-- dump date 20140620_034954 -- class Genbank::misc_feature -- table misc_feature_note -- id note 452659000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 452659000002 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 452659000003 catalytic residues [active] 452659000004 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 452659000005 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 452659000006 Walker A/P-loop; other site 452659000007 ATP binding site [chemical binding]; other site 452659000008 Q-loop/lid; other site 452659000009 ABC transporter signature motif; other site 452659000010 Walker B; other site 452659000011 D-loop; other site 452659000012 H-loop/switch region; other site 452659000013 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 452659000014 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 452659000015 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 452659000016 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 452659000017 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 452659000018 FAD binding pocket [chemical binding]; other site 452659000019 FAD binding motif [chemical binding]; other site 452659000020 phosphate binding motif [ion binding]; other site 452659000021 beta-alpha-beta structure motif; other site 452659000022 NAD binding pocket [chemical binding]; other site 452659000023 Iron coordination center [ion binding]; other site 452659000024 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 452659000025 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 452659000026 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 452659000027 active site 452659000028 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 452659000029 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 452659000030 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 452659000031 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 452659000032 trimer interface [polypeptide binding]; other site 452659000033 active site 452659000034 UDP-GlcNAc binding site [chemical binding]; other site 452659000035 lipid binding site [chemical binding]; lipid-binding site 452659000036 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 452659000037 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 452659000038 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 452659000039 glucose-6-phosphate isomerase; Provisional; Region: PTZ00430 452659000040 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 452659000041 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 452659000042 FMN binding site [chemical binding]; other site 452659000043 active site 452659000044 catalytic residues [active] 452659000045 substrate binding site [chemical binding]; other site 452659000046 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 452659000047 NodB motif; other site 452659000048 putative active site [active] 452659000049 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 452659000050 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 452659000051 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 452659000052 intersubunit interface [polypeptide binding]; other site 452659000053 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 452659000054 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 452659000055 active site 452659000056 NTP binding site [chemical binding]; other site 452659000057 metal binding triad [ion binding]; metal-binding site 452659000058 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 452659000059 Competence protein; Region: Competence; pfam03772 452659000060 Autotransporter beta-domain; Region: Autotransporter; pfam03797 452659000061 AAA domain; Region: AAA_22; pfam13401 452659000062 Tetratricopeptide repeat; Region: TPR_12; pfam13424 452659000063 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 452659000064 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 452659000065 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 452659000066 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 452659000067 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 452659000068 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 452659000069 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 452659000070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 452659000071 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 452659000072 Thioredoxin; Region: Thioredoxin_4; pfam13462 452659000073 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 452659000074 Methyltransferase domain; Region: Methyltransf_31; pfam13847 452659000075 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 452659000076 S-adenosylmethionine binding site [chemical binding]; other site 452659000077 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 452659000078 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 452659000079 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 452659000080 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659000081 Walker A/P-loop; other site 452659000082 ATP binding site [chemical binding]; other site 452659000083 Q-loop/lid; other site 452659000084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659000085 ABC transporter signature motif; other site 452659000086 Walker B; other site 452659000087 D-loop; other site 452659000088 H-loop/switch region; other site 452659000089 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 452659000090 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 452659000091 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 452659000092 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 452659000093 folate binding site [chemical binding]; other site 452659000094 NADP+ binding site [chemical binding]; other site 452659000095 tetratricopeptide repeat protein; Provisional; Region: PRK11788 452659000096 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 452659000097 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 452659000098 Cu(I) binding site [ion binding]; other site 452659000099 Putative transcriptional regulator [Transcription]; Region: COG1678 452659000100 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 452659000101 Colicin V production protein; Region: Colicin_V; pfam02674 452659000102 Autotransporter beta-domain; Region: Autotransporter; smart00869 452659000103 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 452659000104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452659000105 active site 452659000106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452659000107 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 452659000108 Clp amino terminal domain; Region: Clp_N; pfam02861 452659000109 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 452659000110 Walker A motif; other site 452659000111 ATP binding site [chemical binding]; other site 452659000112 Walker B motif; other site 452659000113 arginine finger; other site 452659000114 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 452659000115 Walker A motif; other site 452659000116 ATP binding site [chemical binding]; other site 452659000117 Walker B motif; other site 452659000118 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 452659000119 UGMP family protein; Validated; Region: PRK09604 452659000120 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 452659000121 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 452659000122 Fatty acid desaturase; Region: FA_desaturase; pfam00487 452659000123 Di-iron ligands [ion binding]; other site 452659000124 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 452659000125 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 452659000126 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 452659000127 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 452659000128 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 452659000129 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 452659000130 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 452659000131 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 452659000132 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 452659000133 Ligand Binding Site [chemical binding]; other site 452659000134 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659000135 FtsH Extracellular; Region: FtsH_ext; pfam06480 452659000136 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 452659000137 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 452659000138 Walker A motif; other site 452659000139 ATP binding site [chemical binding]; other site 452659000140 Walker B motif; other site 452659000141 arginine finger; other site 452659000142 Peptidase family M41; Region: Peptidase_M41; pfam01434 452659000143 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 452659000144 cofactor binding site; other site 452659000145 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 452659000146 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 452659000147 Uncharacterized conserved protein [Function unknown]; Region: COG1565 452659000148 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659000149 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 452659000150 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 452659000151 Mechanosensitive ion channel; Region: MS_channel; pfam00924 452659000152 membrane protein insertase; Provisional; Region: PRK01318 452659000153 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 452659000154 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 452659000155 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 452659000156 active site 452659000157 catalytic residues [active] 452659000158 metal binding site [ion binding]; metal-binding site 452659000159 TLC ATP/ADP transporter; Region: TLC; pfam03219 452659000160 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 452659000161 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 452659000162 putative substrate translocation pore; other site 452659000163 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 452659000164 active site 452659000165 multimer interface [polypeptide binding]; other site 452659000166 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 452659000167 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 452659000168 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 452659000169 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 452659000170 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 452659000171 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 452659000172 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 452659000173 P-loop; other site 452659000174 Magnesium ion binding site [ion binding]; other site 452659000175 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 452659000176 Magnesium ion binding site [ion binding]; other site 452659000177 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 452659000178 ParB-like nuclease domain; Region: ParB; smart00470 452659000179 KorB domain; Region: KorB; pfam08535 452659000180 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 452659000181 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452659000182 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452659000183 ABC transporter; Region: ABC_tran_2; pfam12848 452659000184 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452659000185 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 452659000186 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 452659000187 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 452659000188 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 452659000189 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 452659000190 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 452659000191 Zn2+ binding site [ion binding]; other site 452659000192 Mg2+ binding site [ion binding]; other site 452659000193 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 452659000194 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 452659000195 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 452659000196 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 452659000197 active site 452659000198 HIGH motif; other site 452659000199 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452659000200 KMSK motif region; other site 452659000201 tRNA binding surface [nucleotide binding]; other site 452659000202 DALR anticodon binding domain; Region: DALR_1; smart00836 452659000203 anticodon binding site; other site 452659000204 Sporulation related domain; Region: SPOR; pfam05036 452659000205 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 452659000206 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 452659000207 CAP-like domain; other site 452659000208 active site 452659000209 primary dimer interface [polypeptide binding]; other site 452659000210 Gram-negative porin; Region: Porin_4; pfam13609 452659000211 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 452659000212 trimer interface [polypeptide binding]; other site 452659000213 active site 452659000214 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 452659000215 SecA binding site; other site 452659000216 Preprotein binding site; other site 452659000217 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 452659000218 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 452659000219 active site 452659000220 phosphorylation site [posttranslational modification] 452659000221 intermolecular recognition site; other site 452659000222 dimerization interface [polypeptide binding]; other site 452659000223 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 452659000224 DNA binding site [nucleotide binding] 452659000225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 452659000226 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 452659000227 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 452659000228 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 452659000229 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 452659000230 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 452659000231 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 452659000232 EamA-like transporter family; Region: EamA; pfam00892 452659000233 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 452659000234 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 452659000235 metabolite-proton symporter; Region: 2A0106; TIGR00883 452659000236 putative substrate translocation pore; other site 452659000237 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 452659000238 Autotransporter beta-domain; Region: Autotransporter; pfam03797 452659000239 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 452659000240 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 452659000241 active site 452659000242 HIGH motif; other site 452659000243 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 452659000244 KMSKS motif; other site 452659000245 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 452659000246 tRNA binding surface [nucleotide binding]; other site 452659000247 anticodon binding site; other site 452659000248 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 452659000249 rRNA interaction site [nucleotide binding]; other site 452659000250 S8 interaction site; other site 452659000251 putative laminin-1 binding site; other site 452659000252 elongation factor Ts; Provisional; Region: tsf; PRK09377 452659000253 UBA/TS-N domain; Region: UBA; pfam00627 452659000254 Elongation factor TS; Region: EF_TS; pfam00889 452659000255 Elongation factor TS; Region: EF_TS; pfam00889 452659000256 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 452659000257 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659000258 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 452659000259 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 452659000260 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 452659000261 putative acyl-acceptor binding pocket; other site 452659000262 aspartate aminotransferase; Provisional; Region: PRK05764 452659000263 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 452659000264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452659000265 homodimer interface [polypeptide binding]; other site 452659000266 catalytic residue [active] 452659000267 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 452659000268 Tetratricopeptide repeat; Region: TPR_12; pfam13424 452659000269 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 452659000270 binding surface 452659000271 TPR motif; other site 452659000272 Methyltransferase domain; Region: Methyltransf_23; pfam13489 452659000273 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 452659000274 S-adenosylmethionine binding site [chemical binding]; other site 452659000275 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 452659000276 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 452659000277 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 452659000278 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 452659000279 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452659000280 active site 452659000281 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659000282 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 452659000283 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 452659000284 active site 452659000285 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 452659000286 dimer interface [polypeptide binding]; other site 452659000287 substrate binding site [chemical binding]; other site 452659000288 catalytic residues [active] 452659000289 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 452659000290 Permease; Region: Permease; pfam02405 452659000291 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 452659000292 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659000293 Walker A/P-loop; other site 452659000294 ATP binding site [chemical binding]; other site 452659000295 Q-loop/lid; other site 452659000296 ABC transporter signature motif; other site 452659000297 Walker B; other site 452659000298 D-loop; other site 452659000299 H-loop/switch region; other site 452659000300 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 452659000301 50S ribosomal protein L31; Provisional; Region: PRK01397 452659000302 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 452659000303 G1 box; other site 452659000304 GTP/Mg2+ binding site [chemical binding]; other site 452659000305 Switch I region; other site 452659000306 G2 box; other site 452659000307 G3 box; other site 452659000308 Switch II region; other site 452659000309 G4 box; other site 452659000310 G5 box; other site 452659000311 Acetylglutamate kinase [Amino acid transport and metabolism]; Region: ArgB; COG0548 452659000312 nucleotide binding site [chemical binding]; other site 452659000313 substrate binding site [chemical binding]; other site 452659000314 type IV secretion system protein VirB3; Provisional; Region: PRK13899 452659000315 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 452659000316 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 452659000317 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659000318 Walker A/P-loop; other site 452659000319 ATP binding site [chemical binding]; other site 452659000320 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 452659000321 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 452659000322 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 452659000323 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 452659000324 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 452659000325 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 452659000326 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 452659000327 hypothetical protein; Provisional; Region: PRK13694 452659000328 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 452659000329 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 452659000330 Protein export membrane protein; Region: SecD_SecF; pfam02355 452659000331 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 452659000332 SLBB domain; Region: SLBB; pfam10531 452659000333 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 452659000334 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 452659000335 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 452659000336 Catalytic site [active] 452659000337 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 452659000338 ribonuclease III; Reviewed; Region: rnc; PRK00102 452659000339 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 452659000340 dimerization interface [polypeptide binding]; other site 452659000341 active site 452659000342 metal binding site [ion binding]; metal-binding site 452659000343 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 452659000344 dsRNA binding site [nucleotide binding]; other site 452659000345 GTPase Era; Provisional; Region: era; PRK15494 452659000346 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659000347 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 452659000348 G1 box; other site 452659000349 GTP/Mg2+ binding site [chemical binding]; other site 452659000350 Switch I region; other site 452659000351 G2 box; other site 452659000352 Switch II region; other site 452659000353 G3 box; other site 452659000354 G4 box; other site 452659000355 G5 box; other site 452659000356 KH domain; Region: KH_2; pfam07650 452659000357 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 452659000358 active site 452659000359 putative DNA-binding cleft [nucleotide binding]; other site 452659000360 dimer interface [polypeptide binding]; other site 452659000361 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 452659000362 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 452659000363 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 452659000364 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 452659000365 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 452659000366 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 452659000367 AAA domain; Region: AAA_31; pfam13614 452659000368 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 452659000369 Walker A motif; other site 452659000370 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 452659000371 HflK protein; Region: hflK; TIGR01933 452659000372 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 452659000373 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 452659000374 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 452659000375 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 452659000376 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 452659000377 protein binding site [polypeptide binding]; other site 452659000378 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 452659000379 protein binding site [polypeptide binding]; other site 452659000380 hypothetical protein; Validated; Region: PRK01415 452659000381 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 452659000382 active site residue [active] 452659000383 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 452659000384 Iron-sulfur protein interface; other site 452659000385 proximal quinone binding site [chemical binding]; other site 452659000386 SdhD (CybS) interface [polypeptide binding]; other site 452659000387 proximal heme binding site [chemical binding]; other site 452659000388 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 452659000389 putative SdhC subunit interface [polypeptide binding]; other site 452659000390 putative proximal heme binding site [chemical binding]; other site 452659000391 putative Iron-sulfur protein interface [polypeptide binding]; other site 452659000392 