 1105103001847 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 1105103001848 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 1105103001849 CMP-binding site; other site 1105103001850 The sites determining sugar specificity; other site 1105103001851 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 1105103001852 non-specific DNA binding site [nucleotide binding]; other site 1105103001853 salt bridge; other site 1105103001854 sequence-specific DNA binding site [nucleotide binding]; other site 1105103001855 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1105103001856 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1105103001857 hypothetical protein; Region: PHA00670 1105103001858 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1105103001859 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1105103001860 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1105103001861 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 1105103001862 domain interfaces; other site 1105103001863 active site 1105103001864 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1105103001865 dimer interface [polypeptide binding]; other site 1105103001866 catalytic triad [active] 1105103001867 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; cl00075 1105103001868 G-X-G motif; other site 1105103001869 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 1105103001870 dimer interface [polypeptide binding]; other site 1105103001871 phosphorylation site [posttranslational modification] 1105103001872 potential frameshift: common BLAST hit: gi|15892625|ref|NP_360339.1| sodium/pantothenate symporter 1105103001873 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 1105103001874 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105103001875 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1105103001876 Rickettsial palindromic element RPE2 domain; Region: RPE2; TIGR03774 1105103001877 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1105103001878 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1105103001879 Uncharacterized conserved protein [Function unknown]; Region: COG1723 1105103001880 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105103001881 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105103001882 catalytic site [active] 1105103001883 putative active site [active] 1105103001884 putative substrate binding site [chemical binding]; other site 1105103001885 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1105103001886 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1105103001887 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1105103001888 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1105103001889 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1105103001890 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105103001891 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105103001892 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1105103001893 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 1105103001894 S-adenosylmethionine binding site [chemical binding]; other site 1105103001895 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1105103001896 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1105103001897 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 1105103001898 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105103001899 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 1105103001900 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105103001901 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1105103001902 hypothetical protein; Validated; Region: PRK00110 1105103001903 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1105103001904 Substrate binding site; other site 1105103001905 Mg++ binding site; other site 1105103001906 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1105103001907 metal binding site [ion binding]; metal-binding site 1105103001908 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1105103001909 Coenzyme A binding pocket [chemical binding]; other site 1105103001910 AAA domain; Region: AAA_17; pfam13207 1105103001911 AAA domain; Region: AAA_18; pfam13238 1105103001912 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00196 1105103001913 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105103001914 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 1105103001915 dimer interface [polypeptide binding]; other site 1105103001916 allosteric magnesium binding site [ion binding]; other site 1105103001917 active site 1105103001918 aspartate-rich active site metal binding site; other site 1105103001919 Schiff base residues; other site 1105103001920 primosome assembly protein PriA; Validated; Region: PRK05580 1105103001921 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 1105103001922 ATP binding site [chemical binding]; other site 1105103001923 putative Mg++ binding site [ion binding]; other site 1105103001924 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1105103001925 aromatic acid decarboxylase; Validated; Region: PRK05920 1105103001926 Flavoprotein; Region: Flavoprotein; pfam02441 1105103001927 SacI restriction endonuclease; Region: RE_SacI; pfam09566 1105103001928 replicative DNA helicase; Provisional; Region: PRK09165 1105103001929 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1105103001930 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 1105103001931 Walker A motif; other site 1105103001932 ATP binding site [chemical binding]; other site 1105103001933 Walker B motif; other site 1105103001934 DNA binding loops [nucleotide binding] 1105103001935 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1105103001936 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1105103001937 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1105103001938 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1105103001939 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 1105103001940 RNA binding surface [nucleotide binding]; other site 1105103001941 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1105103001942 active site 1105103001943 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105103001944 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105103001945 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105103001946 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105103001947 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105103001948 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1105103001949 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 1105103001950 S-adenosylmethionine binding site [chemical binding]; other site 1105103001951 DNA repair protein RadA; Provisional; Region: PRK11823 1105103001952 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 1105103001953 Walker A motif/ATP binding site; other site 1105103001954 ATP binding site [chemical binding]; other site 1105103001955 Walker B motif; other site 1105103001956 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1105103001957 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1105103001958 Recombination protein O N terminal; Region: RecO_N; pfam11967 1105103001959 Recombination protein O C terminal; Region: RecO_C; pfam02565 1105103001960 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1105103001961 Glycoprotease family; Region: Peptidase_M22; pfam00814 1105103001962 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1105103001963 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1105103001964 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1105103001965 G1 box; other site 1105103001966 putative GEF interaction site [polypeptide binding]; other site 1105103001967 GTP/Mg2+ binding site [chemical binding]; other site 1105103001968 Switch I region; other site 1105103001969 G2 box; other site 1105103001970 G3 box; other site 1105103001971 Switch II region; other site 1105103001972 G4 box; other site 1105103001973 G5 box; other site 1105103001974 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 1105103001975 Translation-initiation factor 2; Region: IF-2; pfam11987 1105103001976 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 1105103001977 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1105103001978 NusA N-terminal domain; Region: NusA_N; pfam08529 1105103001979 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 1105103001980 RNA binding site [nucleotide binding]; other site 1105103001981 homodimer interface [polypeptide binding]; other site 1105103001982 NusA-like KH domain; Region: KH_5; pfam13184 1105103001983 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 1105103001984 G-X-X-G motif; other site 1105103001985 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1105103001986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1105103001987 Sm and related proteins; Region: Sm_like; cl00259 1105103001988 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1105103001989 putative oligomer interface [polypeptide binding]; other site 1105103001990 putative RNA binding site [nucleotide binding]; other site 1105103001991 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 1105103001992 NAD binding pocket [chemical binding]; other site 1105103001993 Predicted transcriptional regulator [Transcription]; Region: COG1959 1105103001994 Transcriptional regulator; Region: Rrf2; cl17282 1105103001995 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1105103001996 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 1105103001997 RNA binding surface [nucleotide binding]; other site 1105103001998 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1105103001999 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1105103002000 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1105103002001 active site 1105103002002 HIGH motif; other site 1105103002003 dimer interface [polypeptide binding]; other site 1105103002004 KMSKS motif; other site 1105103002005 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 1105103002006 RNA binding surface [nucleotide binding]; other site 1105103002007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 1105103002008 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1105103002009 proline/glycine betaine transporter; Provisional; Region: PRK10642 1105103002010 potential frameshift: common BLAST hit: gi|229586888|ref|YP_002845389.1| Large extracellular alpha-helical protein 1105103002011 potential frameshift: common BLAST hit: gi|157964695|ref|YP_001499519.1| large extracellular alpha-helical protein 1105103002012 potential frameshift: common BLAST hit: gi|350273648|ref|YP_004884961.1| large