-- dump date 20140619_022412 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1041504000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1041504000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1041504000003 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 1041504000004 Walker A motif; other site 1041504000005 ATP binding site [chemical binding]; other site 1041504000006 Walker B motif; other site 1041504000007 arginine finger; other site 1041504000008 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 1041504000009 DnaA box-binding interface [nucleotide binding]; other site 1041504000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1041504000011 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 1041504000012 putative DNA binding surface [nucleotide binding]; other site 1041504000013 dimer interface [polypeptide binding]; other site 1041504000014 beta-clamp/clamp loader binding surface; other site 1041504000015 beta-clamp/translesion DNA polymerase binding surface; other site 1041504000016 recombination protein F; Reviewed; Region: recF; PRK00064 1041504000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504000018 Walker A/P-loop; other site 1041504000019 ATP binding site [chemical binding]; other site 1041504000020 Q-loop/lid; other site 1041504000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504000022 ABC transporter signature motif; other site 1041504000023 Walker B; other site 1041504000024 D-loop; other site 1041504000025 H-loop/switch region; other site 1041504000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1041504000027 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 1041504000028 ATP binding site [chemical binding]; other site 1041504000029 Mg2+ binding site [ion binding]; other site 1041504000030 G-X-G motif; other site 1041504000031 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 1041504000032 anchoring element; other site 1041504000033 dimer interface [polypeptide binding]; other site 1041504000034 ATP binding site [chemical binding]; other site 1041504000035 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 1041504000036 active site 1041504000037 putative metal-binding site [ion binding]; other site 1041504000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1041504000039 DNA gyrase subunit A; Validated; Region: PRK05560 1041504000040 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 1041504000041 CAP-like domain; other site 1041504000042 active site 1041504000043 primary dimer interface [polypeptide binding]; other site 1041504000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1041504000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1041504000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1041504000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1041504000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1041504000049 HD domain; Region: HD; pfam01966 1041504000050 Zn2+ binding site [ion binding]; other site 1041504000051 Mg2+ binding site [ion binding]; other site 1041504000052 seryl-tRNA synthetase; Provisional; Region: PRK05431 1041504000053 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1041504000054 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 1041504000055 dimer interface [polypeptide binding]; other site 1041504000056 active site 1041504000057 motif 1; other site 1041504000058 motif 2; other site 1041504000059 motif 3; other site 1041504000060 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1041504000061 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1041504000062 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1041504000063 Part of AAA domain; Region: AAA_19; pfam13245 1041504000064 Family description; Region: UvrD_C_2; pfam13538 1041504000065 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1041504000066 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1041504000067 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1041504000068 active site 1041504000069 NTP binding site [chemical binding]; other site 1041504000070 metal binding triad [ion binding]; metal-binding site 1041504000071 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1041504000072 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 1041504000073 generic binding surface II; other site 1041504000074 generic binding surface I; other site 1041504000075 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1041504000076 Zn2+ binding site [ion binding]; other site 1041504000077 Mg2+ binding site [ion binding]; other site 1041504000078 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1041504000079 dimer interface [polypeptide binding]; other site 1041504000080 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1041504000081 Pectinacetylesterase; Region: PAE; pfam03283 1041504000082 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1041504000083 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1041504000084 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1041504000085 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1041504000086 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 1041504000087 DNA binding site [nucleotide binding] 1041504000088 active site 1041504000089 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1041504000090 endonuclease III; Region: ENDO3c; smart00478 1041504000091 minor groove reading motif; other site 1041504000092 helix-hairpin-helix signature motif; other site 1041504000093 substrate binding pocket [chemical binding]; other site 1041504000094 active site 1041504000095 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1041504000096 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1041504000097 Chromate transporter; Region: Chromate_transp; pfam02417 1041504000098 Chromate transporter; Region: Chromate_transp; pfam02417 1041504000099 DHHW protein; Region: DHHW; pfam14286 1041504000100 DHHW protein; Region: DHHW; pfam14286 1041504000101 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1041504000102 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 1041504000103 prolyl-tRNA synthetase; Provisional; Region: PRK08661 1041504000104 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_arch_euk; cd00778 1041504000105 dimer interface [polypeptide binding]; other site 1041504000106 motif 1; other site 1041504000107 active site 1041504000108 motif 2; other site 1041504000109 motif 3; other site 1041504000110 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 1041504000111 anticodon binding site; other site 1041504000112 zinc-binding site [ion binding]; other site 1041504000113 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1041504000114 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1041504000115 Domain of unknown function DUF21; Region: DUF21; pfam01595 1041504000116 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 1041504000117 Transporter associated domain; Region: CorC_HlyC; smart01091 1041504000118 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 1041504000119 nucleoside/Zn binding site; other site 1041504000120 dimer interface [polypeptide binding]; other site 1041504000121 catalytic motif [active] 1041504000122 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1041504000123 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 1041504000124 Walker A motif; other site 1041504000125 ATP binding site [chemical binding]; other site 1041504000126 Walker B motif; other site 1041504000127 arginine finger; other site 1041504000128 hypothetical protein; Validated; Region: PRK00153 1041504000129 recombination protein RecR; Reviewed; Region: recR; PRK00076 1041504000130 RecR protein; Region: RecR; pfam02132 1041504000131 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 1041504000132 putative active site [active] 1041504000133 putative metal-binding site [ion binding]; other site 1041504000134 tetramer interface [polypeptide binding]; other site 1041504000135 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 1041504000136 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 1041504000137 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1041504000138 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1041504000139 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1041504000140 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1041504000141 putative ATP binding site [chemical binding]; other site 1041504000142 putative substrate interface [chemical binding]; other site 1041504000143 FemAB family; Region: FemAB; pfam02388 1041504000144 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1041504000145 Predicted methyltransferases [General function prediction only]; Region: COG0313 1041504000146 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1041504000147 putative SAM binding site [chemical binding]; other site 1041504000148 putative homodimer interface [polypeptide binding]; other site 1041504000149 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1041504000150 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1041504000151 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1041504000152 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1041504000153 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1041504000154 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1041504000155 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1041504000156 putative ADP-binding pocket [chemical binding]; other site 1041504000157 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1041504000158 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1041504000159 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504000160 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1041504000161 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1041504000162 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1041504000163 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1041504000164 putative ADP-binding pocket [chemical binding]; other site 1041504000165 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1041504000166 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1041504000167 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1041504000168 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1041504000169 Substrate binding site; other site 1041504000170 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1041504000171 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 1041504000172 active site 1041504000173 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1041504000174 active site 1041504000175 tetramer interface; other site 1041504000176 Isochorismatase family; Region: Isochorismatase; pfam00857 1041504000177 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1041504000178 catalytic triad [active] 1041504000179 conserved cis-peptide bond; other site 1041504000180 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1041504000181 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 1041504000182 dimer interface [polypeptide binding]; other site 1041504000183 ssDNA binding site [nucleotide binding]; other site 1041504000184 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1041504000185 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1041504000186 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1041504000187 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1041504000188 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1041504000189 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1041504000190 alanine racemase; Reviewed; Region: alr; PRK00053 1041504000191 active site 1041504000192 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1041504000193 dimer interface [polypeptide binding]; other site 1041504000194 substrate binding site [chemical binding]; other site 1041504000195 catalytic residues [active] 1041504000196 PemK-like protein; Region: PemK; pfam02452 1041504000197 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 1041504000198 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 1041504000199 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 1041504000200 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1041504000201 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504000202 Walker A/P-loop; other site 1041504000203 ATP binding site [chemical binding]; other site 1041504000204 Q-loop/lid; other site 1041504000205 ABC transporter signature motif; other site 1041504000206 Walker B; other site 1041504000207 D-loop; other site 1041504000208 H-loop/switch region; other site 1041504000209 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1041504000210 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1041504000211 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1041504000212 C-terminal peptidase (prc); Region: prc; TIGR00225 1041504000213 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 1041504000214 protein binding site [polypeptide binding]; other site 1041504000215 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1041504000216 Catalytic dyad [active] 1041504000217 excinuclease ABC subunit B; Provisional; Region: PRK05298 1041504000218 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 1041504000219 ATP binding site [chemical binding]; other site 1041504000220 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 1041504000221 nucleotide binding region [chemical binding]; other site 1041504000222 ATP-binding site [chemical binding]; other site 1041504000223 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1041504000224 UvrB/uvrC motif; Region: UVR; pfam02151 1041504000225 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1041504000226 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1041504000227 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1041504000228 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1041504000229 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1041504000230 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1041504000231 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1041504000232 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1041504000233 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1041504000234 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1041504000235 GIY-YIG motif/motif A; other site 1041504000236 active site 1041504000237 catalytic site [active] 1041504000238 putative DNA binding site [nucleotide binding]; other site 1041504000239 metal binding site [ion binding]; metal-binding site 1041504000240 UvrB/uvrC motif; Region: UVR; pfam02151 1041504000241 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1041504000242 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1041504000243 FAD binding domain; Region: FAD_binding_4; pfam01565 1041504000244 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1041504000245 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1041504000246 AAA domain; Region: AAA_33; pfam13671 1041504000247 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1041504000248 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1041504000249 putative substrate binding pocket [chemical binding]; other site 1041504000250 dimer interface [polypeptide binding]; other site 1041504000251 phosphate binding site [ion binding]; other site 1041504000252 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 1041504000253 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 1041504000254 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1041504000255 active site 1041504000256 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1041504000257 dimer interface [polypeptide binding]; other site 1041504000258 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1041504000259 Ligand Binding Site [chemical binding]; other site 1041504000260 Molecular Tunnel; other site 1041504000261 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 1041504000262 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1041504000263 active site 1041504000264 PHP Thumb interface [polypeptide binding]; other site 1041504000265 metal binding site [ion binding]; metal-binding site 1041504000266 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 1041504000267 generic binding surface II; other site 1041504000268 generic binding surface I; other site 1041504000269 6-phosphofructokinase; Provisional; Region: PRK03202 1041504000270 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1041504000271 active site 1041504000272 ADP/pyrophosphate binding site [chemical binding]; other site 1041504000273 dimerization interface [polypeptide binding]; other site 1041504000274 allosteric effector site; other site 1041504000275 fructose-1,6-bisphosphate binding site; other site 1041504000276 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 1041504000277 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1041504000278 domain interfaces; other site 1041504000279 active site 1041504000280 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 1041504000281 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1041504000282 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1041504000283 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 1041504000284 Catalytic site [active] 1041504000285 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1041504000286 