putative proximal quinone binding site; other site 452659000393 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 452659000394 L-aspartate oxidase; Provisional; Region: PRK06175 452659000395 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 452659000396 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 452659000397 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 452659000398 dimer interface [polypeptide binding]; other site 452659000399 conserved gate region; other site 452659000400 putative PBP binding loops; other site 452659000401 ABC-ATPase subunit interface; other site 452659000402 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 452659000403 S17 interaction site [polypeptide binding]; other site 452659000404 S8 interaction site; other site 452659000405 16S rRNA interaction site [nucleotide binding]; other site 452659000406 streptomycin interaction site [chemical binding]; other site 452659000407 23S rRNA interaction site [nucleotide binding]; other site 452659000408 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 452659000409 30S ribosomal protein S7; Validated; Region: PRK05302 452659000410 elongation factor G; Reviewed; Region: PRK00007 452659000411 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 452659000412 G1 box; other site 452659000413 putative GEF interaction site [polypeptide binding]; other site 452659000414 GTP/Mg2+ binding site [chemical binding]; other site 452659000415 Switch I region; other site 452659000416 G2 box; other site 452659000417 G3 box; other site 452659000418 Switch II region; other site 452659000419 G4 box; other site 452659000420 G5 box; other site 452659000421 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 452659000422 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 452659000423 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 452659000424 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 452659000425 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 452659000426 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 452659000427 putative homodimer interface [polypeptide binding]; other site 452659000428 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 452659000429 heterodimer interface [polypeptide binding]; other site 452659000430 homodimer interface [polypeptide binding]; other site 452659000431 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 452659000432 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 452659000433 23S rRNA interface [nucleotide binding]; other site 452659000434 putative thiostrepton binding site; other site 452659000435 L7/L12 interface [polypeptide binding]; other site 452659000436 L25 interface [polypeptide binding]; other site 452659000437 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 452659000438 mRNA/rRNA interface [nucleotide binding]; other site 452659000439 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 452659000440 23S rRNA interface [nucleotide binding]; other site 452659000441 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 452659000442 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 452659000443 core dimer interface [polypeptide binding]; other site 452659000444 peripheral dimer interface [polypeptide binding]; other site 452659000445 L10 interface [polypeptide binding]; other site 452659000446 L11 interface [polypeptide binding]; other site 452659000447 putative EF-Tu interaction site [polypeptide binding]; other site 452659000448 putative EF-G interaction site [polypeptide binding]; other site 452659000449 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 452659000450 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 452659000451 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 452659000452 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 452659000453 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 452659000454 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 452659000455 RPB3 interaction site [polypeptide binding]; other site 452659000456 RPB1 interaction site [polypeptide binding]; other site 452659000457 RPB11 interaction site [polypeptide binding]; other site 452659000458 RPB10 interaction site [polypeptide binding]; other site 452659000459 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 452659000460 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 452659000461 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 452659000462 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 452659000463 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 452659000464 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 452659000465 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 452659000466 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 452659000467 DNA binding site [nucleotide binding] 452659000468 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 452659000469 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 452659000470 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659000471 multifunctional aminopeptidase A; Provisional; Region: PRK00913 452659000472 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 452659000473 interface (dimer of trimers) [polypeptide binding]; other site 452659000474 Substrate-binding/catalytic site; other site 452659000475 Zn-binding sites [ion binding]; other site 452659000476 ATPase MipZ; Region: MipZ; pfam09140 452659000477 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 452659000478 P-loop; other site 452659000479 Magnesium ion binding site [ion binding]; other site 452659000480 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 452659000481 Magnesium ion binding site [ion binding]; other site 452659000482 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 452659000483 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 452659000484 dimer interface [polypeptide binding]; other site 452659000485 anticodon binding site; other site 452659000486 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 452659000487 homodimer interface [polypeptide binding]; other site 452659000488 motif 1; other site 452659000489 active site 452659000490 motif 2; other site 452659000491 GAD domain; Region: GAD; pfam02938 452659000492 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 452659000493 active site 452659000494 motif 3; other site 452659000495 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 452659000496 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 452659000497 dihydrodipicolinate reductase; Provisional; Region: PRK00048 452659000498 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 452659000499 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 452659000500 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 452659000501 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 452659000502 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 452659000503 substrate binding pocket [chemical binding]; other site 452659000504 membrane-bound complex binding site; other site 452659000505 hinge residues; other site 452659000506 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 452659000507 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 452659000508 GatB domain; Region: GatB_Yqey; smart00845 452659000509 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 452659000510 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 452659000511 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 452659000512 Uncharacterized conserved protein [Function unknown]; Region: COG4997 452659000513 ribosome recycling factor; Reviewed; Region: frr; PRK00083 452659000514 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 452659000515 hinge region; other site 452659000516 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 452659000517 putative nucleotide binding site [chemical binding]; other site 452659000518 uridine monophosphate binding site [chemical binding]; other site 452659000519 homohexameric interface [polypeptide binding]; other site 452659000520 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 452659000521 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 452659000522 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 452659000523 putative substrate translocation pore; other site 452659000524 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 452659000525 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 452659000526 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 452659000527 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452659000528 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452659000529 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452659000530 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452659000531 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452659000532 Surface antigen; Region: Bac_surface_Ag; pfam01103 452659000533 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 452659000534 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 452659000535 active site 452659000536 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 452659000537 protein binding site [polypeptide binding]; other site 452659000538 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 452659000539 putative substrate binding region [chemical binding]; other site 452659000540 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 452659000541 putative RNA binding site [nucleotide binding]; other site 452659000542 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 452659000543 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 452659000544 S-adenosylmethionine binding site [chemical binding]; other site 452659000545 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 452659000546 putative coenzyme Q binding site [chemical binding]; other site 452659000547 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 452659000548 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659000549 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 452659000550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 452659000551 RNA methyltransferase, RsmE family; Region: TIGR00046 452659000552 Uncharacterized conserved protein [Function unknown]; Region: COG2155 452659000553 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 452659000554 Protein export membrane protein; Region: SecD_SecF; cl14618 452659000555 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 452659000556 IHF dimer interface [polypeptide binding]; other site 452659000557 IHF - DNA interface [nucleotide binding]; other site 452659000558 DNA polymerase III subunit delta'; Validated; Region: PRK06581 452659000559 signal recognition particle protein; Provisional; Region: PRK10867 452659000560 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 452659000561 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 452659000562 P loop; other site 452659000563 GTP binding site [chemical binding]; other site 452659000564 Signal peptide binding domain; Region: SRP_SPB; pfam02978 452659000565 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 452659000566 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 452659000567 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 452659000568 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 452659000569 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 452659000570 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 452659000571 FeS/SAM binding site; other site 452659000572 HemN C-terminal domain; Region: HemN_C; pfam06969 452659000573 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 452659000574 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 452659000575 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 452659000576 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 452659000577 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 452659000578 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 452659000579 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 452659000580 active site 452659000581 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 452659000582 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 452659000583 E3 interaction surface; other site 452659000584 lipoyl attachment site [posttranslational modification]; other site 452659000585 e3 binding domain; Region: E3_binding; pfam02817 452659000586 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 452659000587 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 452659000588 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 452659000589 TPP-binding site [chemical binding]; other site 452659000590 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 452659000591 dimer interface [polypeptide binding]; other site 452659000592 PYR/PP interface [polypeptide binding]; other site 452659000593 TPP binding site [chemical binding]; other site 452659000594 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 452659000595 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 452659000596 active site 452659000597 Zn binding site [ion binding]; other site 452659000598 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 452659000599 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 452659000600 Walker A/P-loop; other site 452659000601 ATP binding site [chemical binding]; other site 452659000602 Q-loop/lid; other site 452659000603 Allexivirus 40kDa protein; Region: Allexi_40kDa; pfam05549 452659000604 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 452659000605 ABC transporter signature motif; other site 452659000606 Walker B; other site 452659000607 D-loop; other site 452659000608 H-loop/switch region; other site 452659000609 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 452659000610 Tetratricopeptide repeat; Region: TPR_6; pfam13174 452659000611 Putative cation transport regulator [General function prediction only]; Region: ChaB; COG4572 452659000612 chaperone protein DnaJ; Provisional; Region: PRK14300 452659000613 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 452659000614 HSP70 interaction site [polypeptide binding]; other site 452659000615 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 452659000616 substrate binding site [polypeptide binding]; other site 452659000617 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 452659000618 Zn binding sites [ion binding]; other site 452659000619 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 452659000620 dimer interface [polypeptide binding]; other site 452659000621 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 452659000622 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 452659000623 nucleotide binding site [chemical binding]; other site 452659000624 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 452659000625 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 452659000626 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 452659000627 Lipopolysaccharide-assembly; Region: LptE; cl01125 452659000628 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 452659000629 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 452659000630 diiron binding motif [ion binding]; other site 452659000631 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 452659000632 Subunit III/VIIa interface [polypeptide binding]; other site 452659000633 Phospholipid binding site [chemical binding]; other site 452659000634 Subunit I/III interface [polypeptide binding]; other site 452659000635 Subunit III/VIb interface [polypeptide binding]; other site 452659000636 Subunit III/VIa interface; other site 452659000637 Subunit III/Vb interface [polypeptide binding]; other site 452659000638 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 452659000639 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 452659000640 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 452659000641 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 452659000642 trimer interface [polypeptide binding]; other site 452659000643 active site 452659000644 substrate binding site [chemical binding]; other site 452659000645 CoA binding site [chemical binding]; other site 452659000646 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 452659000647 Ligand Binding Site [chemical binding]; other site 452659000648 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 452659000649 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 452659000650 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 452659000651 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 452659000652 catalytic loop [active] 452659000653 iron binding site [ion binding]; other site 452659000654 chaperone protein HscA; Provisional; Region: hscA; PRK01433 452659000655 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 452659000656 nucleotide binding site [chemical binding]; other site 452659000657 co-chaperone HscB; Provisional; Region: hscB; PRK01356 452659000658 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 452659000659 HSP70 interaction site [polypeptide binding]; other site 452659000660 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 452659000661 RNA/DNA hybrid binding site [nucleotide binding]; other site 452659000662 active site 452659000663 excinuclease ABC subunit B; Provisional; Region: PRK05298 452659000664 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 452659000665 ATP binding site [chemical binding]; other site 452659000666 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 452659000667 nucleotide binding region [chemical binding]; other site 452659000668 ATP-binding site [chemical binding]; other site 452659000669 Ultra-violet resistance protein B; Region: UvrB; pfam12344 452659000670 UvrB/uvrC motif; Region: UVR; pfam02151 452659000671 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 452659000672 GSH binding site [chemical binding]; other site 452659000673 catalytic residues [active] 452659000674 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 452659000675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659000676 Walker A/P-loop; other site 452659000677 ATP binding site [chemical binding]; other site 452659000678 Q-loop/lid; other site 452659000679 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 452659000680 DNA gyrase subunit A; Validated; Region: PRK05560 452659000681 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 452659000682 CAP-like domain; other site 452659000683 active site 452659000684 primary dimer interface [polypeptide binding]; other site 452659000685 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452659000686 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452659000687 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452659000688 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452659000689 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452659000690 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 452659000691 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 452659000692 active site 452659000693 catalytic residues [active] 452659000694 metal binding site [ion binding]; metal-binding site 452659000695 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 452659000696 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 452659000697 putative active site [active] 452659000698 substrate binding site [chemical binding]; other site 452659000699 putative cosubstrate binding site; other site 452659000700 catalytic site [active] 452659000701 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 452659000702 substrate binding site [chemical binding]; other site 452659000703 Protein of unknown function (DUF563); Region: DUF563; cl15705 452659000704 Predicted ATPase [General function prediction only]; Region: COG1485 452659000705 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 452659000706 Walker A motif; other site 452659000707 ATP binding site [chemical binding]; other site 452659000708 Walker B motif; other site 452659000709 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 452659000710 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 452659000711 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 452659000712 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 452659000713 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 452659000714 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 452659000715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659000716 Walker A/P-loop; other site 452659000717 ATP binding site [chemical binding]; other site 452659000718 Q-loop/lid; other site 452659000719 ABC transporter signature motif; other site 452659000720 Walker B; other site 452659000721 D-loop; other site 452659000722 H-loop/switch region; other site 452659000723 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 452659000724 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 452659000725 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 452659000726 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 452659000727 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 452659000728 toxin-antitoxin system, toxin component, Txe/YoeB family; Region: toxin_Txe_YoeB; TIGR02116 452659000729 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 452659000730 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 452659000731 putative metal binding site; other site 452659000732 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 452659000733 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 452659000734 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 452659000735 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 452659000736 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 452659000737 ATP binding site [chemical binding]; other site 452659000738 active site 452659000739 substrate binding site [chemical binding]; other site 452659000740 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 452659000741 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 452659000742 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 452659000743 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 452659000744 active site 452659000745 dimer interface [polypeptide binding]; other site 452659000746 motif 1; other site 452659000747 motif 2; other site 452659000748 motif 3; other site 452659000749 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 452659000750 anticodon binding site; other site 452659000751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659000752 Walker A/P-loop; other site 452659000753 ATP binding site [chemical binding]; other site 452659000754 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659000755 ABC transporter signature motif; other site 452659000756 Walker B; other site 452659000757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659000758 H-loop/switch region; other site 452659000759 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 452659000760 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 452659000761 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 452659000762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 452659000763 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 452659000764 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 452659000765 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 452659000766 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 452659000767 ATP binding site [chemical binding]; other site 452659000768 Mg2+ binding site [ion binding]; other site 452659000769 G-X-G motif; other site 452659000770 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 452659000771 anchoring element; other site 452659000772 dimer interface [polypeptide binding]; other site 452659000773 ATP