extracellular alpha-helical protein 1105103002013 potential frameshift: common BLAST hit: gi|229586888|ref|YP_002845389.1| Large extracellular alpha-helical protein 1105103002014 potential frameshift: common BLAST hit: gi|229586888|ref|YP_002845389.1| Large extracellular alpha-helical protein 1105103002015 potential frameshift: common BLAST hit: gi|67459282|ref|YP_246906.1| 3-hydroxyacyl-CoA dehydrogenase 1105103002016 potential frameshift: common BLAST hit: gi|67459282|ref|YP_246906.1| 3-hydroxyacyl-CoA dehydrogenase 1105103002017 potential frameshift: common BLAST hit: gi|67459282|ref|YP_246906.1| 3-hydroxyacyl-CoA dehydrogenase 1105103002018 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1105103002019 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1105103002020 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103002021 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 1105103002022 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1105103002023 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1105103002024 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1105103002025 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 1105103002026 active site 1105103002027 phosphorylation site [posttranslational modification] 1105103002028 intermolecular recognition site; other site 1105103002029 dimerization interface [polypeptide binding]; other site 1105103002030 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 1105103002031 Walker A motif; other site 1105103002032 ATP binding site [chemical binding]; other site 1105103002033 Walker B motif; other site 1105103002034 arginine finger; other site 1105103002035 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1105103002036 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105103002037 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105103002038 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105103002039 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1105103002040 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1105103002041 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105103002042 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105103002043 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1105103002044 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105103002045 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105103002046 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1105103002047 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1105103002048 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 1105103002049 S-adenosylmethionine binding site [chemical binding]; other site 1105103002050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1105103002051 MraZ protein; Region: MraZ; pfam02381 1105103002052 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105103002053 Na binding site [ion binding]; other site 1105103002054 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1105103002055 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1105103002056 GIY-YIG motif/motif A; other site 1105103002057 active site 1105103002058 catalytic site [active] 1105103002059 putative DNA binding site [nucleotide binding]; other site 1105103002060 metal binding site [ion binding]; metal-binding site 1105103002061 UvrB/uvrC motif; Region: UVR; pfam02151 1105103002062 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1105103002063 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1105103002064 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1105103002065 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1105103002066 active site 1105103002067 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 1105103002068 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1105103002069 active site 1105103002070 DNA binding site [nucleotide binding] 1105103002071 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1105103002072 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1105103002073 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1105103002074 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 1105103002075 DNA binding site [nucleotide binding] 1105103002076 active site 1105103002077 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 1105103002078 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105103002079 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1105103002080 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1105103002081 ATP binding site [chemical binding]; other site 1105103002082 putative Mg++ binding site [ion binding]; other site 1105103002083 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1105103002084 SEC-C motif; Region: SEC-C; pfam02810 1105103002085 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 1105103002086 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1105103002087 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1105103002088 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1105103002089 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1105103002090 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 1105103002091 hinge; other site 1105103002092 active site 1105103002093 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1105103002094 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 1105103002095 ATP binding site [chemical binding]; other site 1105103002096 Mg2+ binding site [ion binding]; other site 1105103002097 G-X-G motif; other site 1105103002098 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 1105103002099 anchoring element; other site 1105103002100 dimer interface [polypeptide binding]; other site 1105103002101 ATP binding site [chemical binding]; other site 1105103002102 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 1105103002103 active site 1105103002104 putative metal-binding site [ion binding]; other site 1105103002105 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105103002106 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1105103002107 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1105103002108 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 1105103002109 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1105103002110 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1105103002111 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 1105103002112 Divalent cation transporter; Region: MgtE; pfam01769 1105103002113 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105103002114 HD domain; Region: HD_4; pfam13328 1105103002115 Protein of unknown function (DUF969); Region: DUF969; cl01573 1105103002116 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 1105103002117 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105103002118 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1105103002119 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1105103002120 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1105103002121 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105103002122 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 1105103002123 Cu(I) binding site [ion binding]; other site 1105103002124 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1105103002125 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 1105103002126 dimer interface [polypeptide binding]; other site 1105103002127 substrate binding site [chemical binding]; other site 1105103002128 metal binding sites [ion binding]; metal-binding site 1105103002129 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103002130 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1105103002131 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1105103002132 TraX protein; Region: TraX; pfam05857 1105103002133 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1105103002134 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 1105103002135 ssDNA binding site; other site 1105103002136 generic binding surface II; other site 1105103002137 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 1105103002138 ATP binding site [chemical binding]; other site 1105103002139 putative Mg++ binding site [ion binding]; other site 1105103002140 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 1105103002141 nucleotide binding region [chemical binding]; other site 1105103002142 ATP-binding site [chemical binding]; other site 1105103002143 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1105103002144 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1105103002145 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1105103002146 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1105103002147 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 1105103002148 Mg++ binding site [ion binding]; other site 1105103002149 putative catalytic motif [active] 1105103002150 putative substrate binding site [chemical binding]; other site 1105103002151 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1105103002152 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105103002153 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105103002154 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105103002155 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1105103002156 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105103002157 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105103002158 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105103002159 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1105103002160 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1105103002161 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 1105103002162 ATP binding site [chemical binding]; other site 1105103002163 putative Mg++ binding site [ion binding]; other site 1105103002164 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 1105103002165 nucleotide binding region [chemical binding]; other site 1105103002166 ATP-binding site [chemical binding]; other site 1105103002167 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1105103002168 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1105103002169 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 1105103002170 active site residue [active] 1105103002171 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1105103002172 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1105103002173 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 1105103002174 Walker A motif; other site 1105103002175 ATP binding site [chemical binding]; other site 1105103002176 Walker B motif; other site 1105103002177 arginine finger; other site 1105103002178 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 