Part of AAA domain; Region: AAA_19; pfam13245 1041504000287 Family description; Region: UvrD_C_2; pfam13538 1041504000288 hypothetical protein; Provisional; Region: PRK06851 1041504000289 Cation efflux family; Region: Cation_efflux; pfam01545 1041504000290 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1041504000291 aspartate kinase; Reviewed; Region: PRK06635 1041504000292 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 1041504000293 putative catalytic residues [active] 1041504000294 putative nucleotide binding site [chemical binding]; other site 1041504000295 putative aspartate binding site [chemical binding]; other site 1041504000296 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 1041504000297 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 1041504000298 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1041504000299 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1041504000300 active site 1041504000301 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1041504000302 substrate binding site [chemical binding]; other site 1041504000303 catalytic residues [active] 1041504000304 dimer interface [polypeptide binding]; other site 1041504000305 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1041504000306 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1041504000307 active site 1041504000308 metal binding site [ion binding]; metal-binding site 1041504000309 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 1041504000310 homotrimer interaction site [polypeptide binding]; other site 1041504000311 zinc binding site [ion binding]; other site 1041504000312 CDP-binding sites; other site 1041504000313 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1041504000314 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 1041504000315 RNA binding surface [nucleotide binding]; other site 1041504000316 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1041504000317 probable active site [active] 1041504000318 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1041504000319 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1041504000320 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1041504000321 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1041504000322 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1041504000323 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1041504000324 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1041504000325 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1041504000326 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1041504000327 HlyD family secretion protein; Region: HlyD_3; pfam13437 1041504000328 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1041504000329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504000330 Walker A/P-loop; other site 1041504000331 ATP binding site [chemical binding]; other site 1041504000332 Q-loop/lid; other site 1041504000333 ABC transporter signature motif; other site 1041504000334 Walker B; other site 1041504000335 D-loop; other site 1041504000336 H-loop/switch region; other site 1041504000337 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1041504000338 FtsX-like permease family; Region: FtsX; pfam02687 1041504000339 recA bacterial DNA recombination protein; Region: RecA; cl17211 1041504000340 CAAX protease self-immunity; Region: Abi; pfam02517 1041504000341 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1041504000342 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 1041504000343 active site 1041504000344 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1041504000345 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1041504000346 Walker A/P-loop; other site 1041504000347 ATP binding site [chemical binding]; other site 1041504000348 Q-loop/lid; other site 1041504000349 ABC transporter signature motif; other site 1041504000350 Walker B; other site 1041504000351 D-loop; other site 1041504000352 H-loop/switch region; other site 1041504000353 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 1041504000354 dimer interface [polypeptide binding]; other site 1041504000355 conserved gate region; other site 1041504000356 putative PBP binding loops; other site 1041504000357 ABC-ATPase subunit interface; other site 1041504000358 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1041504000359 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 1041504000360 substrate binding pocket [chemical binding]; other site 1041504000361 membrane-bound complex binding site; other site 1041504000362 hinge residues; other site 1041504000363 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1041504000364 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1041504000365 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1041504000366 putative active site [active] 1041504000367 catalytic site [active] 1041504000368 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1041504000369 putative active site [active] 1041504000370 catalytic site [active] 1041504000371 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1041504000372 beta-D-glucuronidase; Provisional; Region: PRK10150 1041504000373 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1041504000374 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1041504000375 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1041504000376 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1041504000377 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 1041504000378 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1041504000379 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1041504000380 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1041504000381 ligand binding site [chemical binding]; other site 1041504000382 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1041504000383 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504000384 Walker A/P-loop; other site 1041504000385 ATP binding site [chemical binding]; other site 1041504000386 Q-loop/lid; other site 1041504000387 ABC transporter signature motif; other site 1041504000388 Walker B; other site 1041504000389 D-loop; other site 1041504000390 H-loop/switch region; other site 1041504000391 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1041504000392 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1041504000393 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1041504000394 TM-ABC transporter signature motif; other site 1041504000395 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1041504000396 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1041504000397 TM-ABC transporter signature motif; other site 1041504000398 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1041504000399 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1041504000400 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1041504000401 Phosphoglycerate kinase; Region: PGK; pfam00162 1041504000402 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1041504000403 substrate binding site [chemical binding]; other site 1041504000404 hinge regions; other site 1041504000405 ADP binding site [chemical binding]; other site 1041504000406 catalytic site [active] 1041504000407 triosephosphate isomerase; Provisional; Region: PRK14567 1041504000408 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 1041504000409 substrate binding site [chemical binding]; other site 1041504000410 dimer interface [polypeptide binding]; other site 1041504000411 catalytic triad [active] 1041504000412 phosphoglyceromutase; Provisional; Region: PRK05434 1041504000413 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1041504000414 enolase; Provisional; Region: eno; PRK00077 1041504000415 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1041504000416 dimer interface [polypeptide binding]; other site 1041504000417 metal binding site [ion binding]; metal-binding site 1041504000418 substrate binding pocket [chemical binding]; other site 1041504000419 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1041504000420 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1041504000421 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1041504000422 shikimate binding site; other site 1041504000423 NAD(P) binding site [chemical binding]; other site 1041504000424 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1041504000425 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1041504000426 trimer interface [polypeptide binding]; other site 1041504000427 active site 1041504000428 dimer interface [polypeptide binding]; other site 1041504000429 Chorismate mutase type II; Region: CM_2; cl00693 1041504000430 shikimate kinase; Reviewed; Region: aroK; PRK00131 1041504000431 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1041504000432 ADP binding site [chemical binding]; other site 1041504000433 magnesium binding site [ion binding]; other site 1041504000434 putative shikimate binding site; other site 1041504000435 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1041504000436 ribonuclease R; Region: RNase_R; TIGR02063 1041504000437 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 1041504000438 RNB domain; Region: RNB; pfam00773 1041504000439 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1041504000440 RNA binding site [nucleotide binding]; other site 1041504000441 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 1041504000442 SmpB-tmRNA interface; other site 1041504000443 Predicted transcriptional regulators [Transcription]; Region: COG1695 1041504000444 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1041504000445 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 1041504000446 Fibronectin type 3 domain; Region: FN3; smart00060 1041504000447 inner membrane transporter YjeM; Provisional; Region: PRK15238 1041504000448 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1041504000449 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1041504000450 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1041504000451 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1041504000452 active site 1041504000453 P-loop; other site 1041504000454 phosphorylation site [posttranslational modification] 1041504000455 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1041504000456 active site 1041504000457 phosphorylation site [posttranslational modification] 1041504000458 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1041504000459 PRD domain; Region: PRD; pfam00874 1041504000460 PRD domain; Region: PRD; pfam00874 1041504000461 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1041504000462 active site 1041504000463 P-loop; other site 1041504000464 phosphorylation site [posttranslational modification] 1041504000465 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1041504000466 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1041504000467 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1041504000468 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1041504000469 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1041504000470 active site 1041504000471 metal binding site [ion binding]; metal-binding site 1041504000472 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1041504000473 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1041504000474 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1041504000475 dimerization interface [polypeptide binding]; other site 1041504000476 putative DNA binding site [nucleotide binding]; other site 1041504000477 putative Zn2+ binding site [ion binding]; other site 1041504000478 NAD synthetase; Reviewed; Region: nadE; PRK02628 1041504000479 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1041504000480 multimer interface [polypeptide binding]; other site 1041504000481 active site 1041504000482 catalytic triad [active] 1041504000483 protein interface 1 [polypeptide binding]; other site 1041504000484 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1041504000485 homodimer interface [polypeptide binding]; other site 1041504000486 NAD binding pocket [chemical binding]; other site 1041504000487 ATP binding pocket [chemical binding]; other site 1041504000488 Mg binding site [ion binding]; other site 1041504000489 active-site loop [active] 1041504000490 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1041504000491 ligand binding site [chemical binding]; other site 1041504000492 active site 1041504000493 UGI interface [polypeptide binding]; other site 1041504000494 catalytic site [active] 1041504000495 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1041504000496 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1041504000497 catalytic residue [active] 1041504000498 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 1041504000499 diaminopimelate epimerase; Provisional; Region: PRK13577 1041504000500 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1041504000501 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1041504000502 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1041504000503 classical (c) SDRs; Region: SDR_c; cd05233 1041504000504 NAD(P) binding site [chemical binding]; other site 1041504000505 active site 1041504000506 TraX protein; Region: TraX; cl05434 1041504000507 AAA domain; Region: AAA_21; pfam13304 1041504000508 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1041504000509 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1041504000510 NAD(P) binding site [chemical binding]; other site 1041504000511 catalytic residues [active] 1041504000512 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1041504000513 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1041504000514 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1041504000515 active site 1041504000516 trimer interface [polypeptide binding]; other site 1041504000517 allosteric site; other site 1041504000518 active site lid [active] 1041504000519 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1041504000520 Beta propeller domain; Region: Beta_propel; pfam09826 1041504000521 spermidine synthase; Provisional; Region: PRK00811 1041504000522 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 1041504000523 S-adenosylmethionine binding site [chemical binding]; other site 1041504000524 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 1041504000525 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1041504000526 Ligand Binding Site [chemical binding]; other site 1041504000527 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1041504000528 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1041504000529 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1041504000530 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1041504000531 active site 1041504000532 HIGH motif; other site 1041504000533 nucleotide binding site [chemical binding]; other site 1041504000534 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1041504000535 KMSKS motif; other site 1041504000536 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1041504000537 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1041504000538 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1041504000539 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1041504000540 active site 1041504000541 metal binding site [ion binding]; metal-binding site 1041504000542 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1041504000543 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 1041504000544 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1041504000545 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1041504000546 metal-binding site [ion binding] 1041504000547 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1041504000548 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 1041504000549 motif II; other site 1041504000550 Staphylococcal nuclease homologues; Region: SNc; smart00318 1041504000551 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1041504000552 Catalytic site; other site 1041504000553 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1041504000554 metal-binding site [ion binding] 1041504000555 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1041504000556 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1041504000557 active site 1041504000558 HIGH motif; other site 1041504000559 nucleotide binding site [chemical binding]; other site 1041504000560 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1041504000561 active site 1041504000562 KMSKS motif; other site 1041504000563 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1041504000564 tRNA binding surface [nucleotide binding]; other site 1041504000565 anticodon binding site; other site 1041504000566 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1041504000567 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1041504000568 DNA binding site [nucleotide binding] 1041504000569 domain linker motif; other site 1041504000570 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1041504000571 dimerization interface [polypeptide binding]; other site 1041504000572 ligand binding site [chemical binding]; other site 1041504000573 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1041504000574 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1041504000575 proline aminopeptidase P