binding site [chemical binding]; other site 452659000774 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 452659000775 active site 452659000776 metal binding site [ion binding]; metal-binding site 452659000777 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 452659000778 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 452659000779 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 452659000780 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 452659000781 protein binding site [polypeptide binding]; other site 452659000782 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 452659000783 Catalytic dyad [active] 452659000784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 452659000785 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 452659000786 dimer interface [polypeptide binding]; other site 452659000787 phosphorylation site [posttranslational modification] 452659000788 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 452659000789 ATP binding site [chemical binding]; other site 452659000790 Mg2+ binding site [ion binding]; other site 452659000791 G-X-G motif; other site 452659000792 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 452659000793 Tetratricopeptide repeat; Region: TPR_6; pfam13174 452659000794 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 452659000795 FOG: WD40-like repeat [Function unknown]; Region: COG1520 452659000796 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 452659000797 Trp docking motif [polypeptide binding]; other site 452659000798 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 452659000799 23S rRNA interface [nucleotide binding]; other site 452659000800 L3 interface [polypeptide binding]; other site 452659000801 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 452659000802 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 452659000803 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 452659000804 DCoH tetramer interaction site [polypeptide binding]; other site 452659000805 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 452659000806 putative active site [active] 452659000807 Ap4A binding site [chemical binding]; other site 452659000808 nudix motif; other site 452659000809 putative metal binding site [ion binding]; other site 452659000810 response regulator PleD; Reviewed; Region: pleD; PRK09581 452659000811 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 452659000812 active site 452659000813 phosphorylation site [posttranslational modification] 452659000814 intermolecular recognition site; other site 452659000815 dimerization interface [polypeptide binding]; other site 452659000816 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 452659000817 active site 452659000818 phosphorylation site [posttranslational modification] 452659000819 intermolecular recognition site; other site 452659000820 dimerization interface [polypeptide binding]; other site 452659000821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452659000822 metal binding site [ion binding]; metal-binding site 452659000823 active site 452659000824 I-site; other site 452659000825 elongation factor P; Validated; Region: PRK00529 452659000826 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 452659000827 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 452659000828 RNA binding site [nucleotide binding]; other site 452659000829 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 452659000830 RNA binding site [nucleotide binding]; other site 452659000831 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 452659000832 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 452659000833 active site 452659000834 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 452659000835 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 452659000836 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 452659000837 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 452659000838 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 452659000839 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 452659000840 HlyD family secretion protein; Region: HlyD_3; pfam13437 452659000841 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 452659000842 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 452659000843 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 452659000844 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 452659000845 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452659000846 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452659000847 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452659000848 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 452659000849 FAD binding domain; Region: FAD_binding_4; pfam01565 452659000850 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 452659000851 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 452659000852 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 452659000853 ATP-grasp domain; Region: ATP-grasp_4; cl17255 452659000854 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 452659000855 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 452659000856 Cell division protein FtsQ; Region: FtsQ; pfam03799 452659000857 cell division protein FtsA; Region: ftsA; TIGR01174 452659000858 Cell division protein FtsA; Region: FtsA; smart00842 452659000859 Cell division protein FtsA; Region: FtsA; pfam14450 452659000860 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 452659000861 Cytochrome c2 [Energy production and conversion]; Region: COG3474 452659000862 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 452659000863 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 452659000864 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 452659000865 RNA binding site [nucleotide binding]; other site 452659000866 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 452659000867 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 452659000868 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 452659000869 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 452659000870 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 452659000871 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 452659000872 RNA binding surface [nucleotide binding]; other site 452659000873 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 452659000874 active site 452659000875 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 452659000876 active site 452659000877 DNA binding site [nucleotide binding] 452659000878 putative catalytic site [active] 452659000879 metal binding site A [ion binding]; metal-binding site 452659000880 putative phosphate binding site [ion binding]; other site 452659000881 putative AP binding site [nucleotide binding]; other site 452659000882 putative metal binding site B [ion binding]; other site 452659000883 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 452659000884 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 452659000885 tetramer interface [polypeptide binding]; other site 452659000886 TPP-binding site [chemical binding]; other site 452659000887 heterodimer interface [polypeptide binding]; other site 452659000888 phosphorylation loop region [posttranslational modification] 452659000889 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 452659000890 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 452659000891 alpha subunit interface [polypeptide binding]; other site 452659000892 TPP binding site [chemical binding]; other site 452659000893 heterodimer interface [polypeptide binding]; other site 452659000894 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 452659000895 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 452659000896 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 452659000897 G1 box; other site 452659000898 putative GEF interaction site [polypeptide binding]; other site 452659000899 GTP/Mg2+ binding site [chemical binding]; other site 452659000900 Switch I region; other site 452659000901 G2 box; other site 452659000902 G3 box; other site 452659000903 Switch II region; other site 452659000904 G4 box; other site 452659000905 G5 box; other site 452659000906 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 452659000907 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 452659000908 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 452659000909 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 452659000910 isocitrate dehydrogenase; Validated; Region: PRK09222 452659000911 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 452659000912 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 452659000913 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 452659000914 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 452659000915 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 452659000916 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 452659000917 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 452659000918 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 452659000919 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 452659000920 [2Fe-2S] cluster binding site [ion binding]; other site 452659000921 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 452659000922 Qi binding site; other site 452659000923 cytochrome b; Provisional; Region: CYTB; MTH00191 452659000924 intrachain domain interface; other site 452659000925 interchain domain interface [polypeptide binding]; other site 452659000926 heme bH binding site [chemical binding]; other site 452659000927 heme bL binding site [chemical binding]; other site 452659000928 Qo binding site; other site 452659000929 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 452659000930 interchain domain interface [polypeptide binding]; other site 452659000931 intrachain domain interface; other site 452659000932 Qi binding site; other site 452659000933 Qo binding site; other site 452659000934 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 452659000935 Cytochrome c; Region: Cytochrom_C; cl11414 452659000936 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 452659000937 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 452659000938 putative dimer interface [polypeptide binding]; other site 452659000939 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 452659000940 PCRF domain; Region: PCRF; pfam03462 452659000941 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 452659000942 RF-1 domain; Region: RF-1; pfam00472 452659000943 GTP-binding protein LepA; Provisional; Region: PRK05433 452659000944 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 452659000945 G1 box; other site 452659000946 putative GEF interaction site [polypeptide binding]; other site 452659000947 GTP/Mg2+ binding site [chemical binding]; other site 452659000948 Switch I region; other site 452659000949 G2 box; other site 452659000950 G3 box; other site 452659000951 Switch II region; other site 452659000952 G4 box; other site 452659000953 G5 box; other site 452659000954 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 452659000955 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 452659000956 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 452659000957 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 452659000958 HD domain; Region: HD_4; pfam13328 452659000959 metabolite-proton symporter; Region: 2A0106; TIGR00883 452659000960 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 452659000961 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 452659000962 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 452659000963 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 452659000964 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 452659000965 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 452659000966 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 452659000967 oligomeric interface; other site 452659000968 putative active site [active] 452659000969 homodimer interface [polypeptide binding]; other site 452659000970 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 452659000971 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 452659000972 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 452659000973 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 452659000974 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 452659000975 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 452659000976 VirB7 interaction site; other site 452659000977 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 452659000978 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 452659000979 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 452659000980 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 452659000981 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 452659000982 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 452659000983 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 452659000984 Walker A motif; other site 452659000985 hexamer interface [polypeptide binding]; other site 452659000986 ATP binding site [chemical binding]; other site 452659000987 Walker B motif; other site 452659000988 type IV secretion system component VirD4; Provisional; Region: PRK13897 452659000989 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 452659000990 Walker A motif; other site 452659000991 ATP binding site [chemical binding]; other site 452659000992 Walker B motif; other site 452659000993 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 452659000994 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 452659000995 Phage-related protein [Function unknown]; Region: COG4695; cl01923 452659000996 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 452659000997 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 452659000998 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 452659000999 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 452659001000 active site 452659001001 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 452659001002 MutS domain I; Region: MutS_I; pfam01624 452659001003 MutS domain II; Region: MutS_II; pfam05188 452659001004 MutS domain III; Region: MutS_III; pfam05192 452659001005 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 452659001006 Walker A/P-loop; other site 452659001007 ATP binding site [chemical binding]; other site 452659001008 Q-loop/lid; other site 452659001009 ABC transporter signature motif; other site 452659001010 Walker B; other site 452659001011 D-loop; other site 452659001012 H-loop/switch region; other site 452659001013 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 452659001014 Peptidase family M23; Region: Peptidase_M23; pfam01551 452659001015 Protein of unknown function DUF45; Region: DUF45; pfam01863 452659001016 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 452659001017 translocation protein TolB; Provisional; Region: tolB; PRK05137 452659001018 TolB amino-terminal domain; Region: TolB_N; pfam04052 452659001019 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452659001020 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452659001021 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452659001022 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 452659001023 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 452659001024 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452659001025 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 452659001026 DNA binding residues [nucleotide binding] 452659001027 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 452659001028 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 452659001029 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 452659001030 Ligand Binding Site [chemical binding]; other site 452659001031 amino acid transporter; Region: 2A0306; TIGR00909 452659001032 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 452659001033 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 452659001034 dimer interface [polypeptide binding]; other site 452659001035 motif 1; other site 452659001036 active site 452659001037 motif 2; other site 452659001038 motif 3; other site 452659001039 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 452659001040 anticodon binding site; other site 452659001041 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 452659001042 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452659001043 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 452659001044 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452659001045 TolQ protein; Region: tolQ; TIGR02796 452659001046 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 452659001047 TolR protein; Region: tolR; TIGR02801 452659001048 Gram-negative bacterial tonB protein; Region: TonB; cl10048 452659001049 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 452659001050 metabolite-proton symporter; Region: 2A0106; TIGR00883 452659001051 putative substrate translocation pore; other site 452659001052 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 452659001053 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 452659001054 HlyD family secretion protein; Region: HlyD_3; pfam13437 452659001055 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 452659001056 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 452659001057 Walker A/P-loop; other site 452659001058 ATP binding site [chemical binding]; other site 452659001059 Q-loop/lid; other site 452659001060 ABC transporter signature motif; other site 452659001061 Walker B; other site 452659001062 D-loop; other site 452659001063 H-loop/switch region; other site 452659001064 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 452659001065 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 452659001066 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 452659001067 nucleotide binding site/active site [active] 452659001068 HIT family signature motif; other site 452659001069 catalytic residue [active] 452659001070 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 452659001071 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 452659001072 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 452659001073 active site 452659001074 HslU subunit interaction site [polypeptide binding]; other site 452659001075 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 452659001076 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 452659001077 Walker A motif; other site 452659001078 ATP binding site [chemical binding]; other site 452659001079 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 452659001080 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 452659001081 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 452659001082 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 452659001083 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 452659001084 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 452659001085 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 452659001086 Uncharacterized conserved protein [Function unknown]; Region: COG5464 452659001087 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 452659001088 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 452659001089 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 452659001090 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 452659001091 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 452659001092 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 452659001093 dimerization interface [polypeptide binding]; other site 452659001094 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 452659001095 putative iron binding site [ion binding]; other site 452659001096 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 452659001097 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 452659001098 HIGH motif; other site 452659001099 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452659001100 active site 452659001101 KMSKS motif; other site 452659001102 DNA topoisomerase I; Validated; Region: PRK06599 452659001103 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 452659001104 active site 452659001105 interdomain interaction site; other site 452659001106 putative metal-binding site [ion binding]; other site 452659001107 nucleotide binding site [chemical binding]; other site 452659001108 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 452659001109 domain I; other site 452659001110 DNA binding groove [nucleotide binding] 452659001111 phosphate binding site [ion binding]; other site 452659001112 domain II; other site 452659001113 domain III; other site 452659001114 nucleotide binding site [chemical binding]; other site 452659001115 catalytic site [active] 452659001116 domain IV; other site 452659001117 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 452659001118 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 452659001119 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 452659001120 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 452659001121 dimer interface [polypeptide binding]; other site 452659001122 decamer (pentamer of dimers) interface [polypeptide binding]; other site 452659001123 catalytic triad [active] 452659001124 peroxidatic and resolving cysteines [active] 452659001125 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 452659001126 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 452659001127 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 452659001128 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 452659001129 Sulfatase; Region: Sulfatase; pfam00884 452659001130 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 452659001131 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 452659001132 sequence-specific DNA binding site [nucleotide binding]; other site 452659001133 salt bridge; other site 452659001134 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 452659001135 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 452659001136 NADP binding site [chemical binding]; other site 452659001137 active site 452659001138 putative substrate binding site [chemical binding]; other site 452659001139 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 452659001140 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 452659001141 NAD(P) binding site [chemical binding]; other site 452659001142 homodimer interface [polypeptide binding]; other site 452659001143 substrate binding site [chemical binding]; other site 452659001144 active site 452659001145 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 452659001146 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 452659001147 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 452659001148 active site 452659001149 homodimer interface [polypeptide binding]; other site 452659001150 Methyltransferase domain; Region: Methyltransf_31; pfam13847 452659001151 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 452659001152 S-adenosylmethionine binding site [chemical binding]; other site 452659001153 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 452659001154 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 452659001155 active site 452659001156 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 452659001157 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 452659001158 active site 452659001159 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 452659001160 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 452659001161 HlyD family secretion protein; Region: HlyD_3; pfam13437 452659001162 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 452659001163 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 452659001164 