1105103002179 DnaA box-binding interface [nucleotide binding]; other site 1105103002180 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 1105103002181 Patatin [General function prediction only]; Region: COG3621 1105103002182 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 1105103002183 active site 1105103002184 nucleophile elbow; other site 1105103002185 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105103002186 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105103002187 HEPN domain; Region: HEPN; cl00824 1105103002188 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1105103002189 metal binding triad [ion binding]; metal-binding site 1105103002190 GTP-binding protein YchF; Reviewed; Region: PRK09601 1105103002191 YchF GTPase; Region: YchF; cd01900 1105103002192 G1 box; other site 1105103002193 GTP/Mg2+ binding site [chemical binding]; other site 1105103002194 Switch I region; other site 1105103002195 G2 box; other site 1105103002196 Switch II region; other site 1105103002197 G3 box; other site 1105103002198 G4 box; other site 1105103002199 G5 box; other site 1105103002200 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 1105103002201 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1105103002202 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 1105103002203 putative active site [active] 1105103002204 catalytic residue [active] 1105103002205 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1105103002206 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1105103002207 5S rRNA interface [nucleotide binding]; other site 1105103002208 CTC domain interface [polypeptide binding]; other site 1105103002209 L16 interface [polypeptide binding]; other site 1105103002210 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1105103002211 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 1105103002212 FeS/SAM binding site; other site 1105103002213 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1105103002214 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1105103002215 23S rRNA binding site [nucleotide binding]; other site 1105103002216 L21 binding site [polypeptide binding]; other site 1105103002217 L13 binding site [polypeptide binding]; other site 1105103002218 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1105103002219 ribonuclease P; Reviewed; Region: rnpA; PRK01492 1105103002220 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105103002221 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1105103002222 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1105103002223 Cl binding site [ion binding]; other site 1105103002224 oligomer interface [polypeptide binding]; other site 1105103002225 potential frameshift: common BLAST hit: gi|157828799|ref|YP_001495041.1| acetyltransferase 1105103002226 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 1105103002227 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1105103002228 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 1105103002229 dimerization interface [polypeptide binding]; other site 1105103002230 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 1105103002231 dimer interface [polypeptide binding]; other site 1105103002232 phosphorylation site [posttranslational modification] 1105103002233 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 1105103002234 ATP binding site [chemical binding]; other site 1105103002235 Mg2+ binding site [ion binding]; other site 1105103002236 G-X-G motif; other site 1105103002237 Ribosomal protein S21 [Translation, ribosomal structure and biogenesis]; Region: RpsU; COG0828 1105103002238 Uncharacterized conserved protein [Function unknown]; Region: COG5590 1105103002239 COQ9; Region: COQ9; pfam08511 1105103002240 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1105103002241 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105103002242 HIGH motif; other site 1105103002243 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105103002244 active site 1105103002245 KMSKS motif; other site 1105103002246 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1105103002247 tRNA binding surface [nucleotide binding]; other site 1105103002248 anticodon binding site; other site 1105103002249 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 1105103002250 TPR motif; other site 1105103002251 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1105103002252 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1105103002253 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1105103002254 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1105103002255 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 1105103002256 carboxyltransferase (CT) interaction site; other site 1105103002257 biotinylation site [posttranslational modification]; other site 1105103002258 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1105103002259 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1105103002260 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1105103002261 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1105103002262 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 1105103002263 putative substrate translocation pore; other site 1105103002264 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105103002265 putative acyl-acceptor binding pocket; other site 1105103002266 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1105103002267 acyl-activating enzyme (AAE) consensus motif; other site 1105103002268 putative AMP binding site [chemical binding]; other site 1105103002269 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1105103002270 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1105103002271 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 1105103002272 ABC-ATPase subunit interface; other site 1105103002273 dimer interface [polypeptide binding]; other site 1105103002274 putative PBP binding regions; other site 1105103002275 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1105103002276 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103002277 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 1105103002278 S-adenosylmethionine binding site [chemical binding]; other site 1105103002279 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 1105103002280 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105103002281 HIGH motif; other site 1105103002282 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105103002283 active site 1105103002284 KMSKS motif; other site 1105103002285 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103002286 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1105103002287 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1105103002288 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 1105103002289 ring oligomerisation interface [polypeptide binding]; other site 1105103002290 ATP/Mg binding site [chemical binding]; other site 1105103002291 stacking interactions; other site 1105103002292 hinge regions; other site 1105103002293 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 1105103002294 oligomerisation interface [polypeptide binding]; other site 1105103002295 mobile loop; other site 1105103002296 roof hairpin; other site 1105103002297 potential frameshift: common BLAST hit: gi|67458799|ref|YP_246423.1| glycosyltransferase 1105103002298 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 1105103002299 potential frameshift: common BLAST hit: gi|67458799|ref|YP_246423.1| glycosyltransferase 1105103002300 ribonuclease PH; Reviewed; Region: rph; PRK00173 1105103002301 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1105103002302 hexamer interface [polypeptide binding]; other site 1105103002303 active site 1105103002304 GrpE; Region: GrpE; pfam01025 1105103002305 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 1105103002306 dimer interface [polypeptide binding]; other site 1105103002307 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1105103002308 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1105103002309 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1105103002310 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1105103002311 hypothetical protein; Validated; Region: PRK06620 1105103002312 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105103002313 potential frameshift: common BLAST hit: gi|67458789|ref|YP_246413.1| MFS type sugar transporter 1105103002314 HD domain; Region: HD_4; pfam13328 1105103002315 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1105103002316 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1105103002317 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1105103002318 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1105103002319 alphaNTD - beta interaction site [polypeptide binding]; other site 1105103002320 alphaNTD homodimer interface [polypeptide binding]; other site 1105103002321 alphaNTD - beta' interaction site [polypeptide binding]; other site 1105103002322 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1105103002323 30S ribosomal protein S11; Validated; Region: PRK05309 1105103002324 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1105103002325 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1105103002326 adenylate kinase; Reviewed; Region: adk; PRK00279 1105103002327 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 1105103002328 AMP-binding site [chemical binding]; other site 1105103002329 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1105103002330 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1105103002331 SecY translocase; Region: SecY; pfam00344 1105103002332 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1105103002333 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 1105103002334 23S rRNA binding site [nucleotide binding]; other site 1105103002335 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1105103002336 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1105103002337 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1105103002338 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 1105103002339 5S rRNA interface [nucleotide binding]; other site 1105103002340 23S rRNA interface [nucleotide binding]; other site 1105103002341 L5 interface [polypeptide binding]; other site 1105103002342 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1105103002343 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105103002344 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105103002345 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1105103002346 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1105103002347 