II; Provisional; Region: PRK10879 1041504000576 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 1041504000577 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1041504000578 active site 1041504000579 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1041504000580 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1041504000581 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 1041504000582 RNA binding site [nucleotide binding]; other site 1041504000583 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 1041504000584 RNA binding site [nucleotide binding]; other site 1041504000585 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 1041504000586 RNA binding site [nucleotide binding]; other site 1041504000587 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; cd00164 1041504000588 RNA binding site [nucleotide binding]; other site 1041504000589 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1041504000590 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1041504000591 metal binding site [ion binding]; metal-binding site 1041504000592 dimer interface [polypeptide binding]; other site 1041504000593 TspO/MBR family; Region: TspO_MBR; pfam03073 1041504000594 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1041504000595 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 1041504000596 active site 1041504000597 RmuC family; Region: RmuC; pfam02646 1041504000598 DNA polymerase I; Provisional; Region: PRK05755 1041504000599 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1041504000600 active site 1041504000601 metal binding site 1 [ion binding]; metal-binding site 1041504000602 putative 5' ssDNA interaction site; other site 1041504000603 metal binding site 3; metal-binding site 1041504000604 metal binding site 2 [ion binding]; metal-binding site 1041504000605 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1041504000606 putative DNA binding site [nucleotide binding]; other site 1041504000607 putative metal binding site [ion binding]; other site 1041504000608 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1041504000609 active site 1041504000610 substrate binding site [chemical binding]; other site 1041504000611 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1041504000612 active site 1041504000613 DNA binding site [nucleotide binding] 1041504000614 catalytic site [active] 1041504000615 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1041504000616 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 1041504000617 CoA-binding site [chemical binding]; other site 1041504000618 ATP-binding [chemical binding]; other site 1041504000619 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1041504000620 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 1041504000621 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1041504000622 catalytic residue [active] 1041504000623 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1041504000624 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1041504000625 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1041504000626 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1041504000627 NodB motif; other site 1041504000628 active site 1041504000629 catalytic site [active] 1041504000630 Zn binding site [ion binding]; other site 1041504000631 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1041504000632 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 1041504000633 active site 1041504000634 phosphorylation site [posttranslational modification] 1041504000635 intermolecular recognition site; other site 1041504000636 dimerization interface [polypeptide binding]; other site 1041504000637 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 1041504000638 DNA binding site [nucleotide binding] 1041504000639 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1041504000640 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 1041504000641 dimerization interface [polypeptide binding]; other site 1041504000642 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 1041504000643 dimer interface [polypeptide binding]; other site 1041504000644 phosphorylation site [posttranslational modification] 1041504000645 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 1041504000646 ATP binding site [chemical binding]; other site 1041504000647 Mg2+ binding site [ion binding]; other site 1041504000648 G-X-G motif; other site 1041504000649 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 1041504000650 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 1041504000651 CPxP motif; other site 1041504000652 DsrE/DsrF-like family; Region: DrsE; pfam02635 1041504000653 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1041504000654 UGMP family protein; Validated; Region: PRK09604 1041504000655 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1041504000656 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1041504000657 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1041504000658 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 1041504000659 protein binding site [polypeptide binding]; other site 1041504000660 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1041504000661 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1041504000662 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1041504000663 ABC transporter; Region: ABC_tran_2; pfam12848 1041504000664 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1041504000665 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1041504000666 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1041504000667 putative active site cavity [active] 1041504000668 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1041504000669 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1041504000670 inhibitor site; inhibition site 1041504000671 active site 1041504000672 dimer interface [polypeptide binding]; other site 1041504000673 catalytic residue [active] 1041504000674 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 1041504000675 Na binding site [ion binding]; other site 1041504000676 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1041504000677 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1041504000678 nucleotide binding site [chemical binding]; other site 1041504000679 Predicted membrane protein [Function unknown]; Region: COG1971 1041504000680 ferric uptake regulator; Provisional; Region: fur; PRK09462 1041504000681 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1041504000682 metal binding site 2 [ion binding]; metal-binding site 1041504000683 putative DNA binding helix; other site 1041504000684 metal binding site 1 [ion binding]; metal-binding site 1041504000685 dimer interface [polypeptide binding]; other site 1041504000686 structural Zn2+ binding site [ion binding]; other site 1041504000687 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1041504000688 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; cd06550 1041504000689 ABC-ATPase subunit interface; other site 1041504000690 dimer interface [polypeptide binding]; other site 1041504000691 putative PBP binding regions; other site 1041504000692 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504000693 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1041504000694 Walker A/P-loop; other site 1041504000695 ATP binding site [chemical binding]; other site 1041504000696 Q-loop/lid; other site 1041504000697 ABC transporter signature motif; other site 1041504000698 Walker B; other site 1041504000699 D-loop; other site 1041504000700 H-loop/switch region; other site 1041504000701 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 1041504000702 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1041504000703 intersubunit interface [polypeptide binding]; other site 1041504000704 Rhomboid family; Region: Rhomboid; cl11446 1041504000705 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1041504000706 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1041504000707 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1041504000708 Peptidase family M23; Region: Peptidase_M23; pfam01551 1041504000709 trigger factor; Provisional; Region: tig; PRK01490 1041504000710 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1041504000711 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1041504000712 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1041504000713 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1041504000714 oligomer interface [polypeptide binding]; other site 1041504000715 active site residues [active] 1041504000716 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1041504000717 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1041504000718 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 1041504000719 Walker A motif; other site 1041504000720 ATP binding site [chemical binding]; other site 1041504000721 Walker B motif; other site 1041504000722 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1041504000723 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1041504000724 G1 box; other site 1041504000725 GTP/Mg2+ binding site [chemical binding]; other site 1041504000726 Switch I region; other site 1041504000727 G2 box; other site 1041504000728 G3 box; other site 1041504000729 Switch II region; other site 1041504000730 G4 box; other site 1041504000731 G5 box; other site 1041504000732 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1041504000733 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1041504000734 metal binding site [ion binding]; metal-binding site 1041504000735 dimer interface [polypeptide binding]; other site 1041504000736 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1041504000737 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 1041504000738 RNA binding surface [nucleotide binding]; other site 1041504000739 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1041504000740 active site 1041504000741 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1041504000742 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1041504000743 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1041504000744 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1041504000745 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 1041504000746 Zn binding site [ion binding]; other site 1041504000747 V-type ATP synthase subunit I; Validated; Region: PRK05771 1041504000748 V-type ATP synthase subunit K; Validated; Region: PRK06558 1041504000749 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 1041504000750 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 1041504000751 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 1041504000752 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 1041504000753 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 1041504000754 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 1041504000755 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 1041504000756 V-type ATP synthase subunit A; Provisional; Region: PRK04192 1041504000757 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1041504000758 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 1041504000759 Walker A motif/ATP binding site; other site 1041504000760 Walker B motif; other site 1041504000761 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1041504000762 V-type ATP synthase subunit B; Provisional; Region: PRK04196 1041504000763 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1041504000764 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 1041504000765 Walker A motif homologous position; other site 1041504000766 Walker B motif; other site 1041504000767 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1041504000768 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 1041504000769 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1041504000770 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 1041504000771 Catalytic site [active] 1041504000772 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1041504000773 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1041504000774 Substrate binding site; other site 1041504000775 Cupin domain; Region: Cupin_2; cl17218 1041504000776 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1041504000777 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1041504000778 CoA binding domain; Region: CoA_binding; pfam02629 1041504000779 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1041504000780 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 1041504000781 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1041504000782 minor groove reading motif; other site 1041504000783 helix-hairpin-helix signature motif; other site 1041504000784 substrate binding pocket [chemical binding]; other site 1041504000785 active site 1041504000786 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1041504000787 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1041504000788 pentamer interface [polypeptide binding]; other site 1041504000789 dodecaamer interface [polypeptide binding]; other site 1041504000790 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 1041504000791 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1041504000792 SdpI/YhfL protein family; Region: SdpI; pfam13630 1041504000793 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1041504000794 dimerization interface [polypeptide binding]; other site 1041504000795 putative DNA binding site [nucleotide binding]; other site 1041504000796 putative Zn2+ binding site [ion binding]; other site 1041504000797 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 1041504000798 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1041504000799 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 1041504000800 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1041504000801 Hpr binding site; other site 1041504000802 active site 1041504000803 homohexamer subunit interaction site [polypeptide binding]; other site 1041504000804 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1041504000805 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 1041504000806 oligomer interface [polypeptide binding]; other site 1041504000807 metal binding site [ion binding]; metal-binding site 1041504000808 metal binding site [ion binding]; metal-binding site 1041504000809 putative Cl binding site [ion binding]; other site 1041504000810 aspartate ring; other site 1041504000811 basic sphincter; other site 1041504000812 hydrophobic gate; other site 1041504000813 periplasmic entrance; other site 1041504000814 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 1041504000815 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1041504000816 oligomer interface [polypeptide binding]; other site 1041504000817 putative active site [active] 1041504000818 metal binding site [ion binding]; metal-binding site 1041504000819 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 1041504000820 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1041504000821 active site 1041504000822 motif I; other site 1041504000823 motif II; other site 1041504000824 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 1041504000825 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1041504000826 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1041504000827 active pocket/dimerization site; other site 1041504000828 active site 1041504000829 phosphorylation site [posttranslational modification] 1041504000830 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1041504000831 active site 1041504000832 phosphorylation site [posttranslational modification] 1041504000833 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1041504000834 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1041504000835 Domain of unknown function (DUF956); Region: DUF956; pfam06115 1041504000836 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1041504000837 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1041504000838 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1041504000839 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1041504000840 UDP-glucose 4-epimerase; Region: PLN02240 1041504000841 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1041504000842 NAD binding site [chemical binding]; other site 1041504000843 homodimer interface [polypeptide binding]; other site 1041504000844 active site 1041504000845 substrate binding site [chemical binding]; other site 1041504000846 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1041504000847 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1041504000848 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 1041504000849 Domain of unknown function (DUF368); Region: DUF368; pfam04018 1041504000850 MFS/sugar transport protein; Region: MFS_2; pfam13347 1041504000851 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1041504000852 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 1041504000853 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 1041504000854 putative active site [active] 1041504000855 putative metal binding residues [ion binding]; other site 1041504000856 signature motif; other site 1041504000857 putative triphosphate binding site [ion binding]; other site 1041504000858 dimer interface [polypeptide binding]; other site 1041504000859 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 