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 452659001165 catalytic site [active] 452659001166 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452659001167 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 452659001168 putative ADP-binding pocket [chemical binding]; other site 452659001169 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 452659001170 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 452659001171 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 452659001172 RNA binding surface [nucleotide binding]; other site 452659001173 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 452659001174 UbiA prenyltransferase family; Region: UbiA; pfam01040 452659001175 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 452659001176 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 452659001177 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 452659001178 TPR repeat; Region: TPR_11; pfam13414 452659001179 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 452659001180 TPR motif; other site 452659001181 binding surface 452659001182 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 452659001183 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 452659001184 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 452659001185 RimM N-terminal domain; Region: RimM; pfam01782 452659001186 PRC-barrel domain; Region: PRC; pfam05239 452659001187 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 452659001188 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 452659001189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 452659001190 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 452659001191 active site 452659001192 DNA binding site [nucleotide binding] 452659001193 YCII-related domain; Region: YCII; cl00999 452659001194 hypothetical protein; Provisional; Region: PRK14388 452659001195 NADH dehydrogenase subunit E; Validated; Region: PRK07539 452659001196 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 452659001197 putative dimer interface [polypeptide binding]; other site 452659001198 [2Fe-2S] cluster binding site [ion binding]; other site 452659001199 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 452659001200 NADH dehydrogenase subunit D; Validated; Region: PRK06075 452659001201 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 452659001202 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 452659001203 NADH dehydrogenase subunit B; Validated; Region: PRK06411 452659001204 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 452659001205 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 452659001206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 452659001207 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 452659001208 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 452659001209 active site 452659001210 DNA binding site [nucleotide binding] 452659001211 Int/Topo IB signature motif; other site 452659001212 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 452659001213 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 452659001214 NAD binding site [chemical binding]; other site 452659001215 homotetramer interface [polypeptide binding]; other site 452659001216 homodimer interface [polypeptide binding]; other site 452659001217 substrate binding site [chemical binding]; other site 452659001218 active site 452659001219 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 452659001220 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 452659001221 putative active site [active] 452659001222 catalytic triad [active] 452659001223 putative dimer interface [polypeptide binding]; other site 452659001224 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 452659001225 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 452659001226 amidase catalytic site [active] 452659001227 Zn binding residues [ion binding]; other site 452659001228 substrate binding site [chemical binding]; other site 452659001229 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 452659001230 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 452659001231 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 452659001232 TM-ABC transporter signature motif; other site 452659001233 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 452659001234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659001235 Walker A/P-loop; other site 452659001236 ATP binding site [chemical binding]; other site 452659001237 Q-loop/lid; other site 452659001238 ABC transporter signature motif; other site 452659001239 Walker B; other site 452659001240 D-loop; other site 452659001241 H-loop/switch region; other site 452659001242 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 452659001243 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 452659001244 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 452659001245 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 452659001246 active site 452659001247 HIGH motif; other site 452659001248 KMSKS motif; other site 452659001249 Predicted permeases [General function prediction only]; Region: COG0679 452659001250 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 452659001251 Malic enzyme, N-terminal domain; Region: malic; pfam00390 452659001252 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 452659001253 putative NAD(P) binding site [chemical binding]; other site 452659001254 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 452659001255 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 452659001256 putative active site [active] 452659001257 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 452659001258 metabolite-proton symporter; Region: 2A0106; TIGR00883 452659001259 malate dehydrogenase; Reviewed; Region: PRK06223 452659001260 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 452659001261 NAD(P) binding site [chemical binding]; other site 452659001262 dimer interface [polypeptide binding]; other site 452659001263 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452659001264 substrate binding site [chemical binding]; other site 452659001265 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 452659001266 TLC ATP/ADP transporter; Region: TLC; pfam03219 452659001267 CTP synthetase; Validated; Region: pyrG; PRK05380 452659001268 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 452659001269 Catalytic site [active] 452659001270 active site 452659001271 UTP binding site [chemical binding]; other site 452659001272 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 452659001273 active site 452659001274 putative oxyanion hole; other site 452659001275 catalytic triad [active] 452659001276 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 452659001277 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 452659001278 Ligand binding site; other site 452659001279 oligomer interface; other site 452659001280 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 452659001281 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 452659001282 GTP cyclohydrolase I; Provisional; Region: PLN03044 452659001283 active site 452659001284 prolyl-tRNA synthetase; Provisional; Region: PRK12325 452659001285 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 452659001286 dimer interface [polypeptide binding]; other site 452659001287 motif 1; other site 452659001288 active site 452659001289 motif 2; other site 452659001290 motif 3; other site 452659001291 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 452659001292 anticodon binding site; other site 452659001293 Fic family protein [Function unknown]; Region: COG3177 452659001294 Fic/DOC family; Region: Fic; pfam02661 452659001295 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 452659001296 RuvA N terminal domain; Region: RuvA_N; pfam01330 452659001297 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 452659001298 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 452659001299 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 452659001300 Walker A motif; other site 452659001301 ATP binding site [chemical binding]; other site 452659001302 Walker B motif; other site 452659001303 arginine finger; other site 452659001304 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 452659001305 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 452659001306 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 452659001307 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659001308 Walker A/P-loop; other site 452659001309 ATP binding site [chemical binding]; other site 452659001310 Q-loop/lid; other site 452659001311 ABC transporter signature motif; other site 452659001312 Walker B; other site 452659001313 D-loop; other site 452659001314 H-loop/switch region; other site 452659001315 muropeptide transporter; Validated; Region: ampG; cl17669 452659001316 muropeptide transporter; Reviewed; Region: ampG; PRK11902 452659001317 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 452659001318 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 452659001319 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659001320 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 452659001321 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 452659001322 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 452659001323 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 452659001324 BON domain; Region: BON; pfam04972 452659001325 BON domain; Region: BON; pfam04972 452659001326 Intracellular septation protein A [Cell division and chromosome partitioning]; Region: COG2917 452659001327 Iron permease FTR1 family; Region: FTR1; cl00475 452659001328 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 452659001329 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 452659001330 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 452659001331 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 452659001332 active site 452659001333 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 452659001334 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 452659001335 catalytic residues [active] 452659001336 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 452659001337 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 452659001338 tandem repeat interface [polypeptide binding]; other site 452659001339 oligomer interface [polypeptide binding]; other site 452659001340 active site residues [active] 452659001341 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 452659001342 trimer interface [polypeptide binding]; other site 452659001343 active site 452659001344 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 452659001345 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 452659001346 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452659001347 catalytic residue [active] 452659001348 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 452659001349 dimer interface [polypeptide binding]; other site 452659001350 catalytic triad [active] 452659001351 Rickettsial palindromic element RPE4 domain; Region: RPE4; TIGR03777 452659001352 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 452659001353 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 452659001354 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 452659001355 catalytic triad [active] 452659001356 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 452659001357 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 452659001358 Subunit I/III interface [polypeptide binding]; other site 452659001359 D-pathway; other site 452659001360 Subunit I/VIIc interface [polypeptide binding]; other site 452659001361 Subunit I/IV interface [polypeptide binding]; other site 452659001362 Subunit I/II interface [polypeptide binding]; other site 452659001363 Low-spin heme (heme a) binding site [chemical binding]; other site 452659001364 Subunit I/VIIa interface [polypeptide binding]; other site 452659001365 Subunit I/VIa interface [polypeptide binding]; other site 452659001366 Dimer interface; other site 452659001367 Putative water exit pathway; other site 452659001368 Binuclear center (heme a3/CuB) [ion binding]; other site 452659001369 K-pathway; other site 452659001370 Subunit I/Vb interface [polypeptide binding]; other site 452659001371 Putative proton exit pathway; other site 452659001372 Subunit I/VIb interface; other site 452659001373 Subunit I/VIc interface [polypeptide binding]; other site 452659001374 Electron transfer pathway; other site 452659001375 Subunit I/VIIIb interface [polypeptide binding]; other site 452659001376 Subunit I/VIIb interface [polypeptide binding]; other site 452659001377 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 452659001378 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 452659001379 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659001380 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 452659001381 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 452659001382 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 452659001383 putative peptidase; Provisional; Region: PRK11649 452659001384 Peptidase family M23; Region: Peptidase_M23; pfam01551 452659001385 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 452659001386 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 452659001387 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 452659001388 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 452659001389 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452659001390 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 452659001391 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452659001392 cell division protein FtsW; Region: ftsW; TIGR02614 452659001393 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 452659001394 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 452659001395 active site 452659001396 homodimer interface [polypeptide binding]; other site 452659001397 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 452659001398 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 452659001399 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 452659001400 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 452659001401 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 452659001402 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 452659001403 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 452659001404 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452659001405 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 452659001406 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 452659001407 diaminopimelate epimerase; Region: DapF; TIGR00652 452659001408 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 452659001409 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 452659001410 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 452659001411 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 452659001412 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 452659001413 FeS/SAM binding site; other site 452659001414 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 452659001415 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 452659001416 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 452659001417 dimer interface [polypeptide binding]; other site 452659001418 motif 1; other site 452659001419 active site 452659001420 motif 2; other site 452659001421 motif 3; other site 452659001422 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 452659001423 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 452659001424 putative tRNA-binding site [nucleotide binding]; other site 452659001425 B3/4 domain; Region: B3_4; pfam03483 452659001426 tRNA synthetase B5 domain; Region: B5; smart00874 452659001427 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 452659001428 dimer interface [polypeptide binding]; other site 452659001429 motif 1; other site 452659001430 motif 3; other site 452659001431 motif 2; other site 452659001432 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 452659001433 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 452659001434 DNA polymerase III subunit beta; Validated; Region: PRK05643 452659001435 putative DNA binding surface [nucleotide binding]; other site 452659001436 dimer interface [polypeptide binding]; other site 452659001437 beta-clamp/clamp loader binding surface; other site 452659001438 beta-clamp/translesion DNA polymerase binding surface; other site 452659001439 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 452659001440 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 452659001441 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 452659001442 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 452659001443 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 452659001444 HIGH motif; other site 452659001445 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 452659001446 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452659001447 active site 452659001448 KMSKS motif; other site 452659001449 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 452659001450 tRNA binding surface [nucleotide binding]; other site 452659001451 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 452659001452 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 452659001453 catalytic site [active] 452659001454 putative active site [active] 452659001455 putative substrate binding site [chemical binding]; other site 452659001456 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 452659001457 Septum formation initiator; Region: DivIC; pfam04977 452659001458 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 452659001459 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 452659001460 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 452659001461 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 452659001462 catalytic residue [active] 452659001463 putative FPP diphosphate binding site; other site 452659001464 putative FPP binding hydrophobic cleft; other site 452659001465 dimer interface [polypeptide binding]; other site 452659001466 putative IPP diphosphate binding site; other site 452659001467 HAMP domain; Region: HAMP; pfam00672 452659001468 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 452659001469 dimer interface [polypeptide binding]; other site 452659001470 phosphorylation site [posttranslational modification] 452659001471 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 452659001472 ATP binding site [chemical binding]; other site 452659001473 Mg2+ binding site [ion binding]; other site 452659001474 G-X-G motif; other site 452659001475 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 452659001476 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 452659001477 active site 452659001478 phosphorylation site [posttranslational modification] 452659001479 intermolecular recognition site; other site 452659001480 dimerization interface [polypeptide binding]; other site 452659001481 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 452659001482 DNA binding site [nucleotide binding] 452659001483 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 452659001484 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 452659001485 homodimer interface [polypeptide binding]; other site 452659001486 substrate-cofactor binding pocket; other site 452659001487 catalytic residue [active] 452659001488 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 452659001489 dihydrodipicolinate synthase; Region: dapA; TIGR00674 452659001490 dimer interface [polypeptide binding]; other site 452659001491 active site 452659001492 catalytic residue [active] 452659001493 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 452659001494 SmpB-tmRNA interface; other site 452659001495 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 452659001496 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 452659001497 catalytic residues [active] 452659001498 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 452659001499 CoA binding domain; Region: CoA_binding; pfam02629 452659001500 CoA-ligase; Region: Ligase_CoA; pfam00549 452659001501 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 452659001502 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 452659001503 CoA-ligase; Region: Ligase_CoA; pfam00549 452659001504 potential frameshift: common BLAST hit: gi|229586712|ref|YP_002845213.1| Putative nucleic-acid-binding protein, containing PIN domain 452659001505 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 452659001506 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 452659001507 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 452659001508 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 452659001509 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 452659001510 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 452659001511 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 452659001512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 452659001513 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 452659001514 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 452659001515 Predicted membrane protein [Function unknown]; Region: COG1238 452659001516 Predicted membrane protein/domain [Function unknown]; Region: COG1714 452659001517 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 452659001518 RecR protein; Region: RecR; pfam02132 452659001519 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 452659001520 putative active site [active] 452659001521 putative metal-binding site [ion binding]; other site 452659001522 tetramer interface [polypeptide binding]; other site 452659001523 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 452659001524 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 452659001525 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 452659001526 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 452659001527 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 452659001528 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 452659001529 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 452659001530 Predicted permeases [General function prediction only]; Region: COG0679 452659001531 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 452659001532 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 452659001533 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 452659001534 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452659001535 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452659001536 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 452659001537 tetramerization interface [polypeptide binding]; other site 452659001538 NAD(P) binding site [chemical binding]; other site 452659001539 catalytic residues [active] 452659001540 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 452659001541 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 452659001542 active site 452659001543 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 452659001544 Part of AAA domain; Region: AAA_19; pfam13245 452659001545 Family description; Region: UvrD_C_2; pfam13538 452659001546 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 452659001547 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 452659001548 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 452659001549 tetramer interface [polypeptide binding]; other site 452659001550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452659001551 catalytic residue [active] 452659001552 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 452659001553 Found in ATP-dependent protease La (LON); Region: LON; smart00464 452659001554 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 