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1105103002348 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1105103002349 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1105103002350 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1105103002351 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1105103002352 RNA binding site [nucleotide binding]; other site 1105103002353 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1105103002354 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1105103002355 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 1105103002356 L23 interface [polypeptide binding]; other site 1105103002357 trigger factor interaction site; other site 1105103002358 23S rRNA interface [nucleotide binding]; other site 1105103002359 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 1105103002360 23S rRNA interface [nucleotide binding]; other site 1105103002361 5S rRNA interface [nucleotide binding]; other site 1105103002362 putative antibiotic binding site [chemical binding]; other site 1105103002363 L25 interface [polypeptide binding]; other site 1105103002364 L27 interface [polypeptide binding]; other site 1105103002365 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1105103002366 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 1105103002367 G-X-X-G motif; other site 1105103002368 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1105103002369 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 1105103002370 putative translocon binding site; other site 1105103002371 protein-rRNA interface [nucleotide binding]; other site 1105103002372 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1105103002373 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1105103002374 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1105103002375 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1105103002376 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1105103002377 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1105103002378 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1105103002379 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1105103002380 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103002381 elongation factor Tu; Reviewed; Region: PRK00049 1105103002382 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1105103002383 G1 box; other site 1105103002384 GEF interaction site [polypeptide binding]; other site 1105103002385 GTP/Mg2+ binding site [chemical binding]; other site 1105103002386 Switch I region; other site 1105103002387 G2 box; other site 1105103002388 G3 box; other site 1105103002389 Switch II region; other site 1105103002390 G4 box; other site 1105103002391 G5 box; other site 1105103002392 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 1105103002393 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 1105103002394 Antibiotic Binding Site [chemical binding]; other site 1105103002395 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1105103002396 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1105103002397 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1105103002398 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1105103002399 Class II fumarases; Region: Fumarase_classII; cd01362 1105103002400 active site 1105103002401 tetramer interface [polypeptide binding]; other site 1105103002402 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1105103002403 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1105103002404 putative active site [active] 1105103002405 homotetrameric interface [polypeptide binding]; other site 1105103002406 cell division protein FtsZ; Validated; Region: PRK09330 1105103002407 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 1105103002408 nucleotide binding site [chemical binding]; other site 1105103002409 SulA interaction site; other site 1105103002410 Serine protease inhibitor ecotin [General function prediction only]; Region: Eco; COG4574 1105103002411 secondary substrate binding site; other site 1105103002412 primary substrate binding site; other site 1105103002413 inhibition loop; other site 1105103002414 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1105103002415 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1105103002416 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 1105103002417 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1105103002418 putative substrate translocation pore; other site 1105103002419 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 1105103002420 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1105103002421 ATP binding site [chemical binding]; other site 1105103002422 Mg++ binding site [ion binding]; other site 1105103002423 motif III; other site 1105103002424 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 1105103002425 nucleotide binding region [chemical binding]; other site 1105103002426 ATP-binding site [chemical binding]; other site 1105103002427 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 1105103002428 DNA-binding site [nucleotide binding]; DNA binding site 1105103002429 RNA-binding motif; other site 1105103002430 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1105103002431 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 1105103002432 S-adenosylmethionine binding site [chemical binding]; other site 1105103002433 SurA N-terminal domain; Region: SurA_N_3; cl07813 1105103002434 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1105103002435 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1105103002436 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1105103002437 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 1105103002438 generic binding surface II; other site 1105103002439 generic binding surface I; other site 1105103002440 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1105103002441 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 1105103002442 putative catalytic site [active] 1105103002443 putative phosphate binding site [ion binding]; other site 1105103002444 active site 1105103002445 metal binding site A [ion binding]; metal-binding site 1105103002446 DNA binding site [nucleotide binding] 1105103002447 putative AP binding site [nucleotide binding]; other site 1105103002448 putative metal binding site B [ion binding]; other site 1105103002449 Uncharacterized conserved protein [Function unknown]; Region: COG4095 1105103002450 GTP-binding protein Der; Reviewed; Region: PRK00093 1105103002451 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1105103002452 G1 box; other site 1105103002453 GTP/Mg2+ binding site [chemical binding]; other site 1105103002454 Switch I region; other site 1105103002455 G2 box; other site 1105103002456 Switch II region; other site 1105103002457 G3 box; other site 1105103002458 G4 box; other site 1105103002459 G5 box; other site 1105103002460 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1105103002461 G1 box; other site 1105103002462 GTP/Mg2+ binding site [chemical binding]; other site 1105103002463 Switch I region; other site 1105103002464 G2 box; other site 1105103002465 G3 box; other site 1105103002466 Switch II region; other site 1105103002467 G4 box; other site 1105103002468 G5 box; other site 1105103002469 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1105103002470 AAA domain; Region: AAA_14; pfam13173 1105103002471 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1105103002472 ABC1 family; Region: ABC1; pfam03109 1105103002473 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1105103002474 active site 1105103002475 ATP binding site [chemical binding]; other site 1105103002476 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1105103002477 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 1105103002478 S-adenosylmethionine binding site [chemical binding]; other site 1105103002479 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1105103002480 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1105103002481 DNA binding site [nucleotide binding] 1105103002482 catalytic residue [active] 1105103002483 H2TH interface [polypeptide binding]; other site 1105103002484 putative catalytic residues [active] 1105103002485 turnover-facilitating residue; other site 1105103002486 intercalation triad [nucleotide binding]; other site 1105103002487 8OG recognition residue [nucleotide binding]; other site 1105103002488 putative reading head residues; other site 1105103002489 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1105103002490 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1105103002491 potential frameshift: common BLAST hit: gi|15892962|ref|NP_360676.1| mannose-1-phosphate guanylyltransferase 1105103002492 potential frameshift: common BLAST hit: gi|15892963|ref|NP_360677.1| mannose-1-phosphate guanylyltransferase 1105103002493 potential frameshift: common BLAST hit: gi|67458630|ref|YP_246254.1| Poly-beta-hydroxyalkanoate depolymerase 1105103002494 Protein of unknown function (DUF511); Region: DUF511; cl01114 1105103002495 Protein of unknown function (DUF511); Region: DUF511; cl01114 1105103002496 Protein of unknown function (DUF511); Region: DUF511; cl01114 1105103002497 Protein of unknown function (DUF511); Region: DUF511; cl01114 1105103002498 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1105103002499 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1105103002500 active site 1105103002501 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1105103002502 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1105103002503 HIGH motif; other site 1105103002504 active site 1105103002505 KMSKS motif; other site 1105103002506 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1105103002507 tRNA binding surface [nucleotide binding]; other site 1105103002508 anticodon binding site; other site 1105103002509 thymidylate kinase; Validated; Region: tmk; PRK00698 1105103002510 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 1105103002511 TMP-binding site; other site 1105103002512 ATP-binding site [chemical binding]; other site 1105103002513 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105103002514 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 1105103002515 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105103002516 potential frameshift: common BLAST hit: gi|350273815|ref|YP_004885128.1| transposase 1105103002517 potential frameshift: common BLAST hit: gi|67458622|ref|YP_246246.1| transposase 1105103002518 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1105103002519 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105103002520 active site 1105103002521 