1041504000860 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1041504000861 putative binding site residues; other site 1041504000862 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1041504000863 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; cd06550 1041504000864 ABC-ATPase subunit interface; other site 1041504000865 dimer interface [polypeptide binding]; other site 1041504000866 putative PBP binding regions; other site 1041504000867 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1041504000868 Walker A/P-loop; other site 1041504000869 ATP binding site [chemical binding]; other site 1041504000870 ABC transporter; Region: ABC_tran; pfam00005 1041504000871 Q-loop/lid; other site 1041504000872 ABC transporter signature motif; other site 1041504000873 Walker B; other site 1041504000874 D-loop; other site 1041504000875 H-loop/switch region; other site 1041504000876 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1041504000877 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1041504000878 Substrate-binding site [chemical binding]; other site 1041504000879 Substrate specificity [chemical binding]; other site 1041504000880 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1041504000881 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1041504000882 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 1041504000883 AAA domain; Region: AAA_17; pfam13207 1041504000884 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1041504000885 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 1041504000886 active site 1041504000887 phosphorylation site [posttranslational modification] 1041504000888 intermolecular recognition site; other site 1041504000889 dimerization interface [polypeptide binding]; other site 1041504000890 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 1041504000891 DNA binding site [nucleotide binding] 1041504000892 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 1041504000893 dimer interface [polypeptide binding]; other site 1041504000894 phosphorylation site [posttranslational modification] 1041504000895 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 1041504000896 ATP binding site [chemical binding]; other site 1041504000897 Mg2+ binding site [ion binding]; other site 1041504000898 G-X-G motif; other site 1041504000899 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1041504000900 putative metal binding residues [ion binding]; other site 1041504000901 signature motif; other site 1041504000902 dimer interface [polypeptide binding]; other site 1041504000903 active site 1041504000904 polyP binding site; other site 1041504000905 substrate binding site [chemical binding]; other site 1041504000906 acceptor-phosphate pocket; other site 1041504000907 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 1041504000908 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 1041504000909 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1041504000910 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1041504000911 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1041504000912 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1041504000913 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1041504000914 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1041504000915 Protein of unknown function (DUF327); Region: DUF327; pfam03885 1041504000916 Predicted membrane protein [Function unknown]; Region: COG2364 1041504000917 Rubrerythrin [Energy production and conversion]; Region: COG1592 1041504000918 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1041504000919 binuclear metal center [ion binding]; other site 1041504000920 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1041504000921 iron binding site [ion binding]; other site 1041504000922 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 1041504000923 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1041504000924 dimerization interface [polypeptide binding]; other site 1041504000925 ATP binding site [chemical binding]; other site 1041504000926 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 1041504000927 active site 1041504000928 dimerization interface [polypeptide binding]; other site 1041504000929 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1041504000930 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1041504000931 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1041504000932 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1041504000933 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1041504000934 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1041504000935 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1041504000936 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1041504000937 Walker A/P-loop; other site 1041504000938 ATP binding site [chemical binding]; other site 1041504000939 Q-loop/lid; other site 1041504000940 ABC transporter signature motif; other site 1041504000941 Walker B; other site 1041504000942 D-loop; other site 1041504000943 H-loop/switch region; other site 1041504000944 FtsX-like permease family; Region: FtsX; pfam02687 1041504000945 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1041504000946 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1041504000947 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1041504000948 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1041504000949 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1041504000950 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1041504000951 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1041504000952 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1041504000953 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1041504000954 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1041504000955 Predicted membrane protein [Function unknown]; Region: COG4684 1041504000956 Protein of unknown function (DUF328); Region: DUF328; pfam03883 1041504000957 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1041504000958 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1041504000959 NlpC/P60 family; Region: NLPC_P60; pfam00877 1041504000960 rod shape-determining protein MreB; Provisional; Region: PRK13927 1041504000961 MreB and similar proteins; Region: MreB_like; cd10225 1041504000962 nucleotide binding site [chemical binding]; other site 1041504000963 Mg binding site [ion binding]; other site 1041504000964 putative protofilament interaction site [polypeptide binding]; other site 1041504000965 RodZ interaction site [polypeptide binding]; other site 1041504000966 rod shape-determining protein MreC; Provisional; Region: PRK13922 1041504000967 basic region leucin zipper; Region: BRLZ; smart00338 1041504000968 rod shape-determining protein MreC; Region: MreC; pfam04085 1041504000969 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1041504000970 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1041504000971 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1041504000972 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1041504000973 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1041504000974 septum formation inhibitor; Reviewed; Region: minC; PRK00513 1041504000975 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1041504000976 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1041504000977 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1041504000978 Switch I; other site 1041504000979 Switch II; other site 1041504000980 Septum formation topological specificity factor MinE; Region: MinE; cl00538 1041504000981 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1041504000982 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 1041504000983 active site 1041504000984 putative substrate binding region [chemical binding]; other site 1041504000985 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1041504000986 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1041504000987 Protein of unknown function (DUF464); Region: DUF464; pfam04327 1041504000988 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1041504000989 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1041504000990 GTP1/OBG; Region: GTP1_OBG; pfam01018 1041504000991 Obg GTPase; Region: Obg; cd01898 1041504000992 G1 box; other site 1041504000993 GTP/Mg2+ binding site [chemical binding]; other site 1041504000994 Switch I region; other site 1041504000995 G2 box; other site 1041504000996 G3 box; other site 1041504000997 Switch II region; other site 1041504000998 G4 box; other site 1041504000999 G5 box; other site 1041504001000 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1041504001001 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1041504001002 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1041504001003 active site 1041504001004 (T/H)XGH motif; other site 1041504001005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1041504001006 Zn2+ binding site [ion binding]; other site 1041504001007 Mg2+ binding site [ion binding]; other site 1041504001008 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1041504001009 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1041504001010 active site 1041504001011 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1041504001012 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1041504001013 SLBB domain; Region: SLBB; pfam10531 1041504001014 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1041504001015 Helix-hairpin-helix motif; Region: HHH; pfam00633 1041504001016 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1041504001017 dimerization interface [polypeptide binding]; other site 1041504001018 putative ATP binding site [chemical binding]; other site 1041504001019 selenocysteine synthase; Provisional; Region: PRK04311 1041504001020 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1041504001021 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1041504001022 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 1041504001023 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1041504001024 G1 box; other site 1041504001025 putative GEF interaction site [polypeptide binding]; other site 1041504001026 GTP/Mg2+ binding site [chemical binding]; other site 1041504001027 Switch I region; other site 1041504001028 G2 box; other site 1041504001029 G3 box; other site 1041504001030 Switch II region; other site 1041504001031 G4 box; other site 1041504001032 G5 box; other site 1041504001033 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1041504001034 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1041504001035 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1041504001036 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1041504001037 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1041504001038 Peptidase family M28; Region: Peptidase_M28; pfam04389 1041504001039 metal binding site [ion binding]; metal-binding site 1041504001040 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1041504001041 active site 1041504001042 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1041504001043 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 1041504001044 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1041504001045 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 1041504001046 active site 1041504001047 dimer interface [polypeptide binding]; other site 1041504001048 motif 1; other site 1041504001049 motif 2; other site 1041504001050 motif 3; other site 1041504001051 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 1041504001052 anticodon binding site; other site 1041504001053 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 1041504001054 oligomerisation interface [polypeptide binding]; other site 1041504001055 mobile loop; other site 1041504001056 roof hairpin; other site 1041504001057 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1041504001058 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 1041504001059 ring oligomerisation interface [polypeptide binding]; other site 1041504001060 ATP/Mg binding site [chemical binding]; other site 1041504001061 stacking interactions; other site 1041504001062 hinge regions; other site 1041504001063 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1041504001064 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1041504001065 dimer interface [polypeptide binding]; other site 1041504001066 putative CheW interface [polypeptide binding]; other site 1041504001067 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1041504001068 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 1041504001069 dimer interface [polypeptide binding]; other site 1041504001070 conserved gate region; other site 1041504001071 putative PBP binding loops; other site 1041504001072 ABC-ATPase subunit interface; other site 1041504001073 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1041504001074 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1041504001075 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 1041504001076 dimer interface [polypeptide binding]; other site 1041504001077 conserved gate region; other site 1041504001078 putative PBP binding loops; other site 1041504001079 ABC-ATPase subunit interface; other site 1041504001080 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1041504001081 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1041504001082 Walker A/P-loop; other site 1041504001083 ATP binding site [chemical binding]; other site 1041504001084 Q-loop/lid; other site 1041504001085 ABC transporter signature motif; other site 1041504001086 Walker B; other site 1041504001087 D-loop; other site 1041504001088 H-loop/switch region; other site 1041504001089 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1041504001090 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1041504001091 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1041504001092 Walker A/P-loop; other site 1041504001093 ATP binding site [chemical binding]; other site 1041504001094 Q-loop/lid; other site 1041504001095 ABC transporter signature motif; other site 1041504001096 Walker B; other site 1041504001097 D-loop; other site 1041504001098 H-loop/switch region; other site 1041504001099 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1041504001100 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1041504001101 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1041504001102 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1041504001103 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 1041504001104 peptide binding site [polypeptide binding]; other site 1041504001105 dimer interface [polypeptide binding]; other site 1041504001106 Flavoprotein; Region: Flavoprotein; cl08021 1041504001107 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1041504001108 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 1041504001109 folate binding site [chemical binding]; other site 1041504001110 NADP+ binding site [chemical binding]; other site 1041504001111 Thymidylate synthase [Nucleotide transport and metabolism]; Region: ThyA; COG0207 1041504001112 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1041504001113 dimerization interface [polypeptide binding]; other site 1041504001114 active site 1041504001115 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1041504001116 nucleotide binding site [chemical binding]; other site 1041504001117 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 1041504001118 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1041504001119 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1041504001120 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1041504001121 active site 1041504001122 catalytic tetrad [active] 1041504001123 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1041504001124 AAA domain; Region: AAA_12; pfam13087 1041504001125 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 1041504001126 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1041504001127 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1041504001128 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1041504001129 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1041504001130 active site 1041504001131 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1041504001132 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1041504001133 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 1041504001134 active site 1041504001135 phosphorylation site [posttranslational modification] 1041504001136 intermolecular recognition site; other site 1041504001137 dimerization interface [polypeptide binding]; other site 1041504001138 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 1041504001139 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1041504001140 HAMP domain; Region: HAMP; pfam00672 1041504001141 dimerization interface [polypeptide binding]; other site 1041504001142 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; cl00080 1041504001143 dimer interface [polypeptide binding]; other site 1041504001144 phosphorylation site [posttranslational modification] 1041504001145 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 1041504001146 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1041504001147 