452659001555 Walker A motif; other site 452659001556 ATP binding site [chemical binding]; other site 452659001557 Walker B motif; other site 452659001558 arginine finger; other site 452659001559 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 452659001560 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 452659001561 30S subunit binding site; other site 452659001562 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 452659001563 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 452659001564 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 452659001565 homodimer interface [polypeptide binding]; other site 452659001566 NADP binding site [chemical binding]; other site 452659001567 substrate binding site [chemical binding]; other site 452659001568 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 452659001569 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 452659001570 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452659001571 Uncharacterized secreted protein [Function unknown]; Region: COG5430 452659001572 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 452659001573 Spore Coat Protein U domain; Region: SCPU; pfam05229 452659001574 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 452659001575 Class I ribonucleotide reductase; Region: RNR_I; cd01679 452659001576 active site 452659001577 dimer interface [polypeptide binding]; other site 452659001578 catalytic residues [active] 452659001579 effector binding site; other site 452659001580 R2 peptide binding site; other site 452659001581 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 452659001582 dimer interface [polypeptide binding]; other site 452659001583 putative radical transfer pathway; other site 452659001584 diiron center [ion binding]; other site 452659001585 tyrosyl radical; other site 452659001586 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 452659001587 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 452659001588 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 452659001589 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 452659001590 active site 452659001591 substrate binding site [chemical binding]; other site 452659001592 metal binding site [ion binding]; metal-binding site 452659001593 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 452659001594 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659001595 Walker A/P-loop; other site 452659001596 ATP binding site [chemical binding]; other site 452659001597 Q-loop/lid; other site 452659001598 ABC transporter signature motif; other site 452659001599 Walker B; other site 452659001600 D-loop; other site 452659001601 H-loop/switch region; other site 452659001602 OstA-like protein; Region: OstA; pfam03968 452659001603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 452659001604 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 452659001605 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 452659001606 putative active site [active] 452659001607 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 452659001608 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 452659001609 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 452659001610 RNase E interface [polypeptide binding]; other site 452659001611 trimer interface [polypeptide binding]; other site 452659001612 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 452659001613 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 452659001614 RNase E interface [polypeptide binding]; other site 452659001615 trimer interface [polypeptide binding]; other site 452659001616 active site 452659001617 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 452659001618 putative nucleic acid binding region [nucleotide binding]; other site 452659001619 G-X-X-G motif; other site 452659001620 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 452659001621 RNA binding site [nucleotide binding]; other site 452659001622 domain interface; other site 452659001623 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 452659001624 16S/18S rRNA binding site [nucleotide binding]; other site 452659001625 S13e-L30e interaction site [polypeptide binding]; other site 452659001626 25S rRNA binding site [nucleotide binding]; other site 452659001627 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK14846 452659001628 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 452659001629 RNA binding site [nucleotide binding]; other site 452659001630 active site 452659001631 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659001632 TLC ATP/ADP transporter; Region: TLC; pfam03219 452659001633 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 452659001634 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 452659001635 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 452659001636 non-specific DNA binding site [nucleotide binding]; other site 452659001637 salt bridge; other site 452659001638 sequence-specific DNA binding site [nucleotide binding]; other site 452659001639 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 452659001640 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 452659001641 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 452659001642 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 452659001643 uncharacterized protein, YfiH family; Region: TIGR00726 452659001644 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 452659001645 catalytic residues [active] 452659001646 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659001647 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 452659001648 pyruvate phosphate dikinase; Provisional; Region: PRK09279 452659001649 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 452659001650 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 452659001651 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 452659001652 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 452659001653 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 452659001654 GSH binding site (G-site) [chemical binding]; other site 452659001655 C-terminal domain interface [polypeptide binding]; other site 452659001656 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 452659001657 N-terminal domain interface [polypeptide binding]; other site 452659001658 dimer interface [polypeptide binding]; other site 452659001659 substrate binding pocket (H-site) [chemical binding]; other site 452659001660 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 452659001661 conserved cys residue [active] 452659001662 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 452659001663 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 452659001664 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 452659001665 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 452659001666 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 452659001667 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 452659001668 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 452659001669 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 452659001670 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 452659001671 Uncharacterized conserved protein [Function unknown]; Region: COG5448 452659001672 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 452659001673 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 452659001674 Predicted membrane protein [Function unknown]; Region: COG5346 452659001675 translation initiation factor IF-3; Region: infC; TIGR00168 452659001676 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 452659001677 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 452659001678 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 452659001679 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 452659001680 E3 interaction surface; other site 452659001681 lipoyl attachment site [posttranslational modification]; other site 452659001682 e3 binding domain; Region: E3_binding; pfam02817 452659001683 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 452659001684 peptide chain release factor 1; Validated; Region: prfA; PRK00591 452659001685 This domain is found in peptide chain release factors; Region: PCRF; smart00937 452659001686 RF-1 domain; Region: RF-1; pfam00472 452659001687 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 452659001688 DHH family; Region: DHH; pfam01368 452659001689 DHHA1 domain; Region: DHHA1; pfam02272 452659001690 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 452659001691 S-adenosylmethionine binding site [chemical binding]; other site 452659001692 Methyltransferase domain; Region: Methyltransf_31; pfam13847 452659001693 transcription termination factor Rho; Provisional; Region: rho; PRK09376 452659001694 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 452659001695 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 452659001696 RNA binding site [nucleotide binding]; other site 452659001697 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 452659001698 multimer interface [polypeptide binding]; other site 452659001699 Walker A motif; other site 452659001700 ATP binding site [chemical binding]; other site 452659001701 Walker B motif; other site 452659001702 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 452659001703 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 452659001704 tandem repeat interface [polypeptide binding]; other site 452659001705 oligomer interface [polypeptide binding]; other site 452659001706 active site residues [active] 452659001707 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 452659001708 IHF - DNA interface [nucleotide binding]; other site 452659001709 IHF dimer interface [polypeptide binding]; other site 452659001710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3022 452659001711 hypothetical protein; Region: PHA00670 452659001712 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 452659001713 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 452659001714 active site 452659001715 HIGH motif; other site 452659001716 dimer interface [polypeptide binding]; other site 452659001717 KMSKS motif; other site 452659001718 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 452659001719 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 452659001720 putative acyl-acceptor binding pocket; other site 452659001721 Protein required for attachment to host cells [Cell motility and secretion]; Region: COG5622 452659001722 RelB antitoxin; Region: RelB; cl01171 452659001723 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 452659001724 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 452659001725 HemY protein N-terminus; Region: HemY_N; pfam07219 452659001726 Rickettsial palindromic element RPE2 domain; Region: RPE2; TIGR03774 452659001727 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 452659001728 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 452659001729 active site 452659001730 Lysine efflux permease [General function prediction only]; Region: COG1279 452659001731 muropeptide transporter; Reviewed; Region: ampG; PRK11902 452659001732 AmpG-like permease; Region: 2A0125; TIGR00901 452659001733 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 452659001734 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 452659001735 TLC ATP/ADP transporter; Region: TLC; pfam03219 452659001736 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 452659001737 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 452659001738 substrate binding pocket [chemical binding]; other site 452659001739 chain length determination region; other site 452659001740 substrate-Mg2+ binding site; other site 452659001741 catalytic residues [active] 452659001742 aspartate-rich region 1; other site 452659001743 active site lid residues [active] 452659001744 aspartate-rich region 2; other site 452659001745 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 452659001746 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 452659001747 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 452659001748 active site 452659001749 arginine:agmatin antiporter; Provisional; Region: PRK10644 452659001750 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 452659001751 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 452659001752 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 452659001753 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 452659001754 trimerization site [polypeptide binding]; other site 452659001755 active site 452659001756 cysteine desulfurase; Provisional; Region: PRK14012 452659001757 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 452659001758 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452659001759 catalytic residue [active] 452659001760 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 452659001761 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 452659001762 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452659001763 catalytic residue [active] 452659001764 Predicted transcriptional regulator [Transcription]; Region: COG1959 452659001765 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 452659001766 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 452659001767 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 452659001768 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 452659001769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452659001770 Coenzyme A binding pocket [chemical binding]; other site 452659001771 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 452659001772 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 452659001773 homotetramer interface [polypeptide binding]; other site 452659001774 FMN binding site [chemical binding]; other site 452659001775 homodimer contacts [polypeptide binding]; other site 452659001776 putative active site [active] 452659001777 putative substrate binding site [chemical binding]; other site 452659001778 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 452659001779 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 452659001780 oligomer interface [polypeptide binding]; other site 452659001781 active site residues [active] 452659001782 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 452659001783 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 452659001784 RNA binding site [nucleotide binding]; other site 452659001785 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 452659001786 RNA binding site [nucleotide binding]; other site 452659001787 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 452659001788 RNA binding site [nucleotide binding]; other site 452659001789 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 452659001790 RNA binding site [nucleotide binding]; other site 452659001791 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 452659001792 RNA binding site [nucleotide binding]; other site 452659001793 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 452659001794 RNA binding site [nucleotide binding]; other site 452659001795 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 452659001796 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 452659001797 CMP-binding site; other site 452659001798 The sites determining sugar specificity; other site 452659001799 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 452659001800 non-specific DNA binding site [nucleotide binding]; other site 452659001801 salt bridge; other site 452659001802 sequence-specific DNA binding site [nucleotide binding]; other site 452659001803 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 452659001804 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 452659001805 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 452659001806 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 452659001807 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 452659001808 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 452659001809 domain interfaces; other site 452659001810 active site 452659001811 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 452659001812 dimer interface [polypeptide binding]; other site 452659001813 catalytic triad [active] 452659001814 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 452659001815 G-X-G motif; other site 452659001816 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 452659001817 dimer interface [polypeptide binding]; other site 452659001818 phosphorylation site [posttranslational modification] 452659001819 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 452659001820 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 452659001821 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 452659001822 Rickettsial palindromic element RPE2 domain; Region: RPE2; TIGR03774 452659001823 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 452659001824 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 452659001825 Uncharacterized conserved protein [Function unknown]; Region: COG1723 452659001826 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 452659001827 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 452659001828 catalytic site [active] 452659001829 putative active site [active] 452659001830 putative substrate binding site [chemical binding]; other site 452659001831 Helicase and RNase D C-terminal; Region: HRDC; smart00341 452659001832 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 452659001833 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 452659001834 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 452659001835 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 452659001836 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452659001837 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 452659001838 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 452659001839 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 452659001840 S-adenosylmethionine binding site [chemical binding]; other site 452659001841 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 452659001842 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 452659001843 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 452659001844 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 452659001845 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 452659001846 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452659001847 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 452659001848 hypothetical protein; Validated; Region: PRK00110 452659001849 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 452659001850 Substrate binding site; other site 452659001851 Mg++ binding site; other site 452659001852 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 452659001853 metal binding site [ion binding]; metal-binding site 452659001854 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 452659001855 Coenzyme A binding pocket [chemical binding]; other site 452659001856 AAA domain; Region: AAA_17; pfam13207 452659001857 AAA domain; Region: AAA_18; pfam13238 452659001858 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00196 452659001859 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 452659001860 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 452659001861 dimer interface [polypeptide binding]; other site 452659001862 allosteric magnesium binding site [ion binding]; other site 452659001863 active site 452659001864 aspartate-rich active site metal binding site; other site 452659001865 Schiff base residues; other site 452659001866 primosome assembly protein PriA; Validated; Region: PRK05580 452659001867 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 452659001868 ATP binding site [chemical binding]; other site 452659001869 putative Mg++ binding site [ion binding]; other site 452659001870 helicase superfamily c-terminal domain; Region: HELICc; smart00490 452659001871 aromatic acid decarboxylase; Validated; Region: PRK05920 452659001872 Flavoprotein; Region: Flavoprotein; pfam02441 452659001873 SacI restriction endonuclease; Region: RE_SacI; pfam09566 452659001874 replicative DNA helicase; Provisional; Region: PRK09165 452659001875 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 452659001876 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 452659001877 Walker A motif; other site 452659001878 ATP binding site [chemical binding]; other site 452659001879 Walker B motif; other site 452659001880 DNA binding loops [nucleotide binding] 452659001881 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 452659001882 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 452659001883 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 452659001884 RNA binding surface [nucleotide binding]; other site 452659001885 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 452659001886 active site 452659001887 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 452659001888 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 452659001889 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 452659001890 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 452659001891 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 452659001892 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 452659001893 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 452659001894 S-adenosylmethionine binding site [chemical binding]; other site 452659001895 DNA repair protein RadA; Provisional; Region: PRK11823 452659001896 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 452659001897 Walker A motif/ATP binding site; other site 452659001898 ATP binding site [chemical binding]; other site 452659001899 Walker B motif; other site 452659001900 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 452659001901 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 452659001902 Recombination protein O N terminal; Region: RecO_N; pfam11967 452659001903 Recombination protein O C terminal; Region: RecO_C; pfam02565 452659001904 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 452659001905 Glycoprotease family; Region: Peptidase_M22; pfam00814 452659001906 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 452659001907 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 452659001908 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 452659001909 G1 box; other site 452659001910 putative GEF interaction site [polypeptide binding]; other site 452659001911 GTP/Mg2+ binding site [chemical binding]; other site 452659001912 Switch I region; other site 452659001913 G2 box; other site 452659001914 G3 box; other site 452659001915 Switch II region; other site 452659001916 G4 box; other site 452659001917 G5 box; other site 452659001918 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 452659001919 Translation-initiation factor 2; Region: IF-2; pfam11987 452659001920 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 452659001921 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 452659001922 NusA N-terminal domain; Region: NusA_N; pfam08529 452659001923 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 452659001924 RNA binding site [nucleotide binding]; other site 452659001925 homodimer interface [polypeptide binding]; other site 452659001926 NusA-like KH domain; Region: KH_5; pfam13184 452659001927 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 452659001928 G-X-X-G motif; other site 452659001929 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 452659001930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 452659001931 Sm and related proteins; Region: Sm_like; cl00259 452659001932 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 452659001933 putative oligomer interface [polypeptide binding]; other site 452659001934 putative