HIGH motif; other site 1105103002522 nucleotide binding site [chemical binding]; other site 1105103002523 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105103002524 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105103002525 active site 1105103002526 KMSKS motif; other site 1105103002527 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1105103002528 tRNA binding surface [nucleotide binding]; other site 1105103002529 anticodon binding site; other site 1105103002530 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105103002531 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105103002532 potential frameshift: common BLAST hit: gi|157804076|ref|YP_001492625.1| ATPase 1105103002533 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1105103002534 RmuC family; Region: RmuC; pfam02646 1105103002535 potential frameshift: common BLAST hit: gi|341584242|ref|YP_004764733.1| Alpha-(1,3)-fucosyltransferase 1105103002536 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; cl01298 1105103002537 DoxX-like family; Region: DoxX_3; pfam13781 1105103002538 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1105103002539 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1105103002540 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 1105103002541 Walker A motif; other site 1105103002542 ATP binding site [chemical binding]; other site 1105103002543 Walker B motif; other site 1105103002544 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105103002545 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1105103002546 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1105103002547 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 1105103002548 Ligand Binding Site [chemical binding]; other site 1105103002549 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1105103002550 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1105103002551 HicB family; Region: HicB; pfam05534 1105103002552 YcfA-like protein; Region: YcfA; cl00752 1105103002553 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1105103002554 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105103002555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103002556 Walker A/P-loop; other site 1105103002557 ATP binding site [chemical binding]; other site 1105103002558 Q-loop/lid; other site 1105103002559 ABC transporter signature motif; other site 1105103002560 Walker B; other site 1105103002561 D-loop; other site 1105103002562 H-loop/switch region; other site 1105103002563 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 1105103002564 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105103002565 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 1105103002566 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1105103002567 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1105103002568 FtsX-like permease family; Region: FtsX; pfam02687 1105103002569 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1105103002570 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1105103002571 Walker A/P-loop; other site 1105103002572 ATP binding site [chemical binding]; other site 1105103002573 Q-loop/lid; other site 1105103002574 ABC transporter signature motif; other site 1105103002575 Walker B; other site 1105103002576 D-loop; other site 1105103002577 H-loop/switch region; other site 1105103002578 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1105103002579 Domain of unknown function DUF21; Region: DUF21; pfam01595 1105103002580 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 1105103002581 Transporter associated domain; Region: CorC_HlyC; smart01091 1105103002582 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1105103002583 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 1105103002584 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1105103002585 Autotransporter beta-domain; Region: Autotransporter; smart00869 1105103002586 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105103002587 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1105103002588 synthetase active site [active] 1105103002589 NTP binding site [chemical binding]; other site 1105103002590 metal binding site [ion binding]; metal-binding site 1105103002591 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1105103002592 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1105103002593 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1105103002594 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1105103002595 DNA binding residues [nucleotide binding] 1105103002596 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 1105103002597 IHF dimer interface [polypeptide binding]; other site 1105103002598 IHF - DNA interface [nucleotide binding]; other site 1105103002599 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1105103002600 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 1105103002601 catalytic triad [active] 1105103002602 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1105103002603 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1105103002604 putative acyl-acceptor binding pocket; other site 1105103002605 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1105103002606 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1105103002607 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1105103002608 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105103002609 Protein of unknown function (DUF519); Region: DUF519; pfam04378 1105103002610 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1105103002611 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 1105103002612 nucleotide binding pocket [chemical binding]; other site 1105103002613 K-X-D-G motif; other site 1105103002614 catalytic site [active] 1105103002615 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1105103002616 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1105103002617 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 1105103002618 Dimer interface [polypeptide binding]; other site 1105103002619 BRCT sequence motif; other site 1105103002620 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1105103002621 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1105103002622 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105103002623 HD domain; Region: HD_4; pfam13328 1105103002624 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 1105103002625 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1105103002626 mce related protein; Region: MCE; pfam02470 1105103002627 hypothetical protein; Provisional; Region: PRK06630 1105103002628 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1105103002629 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105103002630 active site 1105103002631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1105103002632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1105103002633 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1105103002634 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 1105103002635 CoA-binding site [chemical binding]; other site 1105103002636 ATP-binding [chemical binding]; other site 1105103002637 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1105103002638 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 1105103002639 active site 1105103002640 catalytic site [active] 1105103002641 substrate binding site [chemical binding]; other site 1105103002642 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 1105103002643 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105103002644 Part of AAA domain; Region: AAA_19; pfam13245 1105103002645 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105103002646 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1105103002647 Family description; Region: UvrD_C_2; pfam13538 1105103002648 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1105103002649 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1105103002650 potential frameshift: common BLAST hit: gi|67458557|ref|YP_246181.1| superfamily I DNA/RNA helicase 1105103002651 potential frameshift: common BLAST hit: gi|67458557|ref|YP_246181.1| superfamily I DNA/RNA helicase 1105103002652 potential frameshift: common BLAST hit: gi|341584292|ref|YP_004764783.1| superfamily I DNA/RNA helicase 1105103002653 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105103002654 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105103002655 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 1105103002656 nudix motif; other site 1105103002657 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1105103002658 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 1105103002659 Transporter associated domain; Region: CorC_HlyC; smart01091 1105103002660 metal-binding heat shock protein; Provisional; Region: PRK00016 1105103002661 PemK-like protein; Region: PemK; cl00995 1105103002662 lipoyl synthase; Provisional; Region: PRK05481 1105103002663 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 1105103002664 FeS/SAM binding site; other site 1105103002665 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1105103002666 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 1105103002667 dimer interface [polypeptide binding]; other site 1105103002668 active site 1105103002669 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1105103002670 folate binding site [chemical binding]; other site 1105103002671 Predicted esterase [General function prediction only]; Region: COG0400 1105103002672 putative hydrolase; Provisional; Region: PRK11460 1105103002673 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 1105103002674 putative GSH binding site [chemical binding]; other site 1105103002675 catalytic residues [active] 1105103002676 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1105103002677 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1105103002678 minor groove reading motif; other site 1105103002679 helix-hairpin-helix signature motif; other site 1105103002680 substrate binding pocket [chemical binding]; other site 1105103002681 active site 1105103002682 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1105103002683 Predicted small secreted protein [Function unknown]; Region: COG5510 1105103002684 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103002685 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103002686 Predicted methyltransferases [General function prediction only]; Region: COG0313 1105103002687 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1105103002688 putative SAM binding site [chemical binding]; other site 1105103002689 putative homodimer interface [polypeptide binding]; other site 