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 1041504001148 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1041504001149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1041504001150 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1041504001151 Peptidase family M23; Region: Peptidase_M23; pfam01551 1041504001152 YtxC-like family; Region: YtxC; pfam08812 1041504001153 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1041504001154 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1041504001155 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1041504001156 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1041504001157 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1041504001158 23S rRNA binding site [nucleotide binding]; other site 1041504001159 L21 binding site [polypeptide binding]; other site 1041504001160 L13 binding site [polypeptide binding]; other site 1041504001161 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1041504001162 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1041504001163 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1041504001164 TrkA-N domain; Region: TrkA_N; pfam02254 1041504001165 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1041504001166 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1041504001167 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1041504001168 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1041504001169 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1041504001170 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 1041504001171 dimer interface [polypeptide binding]; other site 1041504001172 motif 1; other site 1041504001173 active site 1041504001174 motif 2; other site 1041504001175 motif 3; other site 1041504001176 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1041504001177 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 1041504001178 putative tRNA-binding site [nucleotide binding]; other site 1041504001179 B3/4 domain; Region: B3_4; pfam03483 1041504001180 tRNA synthetase B5 domain; Region: B5; smart00874 1041504001181 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 1041504001182 dimer interface [polypeptide binding]; other site 1041504001183 motif 1; other site 1041504001184 motif 3; other site 1041504001185 motif 2; other site 1041504001186 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1041504001187 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1041504001188 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1041504001189 putative ligand binding site [chemical binding]; other site 1041504001190 putative NAD binding site [chemical binding]; other site 1041504001191 catalytic site [active] 1041504001192 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504001193 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504001194 Bacteriophage holin; Region: Phage_holin_1; cl02344 1041504001195 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1041504001196 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1041504001197 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1041504001198 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1041504001199 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1041504001200 dimer interface [polypeptide binding]; other site 1041504001201 active site 1041504001202 catalytic residue [active] 1041504001203 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1041504001204 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1041504001205 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1041504001206 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1041504001207 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1041504001208 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1041504001209 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1041504001210 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1041504001211 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1041504001212 TPP-binding site; other site 1041504001213 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1041504001214 PYR/PP interface [polypeptide binding]; other site 1041504001215 dimer interface [polypeptide binding]; other site 1041504001216 TPP binding site [chemical binding]; other site 1041504001217 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1041504001218 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1041504001219 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1041504001220 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1041504001221 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1041504001222 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1041504001223 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 1041504001224 substrate binding site [chemical binding]; other site 1041504001225 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1041504001226 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1041504001227 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1041504001228 active site 1041504001229 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 1041504001230 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1041504001231 DHH family; Region: DHH; pfam01368 1041504001232 DHHA1 domain; Region: DHHA1; pfam02272 1041504001233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1041504001234 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 1041504001235 dimer interface [polypeptide binding]; other site 1041504001236 phosphorylation site [posttranslational modification] 1041504001237 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 1041504001238 ATP binding site [chemical binding]; other site 1041504001239 Mg2+ binding site [ion binding]; other site 1041504001240 G-X-G motif; other site 1041504001241 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 1041504001242 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 1041504001243 active site 1041504001244 homodimer interface [polypeptide binding]; other site 1041504001245 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 1041504001246 TPR motif; other site 1041504001247 binding surface 1041504001248 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 1041504001249 binding surface 1041504001250 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1041504001251 TPR motif; other site 1041504001252 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504001253 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1041504001254 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504001255 Cell division protein ZapA; Region: ZapA; pfam05164 1041504001256 Rubrerythrin [Energy production and conversion]; Region: COG1592 1041504001257 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1041504001258 binuclear metal center [ion binding]; other site 1041504001259 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1041504001260 iron binding site [ion binding]; other site 1041504001261 Cation efflux family; Region: Cation_efflux; pfam01545 1041504001262 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1041504001263 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 1041504001264 Transglycosylase; Region: Transgly; pfam00912 1041504001265 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1041504001266 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1041504001267 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1041504001268 Peptidase family U32; Region: Peptidase_U32; pfam01136 1041504001269 Collagenase; Region: DUF3656; pfam12392 1041504001270 Peptidase family U32; Region: Peptidase_U32; cl03113 1041504001271 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1041504001272 MutS domain III; Region: MutS_III; pfam05192 1041504001273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504001274 Walker A/P-loop; other site 1041504001275 ATP binding site [chemical binding]; other site 1041504001276 Q-loop/lid; other site 1041504001277 ABC transporter signature motif; other site 1041504001278 Walker B; other site 1041504001279 D-loop; other site 1041504001280 H-loop/switch region; other site 1041504001281 Smr domain; Region: Smr; pfam01713 1041504001282 YabP family; Region: YabP; cl06766 1041504001283 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 1041504001284 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 1041504001285 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1041504001286 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1041504001287 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1041504001288 Zn2+ binding site [ion binding]; other site 1041504001289 Mg2+ binding site [ion binding]; other site 1041504001290 metal-binding heat shock protein; Provisional; Region: PRK00016 1041504001291 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1041504001292 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 1041504001293 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1041504001294 active site 1041504001295 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1041504001296 active site 1041504001297 catalytic motif [active] 1041504001298 Zn binding site [ion binding]; other site 1041504001299 GTPase Era; Reviewed; Region: era; PRK00089 1041504001300 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1041504001301 G1 box; other site 1041504001302 GTP/Mg2+ binding site [chemical binding]; other site 1041504001303 Switch I region; other site 1041504001304 G2 box; other site 1041504001305 Switch II region; other site 1041504001306 G3 box; other site 1041504001307 G4 box; other site 1041504001308 G5 box; other site 1041504001309 KH domain; Region: KH_2; pfam07650 1041504001310 Recombination protein O N terminal; Region: RecO_N; pfam11967 1041504001311 DNA repair protein RecO; Region: reco; TIGR00613 1041504001312 Recombination protein O C terminal; Region: RecO_C; pfam02565 1041504001313 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1041504001314 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1041504001315 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1041504001316 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1041504001317 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1041504001318 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1041504001319 substrate binding site [chemical binding]; other site 1041504001320 DNA primase; Validated; Region: dnaG; PRK05667 1041504001321 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1041504001322 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1041504001323 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 1041504001324 active site 1041504001325 metal binding site [ion binding]; metal-binding site 1041504001326 interdomain interaction site; other site 1041504001327 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1041504001328 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1041504001329 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1041504001330 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1041504001331 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1041504001332 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 1041504001333 DNA binding residues [nucleotide binding] 1041504001334 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 1041504001335 S-adenosylmethionine binding site [chemical binding]; other site 1041504001336 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1041504001337 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1041504001338 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1041504001339 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1041504001340 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1041504001341 glycosyltransferase, MGT family; Region: MGT; TIGR01426 1041504001342 active site 1041504001343 TDP-binding site; other site 1041504001344 acceptor substrate-binding pocket; other site 1041504001345 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1041504001346 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1041504001347 active site 1041504001348 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1041504001349 Part of AAA domain; Region: AAA_19; pfam13245 1041504001350 AAA domain; Region: AAA_14; pfam13173 1041504001351 Family description; Region: UvrD_C_2; pfam13538 1041504001352 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1041504001353 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1041504001354 homodimer interface [polypeptide binding]; other site 1041504001355 substrate-cofactor binding pocket; other site 1041504001356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1041504001357 catalytic residue [active] 1041504001358 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 1041504001359 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1041504001360 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 1041504001361 DNA binding residues [nucleotide binding] 1041504001362 Amino acid permease; Region: AA_permease_2; pfam13520 1041504001363 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 1041504001364 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1041504001365 active site residue [active] 1041504001366 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1041504001367 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1041504001368 Beta-Casp domain; Region: Beta-Casp; smart01027 1041504001369 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1041504001370 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1041504001371 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1041504001372 dimer interface [polypeptide binding]; other site 1041504001373 PYR/PP interface [polypeptide binding]; other site 1041504001374 TPP binding site [chemical binding]; other site 1041504001375 substrate binding site [chemical binding]; other site 1041504001376 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1041504001377 Domain of unknown function; Region: EKR; smart00890 1041504001378 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1041504001379 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1041504001380 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1041504001381 TPP-binding site [chemical binding]; other site 1041504001382 dimer interface [polypeptide binding]; other site 1041504001383 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1041504001384 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1041504001385 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 1041504001386 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1041504001387 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1041504001388 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1041504001389 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 1041504001390 substrate-cofactor binding pocket; other site 1041504001391 homodimer interface [polypeptide binding]; other site 1041504001392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1041504001393 catalytic residue [active] 1041504001394 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 1041504001395 CheD chemotactic sensory transduction; Region: CheD; cl00810 1041504001396 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1041504001397 CheB methylesterase; Region: CheB_methylest; pfam01339 1041504001398 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1041504001399 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1041504001400 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1041504001401 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1041504001402 putative binding surface; other site 1041504001403 active site 1041504001404 P2 response regulator binding domain; Region: P2; pfam07194 1041504001405 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1041504001406 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 1041504001407 ATP binding site [chemical binding]; other site 1041504001408 Mg2+ binding site [ion binding]; other site 1041504001409 G-X-G motif; other site 1041504001410 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1041504001411 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1041504001412 CheC-like family; Region: CheC; pfam04509 1041504001413 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1041504001414 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 1041504001415 active site 1041504001416 phosphorylation site [posttranslational modification] 1041504001417 intermolecular recognition site; other site 1041504001418 dimerization interface [polypeptide binding]; other site 1041504001419 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1041504001420 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1041504001421 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1041504001422 flagellar motor switch protein; Validated; Region: PRK08119 1041504001423 Chemotaxis phosphatase CheX; Region: CheX; cl15816 1041504001424 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1041504001425 FlgN protein; Region: FlgN; pfam05130 1041504001426 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 1041504001427 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1041504001428 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 1041504001429 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1041504001430 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1041504001431 