RNA binding site [nucleotide binding]; other site 452659001935 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 452659001936 NAD binding pocket [chemical binding]; other site 452659001937 Predicted transcriptional regulator [Transcription]; Region: COG1959 452659001938 Transcriptional regulator; Region: Rrf2; cl17282 452659001939 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 452659001940 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 452659001941 RNA binding surface [nucleotide binding]; other site 452659001942 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 452659001943 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 452659001944 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 452659001945 active site 452659001946 HIGH motif; other site 452659001947 dimer interface [polypeptide binding]; other site 452659001948 KMSKS motif; other site 452659001949 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 452659001950 RNA binding surface [nucleotide binding]; other site 452659001951 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 452659001952 proline/glycine betaine transporter; Provisional; Region: PRK10642 452659001953 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; cl00474 452659001954 active site 452659001955 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 452659001956 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 452659001957 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 452659001958 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 452659001959 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 452659001960 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 452659001961 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 452659001962 active site 452659001963 phosphorylation site [posttranslational modification] 452659001964 intermolecular recognition site; other site 452659001965 dimerization interface [polypeptide binding]; other site 452659001966 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 452659001967 Walker A motif; other site 452659001968 ATP binding site [chemical binding]; other site 452659001969 Walker B motif; other site 452659001970 arginine finger; other site 452659001971 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 452659001972 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 452659001973 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 452659001974 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 452659001975 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 452659001976 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 452659001977 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 452659001978 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 452659001979 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 452659001980 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 452659001981 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 452659001982 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 452659001983 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 452659001984 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 452659001985 S-adenosylmethionine binding site [chemical binding]; other site 452659001986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 452659001987 MraZ protein; Region: MraZ; pfam02381 452659001988 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 452659001989 Na binding site [ion binding]; other site 452659001990 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 452659001991 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 452659001992 GIY-YIG motif/motif A; other site 452659001993 active site 452659001994 catalytic site [active] 452659001995 putative DNA binding site [nucleotide binding]; other site 452659001996 metal binding site [ion binding]; metal-binding site 452659001997 UvrB/uvrC motif; Region: UVR; pfam02151 452659001998 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 452659001999 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 452659002000 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 452659002001 A new structural DNA glycosylase; Region: AlkD_like; cd06561 452659002002 active site 452659002003 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 452659002004 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 452659002005 DNA binding site [nucleotide binding] 452659002006 active site 452659002007 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 452659002008 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 452659002009 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 452659002010 DEAD/DEAH box helicase; Region: DEAD; pfam00270 452659002011 ATP binding site [chemical binding]; other site 452659002012 putative Mg++ binding site [ion binding]; other site 452659002013 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 452659002014 SEC-C motif; Region: SEC-C; pfam02810 452659002015 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 452659002016 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 452659002017 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 452659002018 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 452659002019 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 452659002020 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 452659002021 hinge; other site 452659002022 active site 452659002023 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 452659002024 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 452659002025 ATP binding site [chemical binding]; other site 452659002026 Mg2+ binding site [ion binding]; other site 452659002027 G-X-G motif; other site 452659002028 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 452659002029 anchoring element; other site 452659002030 dimer interface [polypeptide binding]; other site 452659002031 ATP binding site [chemical binding]; other site 452659002032 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 452659002033 active site 452659002034 putative metal-binding site [ion binding]; other site 452659002035 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 452659002036 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 452659002037 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 452659002038 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 452659002039 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 452659002040 MgtE intracellular N domain; Region: MgtE_N; pfam03448 452659002041 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 452659002042 Divalent cation transporter; Region: MgtE; pfam01769 452659002043 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 452659002044 HD domain; Region: HD_4; pfam13328 452659002045 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 452659002046 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 452659002047 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 452659002048 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 452659002049 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 452659002050 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 452659002051 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 452659002052 Cu(I) binding site [ion binding]; other site 452659002053 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 452659002054 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 452659002055 dimer interface [polypeptide binding]; other site 452659002056 substrate binding site [chemical binding]; other site 452659002057 metal binding sites [ion binding]; metal-binding site 452659002058 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659002059 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 452659002060 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 452659002061 TraX protein; Region: TraX; pfam05857 452659002062 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 452659002063 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 452659002064 ssDNA binding site; other site 452659002065 generic binding surface II; other site 452659002066 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 452659002067 ATP binding site [chemical binding]; other site 452659002068 putative Mg++ binding site [ion binding]; other site 452659002069 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 452659002070 nucleotide binding region [chemical binding]; other site 452659002071 ATP-binding site [chemical binding]; other site 452659002072 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 452659002073 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 452659002074 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 452659002075 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 452659002076 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 452659002077 Mg++ binding site [ion binding]; other site 452659002078 putative catalytic motif [active] 452659002079 putative substrate binding site [chemical binding]; other site 452659002080 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 452659002081 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452659002082 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452659002083 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452659002084 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 452659002085 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452659002086 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452659002087 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452659002088 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 452659002089 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 452659002090 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 452659002091 ATP binding site [chemical binding]; other site 452659002092 putative Mg++ binding site [ion binding]; other site 452659002093 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 452659002094 nucleotide binding region [chemical binding]; other site 452659002095 ATP-binding site [chemical binding]; other site 452659002096 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 452659002097 Uncharacterized conserved protein [Function unknown]; Region: COG2938 452659002098 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 452659002099 active site residue [active] 452659002100 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 452659002101 DnaA N-terminal domain; Region: DnaA_N; pfam11638 452659002102 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 452659002103 Walker A motif; other site 452659002104 ATP binding site [chemical binding]; other site 452659002105 Walker B motif; other site 452659002106 arginine finger; other site 452659002107 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 452659002108 DnaA box-binding interface [nucleotide binding]; other site 452659002109 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 452659002110 Patatin [General function prediction only]; Region: COG3621 452659002111 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 452659002112 active site 452659002113 nucleophile elbow; other site 452659002114 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 452659002115 HEPN domain; Region: HEPN; cl00824 452659002116 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 452659002117 metal binding triad [ion binding]; metal-binding site 452659002118 GTP-binding protein YchF; Reviewed; Region: PRK09601 452659002119 YchF GTPase; Region: YchF; cd01900 452659002120 G1 box; other site 452659002121 GTP/Mg2+ binding site [chemical binding]; other site 452659002122 Switch I region; other site 452659002123 G2 box; other site 452659002124 Switch II region; other site 452659002125 G3 box; other site 452659002126 G4 box; other site 452659002127 G5 box; other site 452659002128 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 452659002129 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 452659002130 putative active site [active] 452659002131 catalytic residue [active] 452659002132 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 452659002133 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 452659002134 5S rRNA interface [nucleotide binding]; other site 452659002135 CTC domain interface [polypeptide binding]; other site 452659002136 L16 interface [polypeptide binding]; other site 452659002137 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 452659002138 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 452659002139 FeS/SAM binding site; other site 452659002140 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 452659002141 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 452659002142 23S rRNA binding site [nucleotide binding]; other site 452659002143 L21 binding site [polypeptide binding]; other site 452659002144 L13 binding site [polypeptide binding]; other site 452659002145 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 452659002146 ribonuclease P; Reviewed; Region: rnpA; PRK01492 452659002147 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 452659002148 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 452659002149 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 452659002150 Cl binding site [ion binding]; other site 452659002151 oligomer interface [polypeptide binding]; other site 452659002152 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 452659002153 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 452659002154 dimerization interface [polypeptide binding]; other site 452659002155 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 452659002156 dimer interface [polypeptide binding]; other site 452659002157 phosphorylation site [posttranslational modification] 452659002158 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 452659002159 ATP binding site [chemical binding]; other site 452659002160 Mg2+ binding site [ion binding]; other site 452659002161 G-X-G motif; other site 452659002162 Ribosomal protein S21 [Translation, ribosomal structure and biogenesis]; Region: RpsU; COG0828 452659002163 Uncharacterized conserved protein [Function unknown]; Region: COG5590 452659002164 COQ9; Region: COQ9; pfam08511 452659002165 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 452659002166 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 452659002167 HIGH motif; other site 452659002168 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 452659002169 active site 452659002170 KMSKS motif; other site 452659002171 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 452659002172 tRNA binding surface [nucleotide binding]; other site 452659002173 anticodon binding site; other site 452659002174 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 452659002175 TPR motif; other site 452659002176 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 452659002177 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452659002178 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 452659002179 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 452659002180 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 452659002181 carboxyltransferase (CT) interaction site; other site 452659002182 biotinylation site [posttranslational modification]; other site 452659002183 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 452659002184 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 452659002185 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 452659002186 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 452659002187 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 452659002188 putative substrate translocation pore; other site 452659002189 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 452659002190 putative acyl-acceptor binding pocket; other site 452659002191 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 452659002192 acyl-activating enzyme (AAE) consensus motif; other site 452659002193 putative AMP binding site [chemical binding]; other site 452659002194 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 452659002195 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 452659002196 ABC-ATPase subunit interface; other site 452659002197 dimer interface [polypeptide binding]; other site 452659002198 putative PBP binding regions; other site 452659002199 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 452659002200 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659002201 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 452659002202 S-adenosylmethionine binding site [chemical binding]; other site 452659002203 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 452659002204 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 452659002205 HIGH motif; other site 452659002206 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 452659002207 active site 452659002208 KMSKS motif; other site 452659002209 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659002210 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 452659002211 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 452659002212 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 452659002213 ring oligomerisation interface [polypeptide binding]; other site 452659002214 ATP/Mg binding site [chemical binding]; other site 452659002215 stacking interactions; other site 452659002216 hinge regions; other site 452659002217 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 452659002218 oligomerisation interface [polypeptide binding]; other site 452659002219 mobile loop; other site 452659002220 roof hairpin; other site 452659002221 ribonuclease PH; Reviewed; Region: rph; PRK00173 452659002222 Ribonuclease PH; Region: RNase_PH_bact; cd11362 452659002223 hexamer interface [polypeptide binding]; other site 452659002224 active site 452659002225 GrpE; Region: GrpE; pfam01025 452659002226 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 452659002227 dimer interface [polypeptide binding]; other site 452659002228 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 452659002229 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 452659002230 Domain of unknown function DUF20; Region: UPF0118; pfam01594 452659002231 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 452659002232 hypothetical protein; Validated; Region: PRK06620 452659002233 metabolite-proton symporter; Region: 2A0106; TIGR00883 452659002234 HD domain; Region: HD_4; pfam13328 452659002235 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 452659002236 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 452659002237 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 452659002238 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 452659002239 alphaNTD - beta interaction site [polypeptide binding]; other site 452659002240 alphaNTD homodimer interface [polypeptide binding]; other site 452659002241 alphaNTD - beta' interaction site [polypeptide binding]; other site 452659002242 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 452659002243 30S ribosomal protein S11; Validated; Region: PRK05309 452659002244 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 452659002245 30S ribosomal protein S13; Region: bact_S13; TIGR03631 452659002246 adenylate kinase; Reviewed; Region: adk; PRK00279 452659002247 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 452659002248 AMP-binding site [chemical binding]; other site 452659002249 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 452659002250 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 452659002251 SecY translocase; Region: SecY; pfam00344 452659002252 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 452659002253 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 452659002254 23S rRNA binding site [nucleotide binding]; other site 452659002255 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 452659002256 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 452659002257 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 452659002258 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 452659002259 5S rRNA interface [nucleotide binding]; other site 452659002260 23S rRNA interface [nucleotide binding]; other site 452659002261 L5 interface [polypeptide binding]; other site 452659002262 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 452659002263 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 452659002264 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 452659002265 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 452659002266 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 452659002267 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 452659002268 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 452659002269 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 452659002270 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 452659002271 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 452659002272 RNA binding site [nucleotide binding]; other site 452659002273 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 452659002274 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 452659002275 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 452659002276 L23 interface [polypeptide binding]; other site 452659002277 trigger factor interaction site; other site 452659002278 23S rRNA interface [nucleotide binding]; other site 452659002279 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 452659002280 23S rRNA interface [nucleotide binding]; other site 452659002281 5S rRNA interface [nucleotide binding]; other site 452659002282 putative antibiotic binding site [chemical binding]; other site 452659002283 L25 interface [polypeptide binding]; other site 452659002284 L27 interface [polypeptide binding]; other site 452659002285 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 452659002286 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 452659002287 G-X-X-G motif; other site 452659002288 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 452659002289 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 452659002290 putative translocon binding site; other site 452659002291 protein-rRNA interface [nucleotide binding]; other site 452659002292 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 452659002293 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 452659002294 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 452659002295 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 452659002296 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 452659002297 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 452659002298 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 452659002299 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 452659002300 elongation factor Tu; Reviewed; Region: PRK00049 452659002301 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 452659002302 G1 box; other site 452659002303 GEF interaction site [polypeptide binding]; other site 452659002304 GTP/Mg2+ binding site [chemical binding]; other site 452659002305 Switch I region; other site 452659002306 G2 box; other site 452659002307 G3 box; other site 452659002308 Switch II region; other site 452659002309 G4 box; other site 452659002310 G5 box; other site 452659002311 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 452659002312 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 452659002313 Antibiotic Binding Site [chemical binding]; other site 452659002314 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 452659002315 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 452659002316 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 452659002317 fumarate hydratase; Reviewed; Region: fumC; PRK00485 452659002318 Class II fumarases; Region: Fumarase_classII; cd01362 