1105103002690 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1105103002691 putative ligand binding site [chemical binding]; other site 1105103002692 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 1105103002693 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1105103002694 tetramer interfaces [polypeptide binding]; other site 1105103002695 binuclear metal-binding site [ion binding]; other site 1105103002696 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1105103002697 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1105103002698 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1105103002699 aspartate kinase; Reviewed; Region: PRK06635 1105103002700 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 1105103002701 putative nucleotide binding site [chemical binding]; other site 1105103002702 putative catalytic residues [active] 1105103002703 putative Mg ion binding site [ion binding]; other site 1105103002704 putative aspartate binding site [chemical binding]; other site 1105103002705 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 1105103002706 putative allosteric regulatory residue; other site 1105103002707 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 1105103002708 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105103002709 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1105103002710 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1105103002711 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1105103002712 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 1105103002713 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105103002714 putative substrate translocation pore; other site 1105103002715 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1105103002716 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103002717 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1105103002718 Helix-turn-helix domain; Region: HTH_25; pfam13413 1105103002719 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 1105103002720 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1105103002721 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1105103002722 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1105103002723 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1105103002724 G1 box; other site 1105103002725 GTP/Mg2+ binding site [chemical binding]; other site 1105103002726 Switch I region; other site 1105103002727 G2 box; other site 1105103002728 Switch II region; other site 1105103002729 G3 box; other site 1105103002730 G4 box; other site 1105103002731 G5 box; other site 1105103002732 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1105103002733 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1105103002734 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 1105103002735 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 1105103002736 hexamer interface [polypeptide binding]; other site 1105103002737 Walker A motif; other site 1105103002738 ATP binding site [chemical binding]; other site 1105103002739 Walker B motif; other site 1105103002740 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1105103002741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1105103002742 NAD(P) binding site [chemical binding]; other site 1105103002743 active site 1105103002744 acyl carrier protein; Provisional; Region: acpP; PRK00982 1105103002745 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1105103002746 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 1105103002747 dimer interface [polypeptide binding]; other site 1105103002748 active site 1105103002749 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1105103002750 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105103002751 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105103002752 endonuclease subunit; Provisional; Region: 46; PHA02562 1105103002753 AAA domain; Region: AAA_14; pfam13173 1105103002754 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1105103002755 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103002756 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1105103002757 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 1105103002758 catalytic site [active] 1105103002759 G-X2-G-X-G-K; other site 1105103002760 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 1105103002761 sequence-specific DNA binding site [nucleotide binding]; other site 1105103002762 salt bridge; other site 1105103002763 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1105103002764 rod shape-determining protein MreC; Region: MreC; pfam04085 1105103002765 rod shape-determining protein MreB; Provisional; Region: PRK13927 1105103002766 MreB and similar proteins; Region: MreB_like; cd10225 1105103002767 nucleotide binding site [chemical binding]; other site 1105103002768 Mg binding site [ion binding]; other site 1105103002769 putative protofilament interaction site [polypeptide binding]; other site 1105103002770 RodZ interaction site [polypeptide binding]; other site 1105103002771 Predicted permeases [General function prediction only]; Region: COG0795 1105103002772 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105103002773 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1105103002774 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1105103002775 ligand binding site [chemical binding]; other site 1105103002776 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105103002777 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1105103002778 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 1105103002779 dimer interface [polypeptide binding]; other site 1105103002780 active site 1105103002781 CoA binding pocket [chemical binding]; other site 1105103002782 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1105103002783 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1105103002784 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1105103002785 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1105103002786 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1105103002787 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 1105103002788 P loop; other site 1105103002789 GTP binding site [chemical binding]; other site 1105103002790 DNA polymerase I; Provisional; Region: PRK05755 1105103002791 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1105103002792 active site 1105103002793 metal binding site 1 [ion binding]; metal-binding site 1105103002794 putative 5' ssDNA interaction site; other site 1105103002795 metal binding site 3; metal-binding site 1105103002796 metal binding site 2 [ion binding]; metal-binding site 1105103002797 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1105103002798 putative DNA binding site [nucleotide binding]; other site 1105103002799 putative metal binding site [ion binding]; other site 1105103002800 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1105103002801 active site 1105103002802 substrate binding site [chemical binding]; other site 1105103002803 catalytic site [active] 1105103002804 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1105103002805 active site 1105103002806 DNA binding site [nucleotide binding] 1105103002807 catalytic site [active] 1105103002808 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1105103002809 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1105103002810 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1105103002811 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1105103002812 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1105103002813 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1105103002814 putative active site [active] 1105103002815 putative PHP Thumb interface [polypeptide binding]; other site 1105103002816 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 1105103002817 generic binding surface I; other site 1105103002818 generic binding surface II; other site 1105103002819 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1105103002820 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1105103002821 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1105103002822 Protein of unknown function; Region: DUF3971; pfam13116 1105103002823 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105103002824 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 1105103002825 putative substrate translocation pore; other site 1105103002826 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1105103002827 seryl-tRNA synthetase; Provisional; Region: PRK05431 1105103002828 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1105103002829 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 1105103002830 dimer interface [polypeptide binding]; other site 1105103002831 active site 1105103002832 motif 1; other site 1105103002833 motif 2; other site 1105103002834 motif 3; other site 1105103002835 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105103002836 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1105103002837 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105103002838 Integral membrane protein TerC family; Region: TerC; cl10468 1105103002839 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105103002840 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105103002841 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 1105103002842 S-adenosylmethionine binding site [chemical binding]; other site 1105103002843 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105103002844 Predicted transcriptional regulator [Transcription]; Region: COG2944 1105103002845 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 1105103002846 salt bridge; other site 1105103002847 non-specific DNA binding site [nucleotide binding]; other site 1105103002848 sequence-specific DNA binding site [nucleotide binding]; other site 1105103002849 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1105103002850 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1105103002851 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1105103002852 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1105103002853 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1105103002854 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105103002855 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1105103002856 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105103002857 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 1105103002858 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103002859 Walker A/P-loop; other site 1105103002860 ATP binding site [chemical binding]; other site 1105103002861 Q-loop/lid; other site 