FliW protein; Region: FliW; cl00740 1041504001432 Global regulator protein family; Region: CsrA; pfam02599 1041504001433 Flagellar protein FliS; Region: FliS; cl00654 1041504001434 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1041504001435 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1041504001436 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 1041504001437 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1041504001438 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1041504001439 flagellin; Reviewed; Region: PRK08869 1041504001440 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1041504001441 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1041504001442 flagellin; Reviewed; Region: PRK08869 1041504001443 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1041504001444 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1041504001445 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1041504001446 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1041504001447 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1041504001448 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 1041504001449 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1041504001450 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1041504001451 hypothetical protein; Provisional; Region: PRK04323 1041504001452 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1041504001453 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 1041504001454 catalytic site [active] 1041504001455 G-X2-G-X-G-K; other site 1041504001456 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1041504001457 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1041504001458 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 1041504001459 ATP binding site [chemical binding]; other site 1041504001460 putative Mg++ binding site [ion binding]; other site 1041504001461 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1041504001462 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 1041504001463 active site 1041504001464 catalytic residues [active] 1041504001465 metal binding site [ion binding]; metal-binding site 1041504001466 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1041504001467 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1041504001468 putative active site [active] 1041504001469 substrate binding site [chemical binding]; other site 1041504001470 putative cosubstrate binding site; other site 1041504001471 catalytic site [active] 1041504001472 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1041504001473 substrate binding site [chemical binding]; other site 1041504001474 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1041504001475 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1041504001476 putative RNA binding site [nucleotide binding]; other site 1041504001477 NusB family; Region: NusB; pfam01029 1041504001478 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 1041504001479 S-adenosylmethionine binding site [chemical binding]; other site 1041504001480 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 1041504001481 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 1041504001482 FeS/SAM binding site; other site 1041504001483 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1041504001484 active site 1041504001485 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1041504001486 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1041504001487 active site 1041504001488 ATP binding site [chemical binding]; other site 1041504001489 substrate binding site [chemical binding]; other site 1041504001490 activation loop (A-loop); other site 1041504001491 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1041504001492 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1041504001493 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 1041504001494 GTPase RsgA; Reviewed; Region: PRK00098 1041504001495 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1041504001496 RNA binding site [nucleotide binding]; other site 1041504001497 homodimer interface [polypeptide binding]; other site 1041504001498 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1041504001499 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1041504001500 GTP/Mg2+ binding site [chemical binding]; other site 1041504001501 G4 box; other site 1041504001502 G5 box; other site 1041504001503 G1 box; other site 1041504001504 Switch I region; other site 1041504001505 G2 box; other site 1041504001506 G3 box; other site 1041504001507 Switch II region; other site 1041504001508 Thiamine pyrophosphokinase; Region: TPK; cd07995 1041504001509 active site 1041504001510 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1041504001511 dimerization interface [polypeptide binding]; other site 1041504001512 thiamine binding site [chemical binding]; other site 1041504001513 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1041504001514 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1041504001515 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1041504001516 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1041504001517 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1041504001518 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 1041504001519 motif II; other site 1041504001520 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1041504001521 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1041504001522 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1041504001523 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1041504001524 Asp23 family; Region: Asp23; cl00574 1041504001525 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1041504001526 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1041504001527 generic binding surface I; other site 1041504001528 generic binding surface II; other site 1041504001529 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 1041504001530 ATP binding site [chemical binding]; other site 1041504001531 putative Mg++ binding site [ion binding]; other site 1041504001532 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 1041504001533 nucleotide binding region [chemical binding]; other site 1041504001534 ATP-binding site [chemical binding]; other site 1041504001535 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1041504001536 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 1041504001537 S-adenosylmethionine binding site [chemical binding]; other site 1041504001538 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1041504001539 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1041504001540 active site 1041504001541 (T/H)XGH motif; other site 1041504001542 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 1041504001543 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1041504001544 active site 1041504001545 motif I; other site 1041504001546 motif II; other site 1041504001547 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 1041504001548 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1041504001549 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 1041504001550 Nucleoside recognition; Region: Gate; pfam07670 1041504001551 hypothetical protein; Provisional; Region: PRK13670 1041504001552 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1041504001553 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1041504001554 propionate/acetate kinase; Provisional; Region: PRK12379 1041504001555 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1041504001556 nucleotide binding site [chemical binding]; other site 1041504001557 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1041504001558 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1041504001559 putative phosphate acyltransferase; Provisional; Region: PRK05331 1041504001560 acyl carrier protein; Provisional; Region: acpP; PRK00982 1041504001561 ribonuclease III; Reviewed; Region: rnc; PRK00102 1041504001562 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 1041504001563 dimerization interface [polypeptide binding]; other site 1041504001564 active site 1041504001565 metal binding site [ion binding]; metal-binding site 1041504001566 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 1041504001567 dsRNA binding site [nucleotide binding]; other site 1041504001568 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 1041504001569 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 1041504001570 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1041504001571 AP (apurinic/apyrimidinic) site pocket; other site 1041504001572 DNA interaction; other site 1041504001573 Metal-binding active site; metal-binding site 1041504001574 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1041504001575 HI0933-like protein; Region: HI0933_like; pfam03486 1041504001576 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1041504001577 cytidylate kinase; Provisional; Region: cmk; PRK00023 1041504001578 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 1041504001579 CMP-binding site; other site 1041504001580 The sites determining sugar specificity; other site 1041504001581 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 1041504001582 LytB protein; Region: LYTB; cl00507 1041504001583 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 1041504001584 RNA binding site [nucleotide binding]; other site 1041504001585 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 1041504001586 RNA binding site [nucleotide binding]; other site 1041504001587 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 1041504001588 RNA binding site [nucleotide binding]; other site 1041504001589 S1_RPS1_repeat_hs4: 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_hs4; cd05692 1041504001590 RNA binding site [nucleotide binding]; other site 1041504001591 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 1041504001592 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 1041504001593 RNA/DNA hybrid binding site [nucleotide binding]; other site 1041504001594 active site 1041504001595 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 1041504001596 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1041504001597 active site 1041504001598 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1041504001599 GMP synthase; Reviewed; Region: guaA; PRK00074 1041504001600 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1041504001601 AMP/PPi binding site [chemical binding]; other site 1041504001602 candidate oxyanion hole; other site 1041504001603 catalytic triad [active] 1041504001604 potential glutamine specificity residues [chemical binding]; other site 1041504001605 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 1041504001606 ATP Binding subdomain [chemical binding]; other site 1041504001607 Ligand Binding sites [chemical binding]; other site 1041504001608 Dimerization subdomain; other site 1041504001609 flagellin; Reviewed; Region: PRK08869 1041504001610 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1041504001611 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1041504001612 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1041504001613 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1041504001614 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1041504001615 Walker A/P-loop; other site 1041504001616 ATP binding site [chemical binding]; other site 1041504001617 Q-loop/lid; other site 1041504001618 ABC transporter signature motif; other site 1041504001619 Walker B; other site 1041504001620 D-loop; other site 1041504001621 H-loop/switch region; other site 1041504001622 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1041504001623 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 1041504001624 dimer interface [polypeptide binding]; other site 1041504001625 conserved gate region; other site 1041504001626 putative PBP binding loops; other site 1041504001627 ABC-ATPase subunit interface; other site 1041504001628 potential protein location (hypothetical protein) that overlaps protein (phosphonate ABC transporter, inner membrane subunit) 1041504001629 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1041504001630 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 1041504001631 dimer interface [polypeptide binding]; other site 1041504001632 conserved gate region; other site 1041504001633 ABC-ATPase subunit interface; other site 1041504001634 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1041504001635 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1041504001636 active site 1041504001637 metal binding site [ion binding]; metal-binding site 1041504001638 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1041504001639 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1041504001640 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1041504001641 active site 1041504001642 catalytic tetrad [active] 1041504001643 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1041504001644 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1041504001645 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1041504001646 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1041504001647 active site 1041504001648 phosphorylation site [posttranslational modification] 1041504001649 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1041504001650 active site 1041504001651 P-loop; other site 1041504001652 phosphorylation site [posttranslational modification] 1041504001653 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1041504001654 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1041504001655 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1041504001656 putative substrate binding site [chemical binding]; other site 1041504001657 putative ATP binding site [chemical binding]; other site 1041504001658 transcription antitermination factor NusB; Region: nusB; TIGR01951 1041504001659 putative RNA binding site [nucleotide binding]; other site 1041504001660 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1041504001661 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 1041504001662 generic binding surface II; other site 1041504001663 generic binding surface I; other site 1041504001664 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1041504001665 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 1041504001666 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1041504001667 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1041504001668 substrate binding pocket [chemical binding]; other site 1041504001669 chain length determination region; other site 1041504001670 substrate-Mg2+ binding site; other site 1041504001671 catalytic residues [active] 1041504001672 aspartate-rich region 1; other site 1041504001673 active site lid residues [active] 1041504001674 aspartate-rich region 2; other site 1041504001675 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1041504001676 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 1041504001677 RNA binding surface [nucleotide binding]; other site 1041504001678 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1041504001679 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1041504001680 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1041504001681 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1041504001682 arginine repressor; Provisional; Region: argR; PRK00441 1041504001683 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1041504001684 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1041504001685 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1041504001686 Walker A/P-loop; other site 1041504001687 ATP binding site [chemical binding]; other site 1041504001688 Q-loop/lid; other site 1041504001689 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1041504001690 ABC transporter signature motif; other site 1041504001691 Walker B; other site 1041504001692 D-loop; other site 1041504001693 H-loop/switch region; other site 1041504001694 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 1041504001695 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 1041504001696 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 1041504001697 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 1041504001698 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 1041504001699 active site 1041504001700 phosphorylation site [posttranslational modification] 1041504001701 intermolecular recognition site; other site 1041504001702 dimerization interface [polypeptide binding]; other site 1041504001703 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 1041504001704 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1041504001705 intersubunit interface [polypeptide binding]; other site 1041504001706 active site 1041504001707 catalytic residue [active] 1041504001708 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1041504001709 active site 1041504001710 catalytic triad [active] 1041504001711 oxyanion hole [active] 1041504001712 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1041504001713 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1041504001714 Walker A/P-loop; other site 1041504001715 ATP binding site [chemical binding]; other site 1041504001716 Q-loop/lid; other site 1041504001717 