452659002319 active site 452659002320 tetramer interface [polypeptide binding]; other site 452659002321 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 452659002322 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 452659002323 putative active site [active] 452659002324 homotetrameric interface [polypeptide binding]; other site 452659002325 cell division protein FtsZ; Validated; Region: PRK09330 452659002326 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 452659002327 nucleotide binding site [chemical binding]; other site 452659002328 SulA interaction site; other site 452659002329 Serine protease inhibitor ecotin [General function prediction only]; Region: Eco; COG4574 452659002330 secondary substrate binding site; other site 452659002331 primary substrate binding site; other site 452659002332 inhibition loop; other site 452659002333 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 452659002334 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 452659002335 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 452659002336 muropeptide transporter; Reviewed; Region: ampG; PRK11902 452659002337 putative substrate translocation pore; other site 452659002338 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 452659002339 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 452659002340 ATP binding site [chemical binding]; other site 452659002341 Mg++ binding site [ion binding]; other site 452659002342 motif III; other site 452659002343 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 452659002344 nucleotide binding region [chemical binding]; other site 452659002345 ATP-binding site [chemical binding]; other site 452659002346 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 452659002347 DNA-binding site [nucleotide binding]; DNA binding site 452659002348 RNA-binding motif; other site 452659002349 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 452659002350 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 452659002351 S-adenosylmethionine binding site [chemical binding]; other site 452659002352 SurA N-terminal domain; Region: SurA_N_3; cl07813 452659002353 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 452659002354 Organic solvent tolerance protein; Region: OstA_C; pfam04453 452659002355 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 452659002356 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 452659002357 generic binding surface II; other site 452659002358 generic binding surface I; other site 452659002359 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 452659002360 putative catalytic site [active] 452659002361 putative phosphate binding site [ion binding]; other site 452659002362 active site 452659002363 metal binding site A [ion binding]; metal-binding site 452659002364 DNA binding site [nucleotide binding] 452659002365 putative AP binding site [nucleotide binding]; other site 452659002366 putative metal binding site B [ion binding]; other site 452659002367 GTP-binding protein Der; Reviewed; Region: PRK00093 452659002368 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 452659002369 G1 box; other site 452659002370 GTP/Mg2+ binding site [chemical binding]; other site 452659002371 Switch I region; other site 452659002372 G2 box; other site 452659002373 Switch II region; other site 452659002374 G3 box; other site 452659002375 G4 box; other site 452659002376 G5 box; other site 452659002377 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 452659002378 G1 box; other site 452659002379 GTP/Mg2+ binding site [chemical binding]; other site 452659002380 Switch I region; other site 452659002381 G2 box; other site 452659002382 G3 box; other site 452659002383 Switch II region; other site 452659002384 G4 box; other site 452659002385 G5 box; other site 452659002386 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 452659002387 AAA domain; Region: AAA_14; pfam13173 452659002388 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 452659002389 ABC1 family; Region: ABC1; pfam03109 452659002390 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 452659002391 active site 452659002392 ATP binding site [chemical binding]; other site 452659002393 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 452659002394 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 452659002395 S-adenosylmethionine binding site [chemical binding]; other site 452659002396 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 452659002397 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 452659002398 DNA binding site [nucleotide binding] 452659002399 catalytic residue [active] 452659002400 H2TH interface [polypeptide binding]; other site 452659002401 putative catalytic residues [active] 452659002402 turnover-facilitating residue; other site 452659002403 intercalation triad [nucleotide binding]; other site 452659002404 8OG recognition residue [nucleotide binding]; other site 452659002405 putative reading head residues; other site 452659002406 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 452659002407 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 452659002408 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659002409 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 452659002410 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 452659002411 active site 452659002412 Protein of unknown function (DUF511); Region: DUF511; cl01114 452659002413 Protein of unknown function (DUF511); Region: DUF511; cl01114 452659002414 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 452659002415 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 452659002416 active site 452659002417 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 452659002418 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 452659002419 HIGH motif; other site 452659002420 active site 452659002421 KMSKS motif; other site 452659002422 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 452659002423 tRNA binding surface [nucleotide binding]; other site 452659002424 anticodon binding site; other site 452659002425 thymidylate kinase; Validated; Region: tmk; PRK00698 452659002426 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 452659002427 TMP-binding site; other site 452659002428 ATP-binding site [chemical binding]; other site 452659002429 metabolite-proton symporter; Region: 2A0106; TIGR00883 452659002430 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 452659002431 UbiA prenyltransferase family; Region: UbiA; pfam01040 452659002432 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 452659002433 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452659002434 active site 452659002435 HIGH motif; other site 452659002436 nucleotide binding site [chemical binding]; other site 452659002437 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 452659002438 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452659002439 active site 452659002440 KMSKS motif; other site 452659002441 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 452659002442 tRNA binding surface [nucleotide binding]; other site 452659002443 anticodon binding site; other site 452659002444 LicD family; Region: LicD; cl01378 452659002445 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 452659002446 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 452659002447 RmuC family; Region: RmuC; pfam02646 452659002448 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 452659002449 DoxX-like family; Region: DoxX_3; pfam13781 452659002450 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 452659002451 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 452659002452 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 452659002453 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 452659002454 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 452659002455 Walker A motif; other site 452659002456 ATP binding site [chemical binding]; other site 452659002457 Walker B motif; other site 452659002458 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 452659002459 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 452659002460 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 452659002461 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 452659002462 Ligand Binding Site [chemical binding]; other site 452659002463 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 452659002464 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 452659002465 HicB family; Region: HicB; pfam05534 452659002466 YcfA-like protein; Region: YcfA; cl00752 452659002467 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 452659002468 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 452659002469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659002470 Walker A/P-loop; other site 452659002471 ATP binding site [chemical binding]; other site 452659002472 Q-loop/lid; other site 452659002473 ABC transporter signature motif; other site 452659002474 Walker B; other site 452659002475 D-loop; other site 452659002476 H-loop/switch region; other site 452659002477 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 452659002478 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 452659002479 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 452659002480 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 452659002481 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 452659002482 FtsX-like permease family; Region: FtsX; pfam02687 452659002483 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 452659002484 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 452659002485 Walker A/P-loop; other site 452659002486 ATP binding site [chemical binding]; other site 452659002487 Q-loop/lid; other site 452659002488 ABC transporter signature motif; other site 452659002489 Walker B; other site 452659002490 D-loop; other site 452659002491 H-loop/switch region; other site 452659002492 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 452659002493 Domain of unknown function DUF21; Region: DUF21; pfam01595 452659002494 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 452659002495 Transporter associated domain; Region: CorC_HlyC; smart01091 452659002496 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 452659002497 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 452659002498 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 452659002499 Autotransporter beta-domain; Region: Autotransporter; smart00869 452659002500 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 452659002501 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 452659002502 synthetase active site [active] 452659002503 NTP binding site [chemical binding]; other site 452659002504 metal binding site [ion binding]; metal-binding site 452659002505 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 452659002506 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 452659002507 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 452659002508 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452659002509 DNA binding residues [nucleotide binding] 452659002510 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 452659002511 IHF dimer interface [polypeptide binding]; other site 452659002512 IHF - DNA interface [nucleotide binding]; other site 452659002513 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 452659002514 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 452659002515 catalytic triad [active] 452659002516 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 452659002517 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 452659002518 putative acyl-acceptor binding pocket; other site 452659002519 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 452659002520 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 452659002521 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 452659002522 Peptidase family M23; Region: Peptidase_M23; pfam01551 452659002523 Protein of unknown function (DUF519); Region: DUF519; pfam04378 452659002524 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 452659002525 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 452659002526 nucleotide binding pocket [chemical binding]; other site 452659002527 K-X-D-G motif; other site 452659002528 catalytic site [active] 452659002529 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 452659002530 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 452659002531 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 452659002532 Dimer interface [polypeptide binding]; other site 452659002533 BRCT sequence motif; other site 452659002534 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 452659002535 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 452659002536 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 452659002537 HD domain; Region: HD_4; pfam13328 452659002538 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 452659002539 mce related protein; Region: MCE; pfam02470 452659002540 hypothetical protein; Provisional; Region: PRK06630 452659002541 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 452659002542 RNA/DNA hybrid binding site [nucleotide binding]; other site 452659002543 active site 452659002544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 452659002545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 452659002546 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 452659002547 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 452659002548 CoA-binding site [chemical binding]; other site 452659002549 ATP-binding [chemical binding]; other site 452659002550 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 452659002551 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 452659002552 active site 452659002553 catalytic site [active] 452659002554 substrate binding site [chemical binding]; other site 452659002555 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 452659002556 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 452659002557 Part of AAA domain; Region: AAA_19; pfam13245 452659002558 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 452659002559 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 452659002560 Family description; Region: UvrD_C_2; pfam13538 452659002561 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 452659002562 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 452659002563 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 452659002564 TLC ATP/ADP transporter; Region: TLC; pfam03219 452659002565 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 452659002566 nudix motif; other site 452659002567 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 452659002568 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 452659002569 Transporter associated domain; Region: CorC_HlyC; smart01091 452659002570 metal-binding heat shock protein; Provisional; Region: PRK00016 452659002571 lipoyl synthase; Provisional; Region: PRK05481 452659002572 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 452659002573 FeS/SAM binding site; other site 452659002574 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 452659002575 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 452659002576 dimer interface [polypeptide binding]; other site 452659002577 active site 452659002578 glycine-pyridoxal phosphate binding site [chemical binding]; other site 452659002579 folate binding site [chemical binding]; other site 452659002580 Predicted esterase [General function prediction only]; Region: COG0400 452659002581 putative hydrolase; Provisional; Region: PRK11460 452659002582 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 452659002583 putative GSH binding site [chemical binding]; other site 452659002584 catalytic residues [active] 452659002585 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 452659002586 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 452659002587 minor groove reading motif; other site 452659002588 helix-hairpin-helix signature motif; other site 452659002589 substrate binding pocket [chemical binding]; other site 452659002590 active site 452659002591 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 452659002592 Predicted small secreted protein [Function unknown]; Region: COG5510 452659002593 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 452659002594 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 452659002595 Predicted methyltransferases [General function prediction only]; Region: COG0313 452659002596 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 452659002597 putative SAM binding site [chemical binding]; other site 452659002598 putative homodimer interface [polypeptide binding]; other site 452659002599 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 452659002600 putative ligand binding site [chemical binding]; other site 452659002601 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 452659002602 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 452659002603 tetramer interfaces [polypeptide binding]; other site 452659002604 binuclear metal-binding site [ion binding]; other site 452659002605 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 452659002606 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 452659002607 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 452659002608 aspartate kinase; Reviewed; Region: PRK06635 452659002609 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 452659002610 putative nucleotide binding site [chemical binding]; other site 452659002611 putative catalytic residues [active] 452659002612 putative Mg ion binding site [ion binding]; other site 452659002613 putative aspartate binding site [chemical binding]; other site 452659002614 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 452659002615 putative allosteric regulatory residue; other site 452659002616 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 452659002617 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 452659002618 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 452659002619 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 452659002620 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452659002621 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 452659002622 metabolite-proton symporter; Region: 2A0106; TIGR00883 452659002623 putative substrate translocation pore; other site 452659002624 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 452659002625 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659002626 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 452659002627 Helix-turn-helix domain; Region: HTH_25; pfam13413 452659002628 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 452659002629 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 452659002630 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 452659002631 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 452659002632 trmE is a tRNA modification GTPase; Region: trmE; cd04164 452659002633 G1 box; other site 452659002634 GTP/Mg2+ binding site [chemical binding]; other site 452659002635 Switch I region; other site 452659002636 G2 box; other site 452659002637 Switch II region; other site 452659002638 G3 box; other site 452659002639 G4 box; other site 452659002640 G5 box; other site 452659002641 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 452659002642 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 452659002643 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 452659002644 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 452659002645 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 452659002646 hexamer interface [polypeptide binding]; other site 452659002647 Walker A motif; other site 452659002648 ATP binding site [chemical binding]; other site 452659002649 Walker B motif; other site 452659002650 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 452659002651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452659002652 NAD(P) binding site [chemical binding]; other site 452659002653 active site 452659002654 acyl carrier protein; Provisional; Region: acpP; PRK00982 452659002655 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 452659002656 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 452659002657 dimer interface [polypeptide binding]; other site 452659002658 active site 452659002659 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 452659002660 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452659002661 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452659002662 endonuclease subunit; Provisional; Region: 46; PHA02562 452659002663 AAA domain; Region: AAA_14; pfam13173 452659002664 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 452659002665 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659002666 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 452659002667 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 452659002668 catalytic site [active] 452659002669 G-X2-G-X-G-K; other site 452659002670 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 452659002671 sequence-specific DNA binding site [nucleotide binding]; other site 452659002672 salt bridge; other site 452659002673 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 452659002674 rod shape-determining protein MreC; Region: MreC; pfam04085 452659002675 rod shape-determining protein MreB; Provisional; Region: PRK13927 452659002676 MreB and similar proteins; Region: MreB_like; cd10225 452659002677 nucleotide binding site [chemical binding]; other site 452659002678 Mg binding site [ion binding]; other site 452659002679 putative protofilament interaction site [polypeptide binding]; other site 452659002680 RodZ interaction site [polypeptide binding]; other site 452659002681 Predicted permeases [General function prediction only]; Region: COG0795 452659002682 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 452659002683 putative outer membrane lipoprotein; Provisional; Region: PRK09967 452659002684 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 452659002685 ligand binding site [chemical binding]; other site 452659002686 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 452659002687 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 452659002688 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 452659002689 dimer interface [polypeptide binding]; other site 452659002690 active site 452659002691 CoA binding pocket [chemical binding]; other site 452659002692 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 452659002693 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 452659002694 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 452659002695 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 452659002696 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 452659002697 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 452659002698 P loop; other site 452659002699 GTP binding site [chemical binding]; other site 452659002700 DNA polymerase I; Provisional; Region: PRK05755 452659002701 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 452659002702 active site 452659002703 metal binding site 1 [ion binding]; metal-binding site 452659002704 putative 5' ssDNA interaction site; other site 452659002705 metal binding site 3; metal-binding site 452659002706 metal binding site 2 [ion binding]; metal-binding site 452659002707 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 452659002708 putative DNA binding site [nucleotide binding]; other site 452659002709 putative metal binding site [ion binding]; other site 452659002710 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 452659002711 active site 452659002712 substrate