1105103002862 ABC transporter signature motif; other site 1105103002863 Walker B; other site 1105103002864 D-loop; other site 1105103002865 H-loop/switch region; other site 1105103002866 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1105103002867 4Fe-4S binding domain; Region: Fer4; cl02805 1105103002868 4Fe-4S binding domain; Region: Fer4; pfam00037 1105103002869 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1105103002870 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1105103002871 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1105103002872 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 1105103002873 catalytic loop [active] 1105103002874 iron binding site [ion binding]; other site 1105103002875 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1105103002876 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 1105103002877 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1105103002878 Predicted membrane protein [Function unknown]; Region: COG3671 1105103002879 aconitate hydratase; Validated; Region: PRK09277 1105103002880 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1105103002881 substrate binding site [chemical binding]; other site 1105103002882 ligand binding site [chemical binding]; other site 1105103002883 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 1105103002884 substrate binding site [chemical binding]; other site 1105103002885 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 1105103002886 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1105103002887 gamma subunit interface [polypeptide binding]; other site 1105103002888 epsilon subunit interface [polypeptide binding]; other site 1105103002889 LBP interface [polypeptide binding]; other site 1105103002890 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1105103002891 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105103002892 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 1105103002893 alpha subunit interaction interface [polypeptide binding]; other site 1105103002894 Walker A motif; other site 1105103002895 ATP binding site [chemical binding]; other site 1105103002896 Walker B motif; other site 1105103002897 inhibitor binding site; inhibition site 1105103002898 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105103002899 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1105103002900 core domain interface [polypeptide binding]; other site 1105103002901 delta subunit interface [polypeptide binding]; other site 1105103002902 epsilon subunit interface [polypeptide binding]; other site 1105103002903 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1105103002904 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105103002905 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 1105103002906 beta subunit interaction interface [polypeptide binding]; other site 1105103002907 Walker A motif; other site 1105103002908 ATP binding site [chemical binding]; other site 1105103002909 Walker B motif; other site 1105103002910 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105103002911 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1105103002912 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1105103002913 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1105103002914 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1105103002915 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105103002916 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105103002917 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1105103002918 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1105103002919 dimerization interface [polypeptide binding]; other site 1105103002920 DPS ferroxidase diiron center [ion binding]; other site 1105103002921 ion pore; other site 1105103002922 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105103002923 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1105103002924 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1105103002925 Transglycosylase; Region: Transgly; pfam00912 1105103002926 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105103002927 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1105103002928 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105103002929 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 1105103002930 FeS/SAM binding site; other site 1105103002931 TRAM domain; Region: TRAM; pfam01938 1105103002932 HEPN domain; Region: HEPN; cl00824 1105103002933 potential frameshift: common BLAST hit: gi|67459332|ref|YP_246956.1| nucleotidyltransferase/HEPN domain-containing protein 1105103002934 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103002935 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105103002936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1105103002937 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105103002938 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105103002939 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1105103002940 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1105103002941 TrkA-N domain; Region: TrkA_N; pfam02254 1105103002942 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1105103002943 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105103002944 potential frameshift: common BLAST hit: gi|67459682|ref|YP_247306.1| cell surface antigen-like protein Sca13 1105103002945 potential frameshift: common BLAST hit: gi|67459682|ref|YP_247306.1| cell surface antigen-like protein Sca13 1105103002946 potential frameshift: common BLAST hit: gi|67459682|ref|YP_247306.1| cell surface antigen-like protein Sca13 1105103002947 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 1105103002948 rRNA binding site [nucleotide binding]; other site 1105103002949 predicted 30S ribosome binding site; other site 1105103002950 Maf-like protein; Region: Maf; pfam02545 1105103002951 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 1105103002952 active site 1105103002953 dimer interface [polypeptide binding]; other site 1105103002954 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1105103002955 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1105103002956 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 1105103002957 active site 1105103002958 DNA binding site [nucleotide binding] 1105103002959 Int/Topo IB signature motif; other site 1105103002960 Phasin protein; Region: Phasin_2; cl11491 1105103002961 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1105103002962 PLD-like domain; Region: PLDc_2; pfam13091 1105103002963 putative active site [active] 1105103002964 catalytic site [active] 1105103002965 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105103002966 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105103002967 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1105103002968 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1105103002969 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1105103002970 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1105103002971 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105103002972 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1105103002973 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1105103002974 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1105103002975 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1105103002976 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 1105103002977 active site 1105103002978 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1105103002979 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1105103002980 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1105103002981 MPN+ (JAMM) motif; other site 1105103002982 Zinc-binding site [ion binding]; other site 1105103002983 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1105103002984 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 1105103002985 Mg++ binding site [ion binding]; other site 1105103002986 putative catalytic motif [active] 1105103002987 putative substrate binding site [chemical binding]; other site 1105103002988 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1105103002989 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105103002990 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105103002991 Ferredoxin [Energy production and conversion]; Region: COG1146 1105103002992 4Fe-4S binding domain; Region: Fer4; cl02805 1105103002993 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1105103002994 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 1105103002995 nucleoside/Zn binding site; other site 1105103002996 dimer interface [polypeptide binding]; other site 1105103002997 catalytic motif [active] 1105103002998 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1105103002999 Cation efflux family; Region: Cation_efflux; cl00316 1105103003000 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1105103003001 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1105103003002 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1105103003003 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1105103003004 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1105103003005 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105103003006 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105103003007 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1105103003008 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1105103003009 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 1105103003010 dimer interface [polypeptide binding]; other site 1105103003011 ssDNA binding site [nucleotide binding]; other site 1105103003012 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105103003013 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1105103003014 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1105103003015 hypothetical protein; Reviewed; Region: PRK01530 1105103003016 heat shock protein 90; Provisional; Region: PRK05218 1105103003017 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 1105103003018 ATP binding site [chemical binding]; other site 1105103003019 Mg2+ binding site [ion binding]; other site 1105103003020 G-X-G motif; other site 1105103003021 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1105103003022 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 1105103003023 substrate-cofactor binding pocket; other site 1105103003024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105103003025 catalytic residue [active] 1105103003026 trigger factor; Provisional; Region: tig; PRK01490 1105103003027 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105103003028 