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1041504001718 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1041504001719 ABC transporter signature motif; other site 1041504001720 Walker B; other site 1041504001721 D-loop; other site 1041504001722 H-loop/switch region; other site 1041504001723 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1041504001724 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1041504001725 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 1041504001726 P loop; other site 1041504001727 GTP binding site [chemical binding]; other site 1041504001728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2739; cl17893 1041504001729 signal recognition particle protein; Provisional; Region: PRK10867 1041504001730 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1041504001731 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 1041504001732 P loop; other site 1041504001733 GTP binding site [chemical binding]; other site 1041504001734 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1041504001735 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1041504001736 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 1041504001737 RimM N-terminal domain; Region: RimM; pfam01782 1041504001738 PRC-barrel domain; Region: PRC; pfam05239 1041504001739 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1041504001740 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1041504001741 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 1041504001742 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1041504001743 GTP/Mg2+ binding site [chemical binding]; other site 1041504001744 G4 box; other site 1041504001745 G5 box; other site 1041504001746 G1 box; other site 1041504001747 Switch I region; other site 1041504001748 G2 box; other site 1041504001749 G3 box; other site 1041504001750 Switch II region; other site 1041504001751 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1041504001752 RNA/DNA hybrid binding site [nucleotide binding]; other site 1041504001753 active site 1041504001754 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1041504001755 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1041504001756 putative active site [active] 1041504001757 putative FMN binding site [chemical binding]; other site 1041504001758 putative substrate binding site [chemical binding]; other site 1041504001759 putative catalytic residue [active] 1041504001760 hypothetical protein; Reviewed; Region: PRK12497 1041504001761 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1041504001762 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1041504001763 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1041504001764 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; cl17251 1041504001765 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1041504001766 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1041504001767 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09651 1041504001768 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 1041504001769 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1041504001770 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1041504001771 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 1041504001772 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1041504001773 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 1041504001774 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 1041504001775 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 1041504001776 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1041504001777 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1041504001778 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504001779 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1041504001780 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504001781 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1041504001782 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1041504001783 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 1041504001784 ATP binding site [chemical binding]; other site 1041504001785 putative Mg++ binding site [ion binding]; other site 1041504001786 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1041504001787 Coenzyme A binding pocket [chemical binding]; other site 1041504001788 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1041504001789 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1041504001790 HTH domain; Region: HTH_11; pfam08279 1041504001791 PRD domain; Region: PRD; pfam00874 1041504001792 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1041504001793 active site 1041504001794 P-loop; other site 1041504001795 phosphorylation site [posttranslational modification] 1041504001796 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1041504001797 active site 1041504001798 phosphorylation site [posttranslational modification] 1041504001799 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1041504001800 active site 1041504001801 phosphorylation site [posttranslational modification] 1041504001802 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1041504001803 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1041504001804 active site 1041504001805 P-loop; other site 1041504001806 phosphorylation site [posttranslational modification] 1041504001807 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1041504001808 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 1041504001809 S-adenosylmethionine binding site [chemical binding]; other site 1041504001810 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1041504001811 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1041504001812 putative active site [active] 1041504001813 catalytic site [active] 1041504001814 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1041504001815 putative active site [active] 1041504001816 catalytic site [active] 1041504001817 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1041504001818 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1041504001819 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 1041504001820 Walker A motif; other site 1041504001821 ATP binding site [chemical binding]; other site 1041504001822 Walker B motif; other site 1041504001823 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1041504001824 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1041504001825 DNA protecting protein DprA; Region: dprA; TIGR00732 1041504001826 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1041504001827 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1041504001828 putative DNA binding site [nucleotide binding]; other site 1041504001829 dimerization interface [polypeptide binding]; other site 1041504001830 putative Zn2+ binding site [ion binding]; other site 1041504001831 DNA topoisomerase I; Validated; Region: PRK05582 1041504001832 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 1041504001833 active site 1041504001834 interdomain interaction site; other site 1041504001835 putative metal-binding site [ion binding]; other site 1041504001836 nucleotide binding site [chemical binding]; other site 1041504001837 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 1041504001838 domain I; other site 1041504001839 DNA binding groove [nucleotide binding] 1041504001840 phosphate binding site [ion binding]; other site 1041504001841 domain II; other site 1041504001842 domain III; other site 1041504001843 nucleotide binding site [chemical binding]; other site 1041504001844 catalytic site [active] 1041504001845 domain IV; other site 1041504001846 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1041504001847 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1041504001848 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 1041504001849 rRNA interaction site [nucleotide binding]; other site 1041504001850 S8 interaction site; other site 1041504001851 putative laminin-1 binding site; other site 1041504001852 elongation factor Ts; Provisional; Region: tsf; PRK09377 1041504001853 UBA/TS-N domain; Region: UBA; pfam00627 1041504001854 Elongation factor TS; Region: EF_TS; pfam00889 1041504001855 Elongation factor TS; Region: EF_TS; pfam00889 1041504001856 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 1041504001857 putative nucleotide binding site [chemical binding]; other site 1041504001858 uridine monophosphate binding site [chemical binding]; other site 1041504001859 homohexameric interface [polypeptide binding]; other site 1041504001860 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1041504001861 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 1041504001862 hinge region; other site 1041504001863 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1041504001864 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 1041504001865 catalytic residue [active] 1041504001866 putative FPP diphosphate binding site; other site 1041504001867 putative FPP binding hydrophobic cleft; other site 1041504001868 dimer interface [polypeptide binding]; other site 1041504001869 putative IPP diphosphate binding site; other site 1041504001870 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1041504001871 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1041504001872 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1041504001873 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 1041504001874 active site 1041504001875 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 1041504001876 protein binding site [polypeptide binding]; other site 1041504001877 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 1041504001878 putative substrate binding region [chemical binding]; other site 1041504001879 GcpE protein; Region: GcpE; pfam04551 1041504001880 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1041504001881 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1041504001882 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1041504001883 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 1041504001884 generic binding surface II; other site 1041504001885 generic binding surface I; other site 1041504001886 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1041504001887 active site 1041504001888 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1041504001889 active site 1041504001890 catalytic site [active] 1041504001891 substrate binding site [chemical binding]; other site 1041504001892 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1041504001893 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1041504001894 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1041504001895 ligand binding site [chemical binding]; other site 1041504001896 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1041504001897 non-specific DNA interactions [nucleotide binding]; other site 1041504001898 DNA binding site [nucleotide binding] 1041504001899 sequence specific DNA binding site [nucleotide binding]; other site 1041504001900 putative cAMP binding site [chemical binding]; other site 1041504001901 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1041504001902 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1041504001903 putative oligomer interface [polypeptide binding]; other site 1041504001904 putative RNA binding site [nucleotide binding]; other site 1041504001905 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1041504001906 NusA N-terminal domain; Region: NusA_N; pfam08529 1041504001907 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 1041504001908 RNA binding site [nucleotide binding]; other site 1041504001909 homodimer interface [polypeptide binding]; other site 1041504001910 NusA-like KH domain; Region: KH_5; pfam13184 1041504001911 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 1041504001912 G-X-X-G motif; other site 1041504001913 Protein of unknown function (DUF448); Region: DUF448; pfam04296 1041504001914 putative RNA binding cleft [nucleotide binding]; other site 1041504001915 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1041504001916 translation initiation factor IF-2; Region: IF-2; TIGR00487 1041504001917 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1041504001918 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1041504001919 G1 box; other site 1041504001920 putative GEF interaction site [polypeptide binding]; other site 1041504001921 GTP/Mg2+ binding site [chemical binding]; other site 1041504001922 Switch I region; other site 1041504001923 G2 box; other site 1041504001924 G3 box; other site 1041504001925 Switch II region; other site 1041504001926 G4 box; other site 1041504001927 G5 box; other site 1041504001928 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 1041504001929 Translation-initiation factor 2; Region: IF-2; pfam11987 1041504001930 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 1041504001931 Ribosome-binding factor A; Region: RBFA; pfam02033 1041504001932 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1041504001933 DHH family; Region: DHH; pfam01368 1041504001934 DHHA1 domain; Region: DHHA1; pfam02272 1041504001935 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 1041504001936 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1041504001937 RNA binding site [nucleotide binding]; other site 1041504001938 active site 1041504001939 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1041504001940 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1041504001941 active site 1041504001942 Riboflavin kinase; Region: Flavokinase; pfam01687 1041504001943 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 1041504001944 16S/18S rRNA binding site [nucleotide binding]; other site 1041504001945 S13e-L30e interaction site [polypeptide binding]; other site 1041504001946 25S rRNA binding site [nucleotide binding]; other site 1041504001947 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1041504001948 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1041504001949 RNase E interface [polypeptide binding]; other site 1041504001950 trimer interface [polypeptide binding]; other site 1041504001951 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1041504001952 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1041504001953 RNase E interface [polypeptide binding]; other site 1041504001954 trimer interface [polypeptide binding]; other site 1041504001955 active site 1041504001956 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 1041504001957 putative nucleic acid binding region [nucleotide binding]; other site 1041504001958 G-X-X-G motif; other site 1041504001959 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 1041504001960 RNA binding site [nucleotide binding]; other site 1041504001961 domain interface; other site 1041504001962 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 1041504001963 aspartate kinase I; Reviewed; Region: PRK08210 1041504001964 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1041504001965 nucleotide binding site [chemical binding]; other site 1041504001966 substrate binding site [chemical binding]; other site 1041504001967 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1041504001968 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1041504001969 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1041504001970 active site 1041504001971 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1041504001972 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1041504001973 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1041504001974 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1041504001975 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1041504001976 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 1041504001977 FeS/SAM binding site; other site 1041504001978 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1041504001979 recombinase A; Provisional; Region: recA; PRK09354 1041504001980 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 1041504001981 hexamer interface [polypeptide binding]; other site 1041504001982 Walker A motif; other site 1041504001983 ATP binding site [chemical binding]; other site 1041504001984 Walker B motif; other site 1041504001985 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 1041504001986 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1041504001987 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1041504001988 Zn2+ binding site [ion binding]; other site 1041504001989 Mg2+ binding site [ion binding]; other site 1041504001990 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 1041504001991 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1041504001992 dimerization domain swap beta strand [polypeptide binding]; other site 1041504001993 regulatory protein interface [polypeptide binding]; other site 1041504001994 active site 1041504001995 regulatory phosphorylation site [posttranslational modification]; other site 1041504001996 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1041504001997 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 1041504001998 active site 1041504001999 DNA binding site [nucleotide binding] 1041504002000 Int/Topo IB signature motif; other site 1041504002001 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1041504002002 Aluminium resistance protein; Region: Alum_res; pfam06838 