binding site [chemical binding]; other site 452659002713 catalytic site [active] 452659002714 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 452659002715 active site 452659002716 DNA binding site [nucleotide binding] 452659002717 catalytic site [active] 452659002718 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 452659002719 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 452659002720 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 452659002721 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 452659002722 putative active site [active] 452659002723 putative PHP Thumb interface [polypeptide binding]; other site 452659002724 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 452659002725 generic binding surface I; other site 452659002726 generic binding surface II; other site 452659002727 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 452659002728 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 452659002729 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 452659002730 Protein of unknown function; Region: DUF3971; pfam13116 452659002731 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 452659002732 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 452659002733 putative substrate translocation pore; other site 452659002734 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 452659002735 seryl-tRNA synthetase; Provisional; Region: PRK05431 452659002736 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 452659002737 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 452659002738 dimer interface [polypeptide binding]; other site 452659002739 active site 452659002740 motif 1; other site 452659002741 motif 2; other site 452659002742 motif 3; other site 452659002743 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 452659002744 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 452659002745 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 452659002746 Integral membrane protein TerC family; Region: TerC; cl10468 452659002747 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 452659002748 Methyltransferase domain; Region: Methyltransf_31; pfam13847 452659002749 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 452659002750 S-adenosylmethionine binding site [chemical binding]; other site 452659002751 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 452659002752 Predicted transcriptional regulator [Transcription]; Region: COG2944 452659002753 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 452659002754 salt bridge; other site 452659002755 non-specific DNA binding site [nucleotide binding]; other site 452659002756 sequence-specific DNA binding site [nucleotide binding]; other site 452659002757 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 452659002758 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 452659002759 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 452659002760 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 452659002761 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 452659002762 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 452659002763 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 452659002764 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 452659002765 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 452659002766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659002767 Walker A/P-loop; other site 452659002768 ATP binding site [chemical binding]; other site 452659002769 Q-loop/lid; other site 452659002770 ABC transporter signature motif; other site 452659002771 Walker B; other site 452659002772 D-loop; other site 452659002773 H-loop/switch region; other site 452659002774 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 452659002775 4Fe-4S binding domain; Region: Fer4; cl02805 452659002776 4Fe-4S binding domain; Region: Fer4; pfam00037 452659002777 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 452659002778 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 452659002779 NADH dehydrogenase subunit G; Validated; Region: PRK09130 452659002780 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 452659002781 catalytic loop [active] 452659002782 iron binding site [ion binding]; other site 452659002783 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 452659002784 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 452659002785 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 452659002786 Predicted membrane protein [Function unknown]; Region: COG3671 452659002787 aconitate hydratase; Validated; Region: PRK09277 452659002788 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 452659002789 substrate binding site [chemical binding]; other site 452659002790 ligand binding site [chemical binding]; other site 452659002791 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 452659002792 substrate binding site [chemical binding]; other site 452659002793 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 452659002794 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 452659002795 gamma subunit interface [polypeptide binding]; other site 452659002796 epsilon subunit interface [polypeptide binding]; other site 452659002797 LBP interface [polypeptide binding]; other site 452659002798 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 452659002799 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 452659002800 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 452659002801 alpha subunit interaction interface [polypeptide binding]; other site 452659002802 Walker A motif; other site 452659002803 ATP binding site [chemical binding]; other site 452659002804 Walker B motif; other site 452659002805 inhibitor binding site; inhibition site 452659002806 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 452659002807 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 452659002808 core domain interface [polypeptide binding]; other site 452659002809 delta subunit interface [polypeptide binding]; other site 452659002810 epsilon subunit interface [polypeptide binding]; other site 452659002811 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 452659002812 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 452659002813 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 452659002814 beta subunit interaction interface [polypeptide binding]; other site 452659002815 Walker A motif; other site 452659002816 ATP binding site [chemical binding]; other site 452659002817 Walker B motif; other site 452659002818 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 452659002819 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 452659002820 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 452659002821 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 452659002822 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 452659002823 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452659002824 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 452659002825 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 452659002826 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 452659002827 dimerization interface [polypeptide binding]; other site 452659002828 DPS ferroxidase diiron center [ion binding]; other site 452659002829 ion pore; other site 452659002830 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 452659002831 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 452659002832 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 452659002833 Transglycosylase; Region: Transgly; pfam00912 452659002834 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 452659002835 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 452659002836 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 452659002837 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 452659002838 FeS/SAM binding site; other site 452659002839 TRAM domain; Region: TRAM; pfam01938 452659002840 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 452659002841 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 452659002842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 452659002843 Bacterial SH3 domain; Region: SH3_4; pfam06347 452659002844 Bacterial SH3 domain; Region: SH3_4; pfam06347 452659002845 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 452659002846 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 452659002847 TrkA-N domain; Region: TrkA_N; pfam02254 452659002848 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 452659002849 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 452659002850 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 452659002851 rRNA binding site [nucleotide binding]; other site 452659002852 predicted 30S ribosome binding site; other site 452659002853 Maf-like protein; Region: Maf; pfam02545 452659002854 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 452659002855 active site 452659002856 dimer interface [polypeptide binding]; other site 452659002857 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 452659002858 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 452659002859 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 452659002860 active site 452659002861 DNA binding site [nucleotide binding] 452659002862 Int/Topo IB signature motif; other site 452659002863 Phasin protein; Region: Phasin_2; cl11491 452659002864 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 452659002865 PLD-like domain; Region: PLDc_2; pfam13091 452659002866 putative active site [active] 452659002867 catalytic site [active] 452659002868 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 452659002869 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 452659002870 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 452659002871 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 452659002872 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 452659002873 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 452659002874 Autotransporter beta-domain; Region: Autotransporter; pfam03797 452659002875 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 452659002876 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 452659002877 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 452659002878 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 452659002879 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 452659002880 active site 452659002881 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 452659002882 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 452659002883 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 452659002884 MPN+ (JAMM) motif; other site 452659002885 Zinc-binding site [ion binding]; other site 452659002886 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 452659002887 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 452659002888 Mg++ binding site [ion binding]; other site 452659002889 putative catalytic motif [active] 452659002890 putative substrate binding site [chemical binding]; other site 452659002891 Protein of unknown function (DUF721); Region: DUF721; pfam05258 452659002892 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 452659002893 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 452659002894 Ferredoxin [Energy production and conversion]; Region: COG1146 452659002895 4Fe-4S binding domain; Region: Fer4; cl02805 452659002896 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 452659002897 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 452659002898 nucleoside/Zn binding site; other site 452659002899 dimer interface [polypeptide binding]; other site 452659002900 catalytic motif [active] 452659002901 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 452659002902 Cation efflux family; Region: Cation_efflux; cl00316 452659002903 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 452659002904 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 452659002905 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 452659002906 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 452659002907 DNA polymerase II large subunit; Provisional; Region: PRK14715 452659002908 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 452659002909 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 452659002910 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 452659002911 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 452659002912 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 452659002913 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 452659002914 dimer interface [polypeptide binding]; other site 452659002915 ssDNA binding site [nucleotide binding]; other site 452659002916 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452659002917 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 452659002918 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 452659002919 hypothetical protein; Reviewed; Region: PRK01530 452659002920 heat shock protein 90; Provisional; Region: PRK05218 452659002921 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 452659002922 ATP binding site [chemical binding]; other site 452659002923 Mg2+ binding site [ion binding]; other site 452659002924 G-X-G motif; other site 452659002925 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 452659002926 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 452659002927 substrate-cofactor binding pocket; other site 452659002928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452659002929 catalytic residue [active] 452659002930 trigger factor; Provisional; Region: tig; PRK01490 452659002931 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 452659002932 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 452659002933 GTPase CgtA; Reviewed; Region: obgE; PRK12299 452659002934 GTP1/OBG; Region: GTP1_OBG; pfam01018 452659002935 Obg GTPase; Region: Obg; cd01898 452659002936 G1 box; other site 452659002937 GTP/Mg2+ binding site [chemical binding]; other site 452659002938 Switch I region; other site 452659002939 G2 box; other site 452659002940 G3 box; other site 452659002941 Switch II region; other site 452659002942 G4 box; other site 452659002943 G5 box; other site 452659002944 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 452659002945 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 452659002946 dimer interface [polypeptide binding]; other site 452659002947 active site 452659002948 citrylCoA binding site [chemical binding]; other site 452659002949 NADH binding [chemical binding]; other site 452659002950 cationic pore residues; other site 452659002951 oxalacetate/citrate binding site [chemical binding]; other site 452659002952 coenzyme A binding site [chemical binding]; other site 452659002953 catalytic triad [active] 452659002954 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 452659002955 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 452659002956 Fe-S cluster binding site [ion binding]; other site 452659002957 active site 452659002958 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 452659002959 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 452659002960 RNA binding surface [nucleotide binding]; other site 452659002961 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 452659002962 active site 452659002963 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 452659002964 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 452659002965 S-adenosylmethionine binding site [chemical binding]; other site 452659002966 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 452659002967 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 452659002968 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 452659002969 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 452659002970 motif 1; other site 452659002971 dimer interface [polypeptide binding]; other site 452659002972 active site 452659002973 motif 2; other site 452659002974 motif 3; other site 452659002975 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 452659002976 oligomeric interface; other site 452659002977 putative active site [active] 452659002978 homodimer interface [polypeptide binding]; other site 452659002979 prevent-host-death family protein; Region: phd_fam; TIGR01552 452659002980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 452659002981 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 452659002982 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 452659002983 motif 1; other site 452659002984 active site 452659002985 motif 2; other site 452659002986 motif 3; other site 452659002987 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 452659002988 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 452659002989 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 452659002990 dimerization interface 3.5A [polypeptide binding]; other site 452659002991 active site 452659002992 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 452659002993 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 452659002994 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 452659002995 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452659002996 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 452659002997 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 452659002998 DNA binding residues [nucleotide binding] 452659002999 DNA primase, catalytic core; Region: dnaG; TIGR01391 452659003000 CHC2 zinc finger; Region: zf-CHC2; pfam01807 452659003001 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 452659003002 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 452659003003 active site 452659003004 metal binding site [ion binding]; metal-binding site 452659003005 interdomain interaction site; other site 452659003006 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 452659003007 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 452659003008 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 452659003009 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 452659003010 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 452659003011 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 452659003012 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 452659003013 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 452659003014 ligand binding site [chemical binding]; other site 452659003015 homodimer interface [polypeptide binding]; other site 452659003016 NAD(P) binding site [chemical binding]; other site 452659003017 trimer interface B [polypeptide binding]; other site 452659003018 trimer interface A [polypeptide binding]; other site 452659003019 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 452659003020 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 452659003021 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 452659003022 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 452659003023 Walker A motif; other site 452659003024 ATP binding site [chemical binding]; other site 452659003025 Walker B motif; other site 452659003026 arginine finger; other site 452659003027 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 452659003028 hypothetical protein; Validated; Region: PRK00153 452659003029 Predicted aspartyl protease [General function prediction only]; Region: COG3577 452659003030 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 452659003031 catalytic motif [active] 452659003032 Catalytic residue [active] 452659003033 Beta-lactamase; Region: Beta-lactamase; cl17358 452659003034 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 452659003035 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 452659003036 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452659003037 Walker A/P-loop; other site 452659003038 ATP binding site [chemical binding]; other site 452659003039 Q-loop/lid; other site 452659003040 ABC transporter signature motif; other site 452659003041 Walker B; other site 452659003042 D-loop; other site 452659003043 H-loop/switch region; other site 452659003044 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 452659003045 putative hydrolase; Provisional; Region: PRK02113 452659003046 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 452659003047 active site 452659003048 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 452659003049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 452659003050 Predicted permeases [General function prediction only]; Region: COG0795 452659003051 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 452659003052 DNA polymerase III subunit chi; Provisional; Region: PRK06646 452659003053 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 452659003054 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 452659003055 metal binding site [ion binding]; metal-binding site 452659003056 dimer interface [polypeptide binding]; other site 452659003057 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 452659003058 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 452659003059 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 452659003060 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 452659003061 Uncharacterized conserved protein [Function unknown]; Region: COG1434 452659003062 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 452659003063 putative active site [active] 452659003064 lipoate-protein ligase B; Provisional; Region: PRK14347 452659003065 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 452659003066 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 452659003067 amidase catalytic site [active] 452659003068 Zn binding residues [ion binding]; other site 452659003069 substrate binding site [chemical binding]; other site 452659003070 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 452659003071 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 452659003072 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 452659003073 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 452659003074 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 452659003075 ATP binding site [chemical binding]; other site 452659003076 Mg2+ binding site [ion binding]; other site 452659003077 G-X-G motif; other site 452659003078 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 452659003079 ATP binding site [chemical binding]; other site 452659003080 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 452659003081 Zinc-finger domain; Region: zf-CHCC; cl01821 452659003082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452659003083 Tetratricopeptide repeat; Region: TPR_12; pfam13424 452659003084 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 452659003085 TPR motif; other site 452659003086 TPR repeat; Region: TPR_11; pfam13414 452659003087 binding surface 452659003088 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 452659003089 metabolite-proton symporter; Region: 2A0106; TIGR00883 452659003090 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 452659003091 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 452659003092 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 452659003093 TIGR00701 family protein; Region: TIGR00701 452659003094 ferrochelatase; Reviewed; Region: hemH; PRK00035 452659003095 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 452659003096 C-terminal domain interface [polypeptide binding]; other site 452659003097 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 452659003098 active site 452659003099 N-terminal domain interface [polypeptide binding]; other site 452659003100 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 452659003101 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 452659003102 substrate binding site [chemical binding]; other site 452659003103 active site