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1105103003029 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1105103003030 GTP1/OBG; Region: GTP1_OBG; pfam01018 1105103003031 Obg GTPase; Region: Obg; cd01898 1105103003032 G1 box; other site 1105103003033 GTP/Mg2+ binding site [chemical binding]; other site 1105103003034 Switch I region; other site 1105103003035 G2 box; other site 1105103003036 G3 box; other site 1105103003037 Switch II region; other site 1105103003038 G4 box; other site 1105103003039 G5 box; other site 1105103003040 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 1105103003041 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1105103003042 dimer interface [polypeptide binding]; other site 1105103003043 active site 1105103003044 citrylCoA binding site [chemical binding]; other site 1105103003045 NADH binding [chemical binding]; other site 1105103003046 cationic pore residues; other site 1105103003047 oxalacetate/citrate binding site [chemical binding]; other site 1105103003048 coenzyme A binding site [chemical binding]; other site 1105103003049 catalytic triad [active] 1105103003050 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1105103003051 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1105103003052 Fe-S cluster binding site [ion binding]; other site 1105103003053 active site 1105103003054 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105103003055 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 1105103003056 RNA binding surface [nucleotide binding]; other site 1105103003057 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105103003058 active site 1105103003059 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 1105103003060 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 1105103003061 S-adenosylmethionine binding site [chemical binding]; other site 1105103003062 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1105103003063 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1105103003064 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1105103003065 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 1105103003066 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105103003067 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1105103003068 motif 1; other site 1105103003069 dimer interface [polypeptide binding]; other site 1105103003070 active site 1105103003071 motif 2; other site 1105103003072 motif 3; other site 1105103003073 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 1105103003074 oligomeric interface; other site 1105103003075 putative active site [active] 1105103003076 homodimer interface [polypeptide binding]; other site 1105103003077 prevent-host-death family protein; Region: phd_fam; TIGR01552 1105103003078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1105103003079 potential frameshift: common BLAST hit: gi|350273988|ref|YP_004885301.1| proline/betaine transporter 1105103003080 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1105103003081 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 1105103003082 motif 1; other site 1105103003083 active site 1105103003084 motif 2; other site 1105103003085 motif 3; other site 1105103003086 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105103003087 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1105103003088 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1105103003089 dimerization interface 3.5A [polypeptide binding]; other site 1105103003090 active site 1105103003091 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1105103003092 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1105103003093 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105103003094 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105103003095 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1105103003096 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 1105103003097 DNA binding residues [nucleotide binding] 1105103003098 DNA primase, catalytic core; Region: dnaG; TIGR01391 1105103003099 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1105103003100 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1105103003101 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 1105103003102 active site 1105103003103 metal binding site [ion binding]; metal-binding site 1105103003104 interdomain interaction site; other site 1105103003105 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1105103003106 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1105103003107 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1105103003108 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1105103003109 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105103003110 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1105103003111 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1105103003112 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105103003113 ligand binding site [chemical binding]; other site 1105103003114 homodimer interface [polypeptide binding]; other site 1105103003115 NAD(P) binding site [chemical binding]; other site 1105103003116 trimer interface B [polypeptide binding]; other site 1105103003117 trimer interface A [polypeptide binding]; other site 1105103003118 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1105103003119 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1105103003120 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 1105103003121 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 1105103003122 Walker A motif; other site 1105103003123 ATP binding site [chemical binding]; other site 1105103003124 Walker B motif; other site 1105103003125 arginine finger; other site 1105103003126 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1105103003127 hypothetical protein; Validated; Region: PRK00153 1105103003128 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1105103003129 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1105103003130 catalytic motif [active] 1105103003131 Catalytic residue [active] 1105103003132 Beta-lactamase; Region: Beta-lactamase; cl17358 1105103003133 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1105103003134 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1105103003135 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105103003136 Walker A/P-loop; other site 1105103003137 ATP binding site [chemical binding]; other site 1105103003138 Q-loop/lid; other site 1105103003139 ABC transporter signature motif; other site 1105103003140 Walker B; other site 1105103003141 D-loop; other site 1105103003142 H-loop/switch region; other site 1105103003143 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1105103003144 putative hydrolase; Provisional; Region: PRK02113 1105103003145 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 1105103003146 active site 1105103003147 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 1105103003148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1105103003149 Predicted permeases [General function prediction only]; Region: COG0795 1105103003150 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105103003151 DNA polymerase III subunit chi; Provisional; Region: PRK06646 1105103003152 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1105103003153 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1105103003154 metal binding site [ion binding]; metal-binding site 1105103003155 dimer interface [polypeptide binding]; other site 1105103003156 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1105103003157 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1105103003158 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1105103003159 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1105103003160 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1105103003161 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 1105103003162 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1105103003163 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 1105103003164 putative active site [active] 1105103003165 lipoate-protein ligase B; Provisional; Region: PRK14347 1105103003166 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1105103003167 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 1105103003168 amidase catalytic site [active] 1105103003169 Zn binding residues [ion binding]; other site 1105103003170 substrate binding site [chemical binding]; other site 1105103003171 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1105103003172 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1105103003173 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 1105103003174 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1105103003175 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 1105103003176 ATP binding site [chemical binding]; other site 1105103003177 Mg2+ binding site [ion binding]; other site 1105103003178 G-X-G motif; other site 1105103003179 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 1105103003180 ATP binding site [chemical binding]; other site 1105103003181 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1105103003182 Zinc-finger domain; Region: zf-CHCC; cl01821 1105103003183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1105103003184 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1105103003185 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 1105103003186 TPR motif; other site 1105103003187 TPR repeat; Region: TPR_11; pfam13414 1105103003188 binding surface 1105103003189 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 1105103003190 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105103003191 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 1105103003192 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1105103003193 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1105103003194 potential frameshift: common BLAST hit: gi|67459789|ref|YP_247413.1| prophage antirepressor 1105103003195 TIGR00701 family protein; Region: TIGR00701 1105103003196 ferrochelatase; Reviewed; Region: hemH; PRK00035 1105103003197 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 1105103003198 C-terminal domain interface [polypeptide binding]; other site 1105103003199 active site 1105103003200 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 1105103003201 active site 1105103003202 N-terminal domain interface [polypeptide binding]; other site 1105103003203 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1105103003204 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 1105103003205 substrate binding site [chemical binding]; other site 1105103003206 active site