1041504002003 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1041504002004 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1041504002005 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1041504002006 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 1041504002007 ATP binding site [chemical binding]; other site 1041504002008 Mg2+ binding site [ion binding]; other site 1041504002009 G-X-G motif; other site 1041504002010 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 1041504002011 ATP binding site [chemical binding]; other site 1041504002012 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1041504002013 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1041504002014 MutS domain I; Region: MutS_I; pfam01624 1041504002015 MutS domain II; Region: MutS_II; pfam05188 1041504002016 MutS domain III; Region: MutS_III; pfam05192 1041504002017 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1041504002018 Walker A/P-loop; other site 1041504002019 ATP binding site [chemical binding]; other site 1041504002020 Q-loop/lid; other site 1041504002021 ABC transporter signature motif; other site 1041504002022 Walker B; other site 1041504002023 D-loop; other site 1041504002024 H-loop/switch region; other site 1041504002025 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 1041504002026 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1041504002027 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 1041504002028 FeS/SAM binding site; other site 1041504002029 TRAM domain; Region: TRAM; pfam01938 1041504002030 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1041504002031 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504002032 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504002033 TM2 domain; Region: TM2; pfam05154 1041504002034 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1041504002035 active site 1041504002036 catalytic site [active] 1041504002037 Predicted transcriptional regulators [Transcription]; Region: COG1725 1041504002038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1041504002039 DNA-binding site [nucleotide binding]; DNA binding site 1041504002040 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1041504002041 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1041504002042 Walker A/P-loop; other site 1041504002043 ATP binding site [chemical binding]; other site 1041504002044 Q-loop/lid; other site 1041504002045 ABC transporter signature motif; other site 1041504002046 Walker B; other site 1041504002047 D-loop; other site 1041504002048 H-loop/switch region; other site 1041504002049 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 1041504002050 aspartate aminotransferase; Provisional; Region: PRK07568 1041504002051 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 1041504002052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1041504002053 homodimer interface [polypeptide binding]; other site 1041504002054 catalytic residue [active] 1041504002055 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1041504002056 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1041504002057 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1041504002058 active site 1041504002059 putative hydrolase; Validated; Region: PRK09248 1041504002060 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 1041504002061 active site 1041504002062 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1041504002063 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 1041504002064 gating phenylalanine in ion channel; other site 1041504002065 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1041504002066 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1041504002067 substrate binding site [chemical binding]; other site 1041504002068 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1041504002069 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 1041504002070 Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with...; Region: GH85_ENGase; cd06547 1041504002071 putative active site [active] 1041504002072 FOG: PKD repeat [General function prediction only]; Region: COG3291 1041504002073 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1041504002074 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1041504002075 sugar binding site [chemical binding]; other site 1041504002076 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1041504002077 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1041504002078 nucleotide binding site [chemical binding]; other site 1041504002079 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1041504002080 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1041504002081 Walker A/P-loop; other site 1041504002082 ATP binding site [chemical binding]; other site 1041504002083 Q-loop/lid; other site 1041504002084 ABC transporter signature motif; other site 1041504002085 Walker B; other site 1041504002086 D-loop; other site 1041504002087 H-loop/switch region; other site 1041504002088 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1041504002089 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1041504002090 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 1041504002091 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 1041504002092 active site 1041504002093 catalytic site [active] 1041504002094 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 1041504002095 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 1041504002096 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1041504002097 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 1041504002098 dimer interface [polypeptide binding]; other site 1041504002099 conserved gate region; other site 1041504002100 ABC-ATPase subunit interface; other site 1041504002101 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1041504002102 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 1041504002103 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; cl00427 1041504002104 ABC-ATPase subunit interface; other site 1041504002105 Response regulator receiver domain; Region: Response_reg; pfam00072 1041504002106 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 1041504002107 active site 1041504002108 phosphorylation site [posttranslational modification] 1041504002109 intermolecular recognition site; other site 1041504002110 dimerization interface [polypeptide binding]; other site 1041504002111 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1041504002112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1041504002113 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 1041504002114 Uncharacterized conserved protein [Function unknown]; Region: COG3538 1041504002115 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1041504002116 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1041504002117 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 1041504002118 trimer interface [polypeptide binding]; other site 1041504002119 active site 1041504002120 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 1041504002121 catalytic site [active] 1041504002122 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1041504002123 predicted active site [active] 1041504002124 catalytic triad [active] 1041504002125 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1041504002126 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1041504002127 active site 1041504002128 multimer interface [polypeptide binding]; other site 1041504002129 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002130 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002131 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 1041504002132 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 1041504002133 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1041504002134 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1041504002135 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1041504002136 GTP-binding protein Der; Reviewed; Region: PRK00093 1041504002137 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1041504002138 G1 box; other site 1041504002139 GTP/Mg2+ binding site [chemical binding]; other site 1041504002140 Switch I region; other site 1041504002141 G2 box; other site 1041504002142 Switch II region; other site 1041504002143 G3 box; other site 1041504002144 G4 box; other site 1041504002145 G5 box; other site 1041504002146 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1041504002147 G1 box; other site 1041504002148 GTP/Mg2+ binding site [chemical binding]; other site 1041504002149 Switch I region; other site 1041504002150 G2 box; other site 1041504002151 G3 box; other site 1041504002152 Switch II region; other site 1041504002153 G4 box; other site 1041504002154 G5 box; other site 1041504002155 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 1041504002156 Peptidase family M28; Region: Peptidase_M28; pfam04389 1041504002157 metal binding site [ion binding]; metal-binding site 1041504002158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1041504002159 Coenzyme A binding pocket [chemical binding]; other site 1041504002160 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504002161 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1041504002162 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504002163 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 1041504002164 amidase catalytic site [active] 1041504002165 Zn binding residues [ion binding]; other site 1041504002166 substrate binding site [chemical binding]; other site 1041504002167 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002168 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1041504002169 PhoU domain; Region: PhoU; pfam01895 1041504002170 PhoU domain; Region: PhoU; pfam01895 1041504002171 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1041504002172 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1041504002173 Walker A/P-loop; other site 1041504002174 ATP binding site [chemical binding]; other site 1041504002175 Q-loop/lid; other site 1041504002176 ABC transporter signature motif; other site 1041504002177 Walker B; other site 1041504002178 D-loop; other site 1041504002179 H-loop/switch region; other site 1041504002180 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1041504002181 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 1041504002182 ABC-ATPase subunit interface; other site 1041504002183 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1041504002184 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 1041504002185 dimer interface [polypeptide binding]; other site 1041504002186 conserved gate region; other site 1041504002187 putative PBP binding loops; other site 1041504002188 ABC-ATPase subunit interface; other site 1041504002189 PBP superfamily domain; Region: PBP_like_2; cl17296 1041504002190 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1041504002191 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 1041504002192 dimer interface [polypeptide binding]; other site 1041504002193 phosphorylation site [posttranslational modification] 1041504002194 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 1041504002195 ATP binding site [chemical binding]; other site 1041504002196 Mg2+ binding site [ion binding]; other site 1041504002197 G-X-G motif; other site 1041504002198 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1041504002199 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 1041504002200 active site 1041504002201 phosphorylation site [posttranslational modification] 1041504002202 intermolecular recognition site; other site 1041504002203 dimerization interface [polypeptide binding]; other site 1041504002204 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 1041504002205 DNA binding site [nucleotide binding] 1041504002206 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1041504002207 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 1041504002208 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1041504002209 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1041504002210 metal-binding site [ion binding] 1041504002211 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1041504002212 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1041504002213 sporulation sigma factor SigG; Reviewed; Region: PRK08215 1041504002214 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1041504002215 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1041504002216 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 1041504002217 DNA binding residues [nucleotide binding] 1041504002218 sporulation sigma factor SigE; Reviewed; Region: PRK08301 1041504002219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1041504002220 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 1041504002221 DNA binding residues [nucleotide binding] 1041504002222 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 1041504002223 cell division protein FtsZ; Validated; Region: PRK09330 1041504002224 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 1041504002225 nucleotide binding site [chemical binding]; other site 1041504002226 SulA interaction site; other site 1041504002227 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1041504002228 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1041504002229 DXD motif; other site 1041504002230 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 1041504002231 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1041504002232 Walker A motif; other site 1041504002233 ATP binding site [chemical binding]; other site 1041504002234 Walker B motif; other site 1041504002235 sporulation sigma factor SigK; Reviewed; Region: PRK05803 1041504002236 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1041504002237 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 1041504002238 DNA binding residues [nucleotide binding] 1041504002239 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1041504002240 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1041504002241 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1041504002242 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1041504002243 Peptidase family U32; Region: Peptidase_U32; pfam01136 1041504002244 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1041504002245 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 1041504002246 S-adenosylmethionine binding site [chemical binding]; other site 1041504002247 YceG-like family; Region: YceG; pfam02618 1041504002248 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1041504002249 dimerization interface [polypeptide binding]; other site 1041504002250 Protein of unknown function (DUF964); Region: DUF964; cl01483 1041504002251 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1041504002252 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1041504002253 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1041504002254 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1041504002255 metal binding site 2 [ion binding]; metal-binding site 1041504002256 putative DNA binding helix; other site 1041504002257 metal binding site 1 [ion binding]; metal-binding site 1041504002258 dimer interface [polypeptide binding]; other site 1041504002259 structural Zn2+ binding site [ion binding]; other site 1041504002260 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1041504002261 hypothetical protein; Provisional; Region: PRK05473 1041504002262 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1041504002263 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 1041504002264 motif 1; other site 1041504002265 active site 1041504002266 motif 2; other site 1041504002267 motif 3; other site 1041504002268 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1041504002269 DHHA1 domain; Region: DHHA1; pfam02272 1041504002270 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1041504002271 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 1041504002272 Ligand Binding Site [chemical binding]; other site 1041504002273 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1041504002274 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1041504002275 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1041504002276 catalytic residue [active] 1041504002277 Predicted transcriptional regulator [Transcription]; Region: COG1959 1041504002278 Transcriptional regulator; Region: Rrf2; cl17282 1041504002279 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1041504002280 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1041504002281 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1041504002282 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1041504002283 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1041504002284 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1041504002285 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1041504002286 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 1041504002287 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1041504002288 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 1041504002289 carboxyltransferase (CT) interaction site; other site 1041504002290 biotinylation site [posttranslational modification]; other site 1041504002291 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1041504002292 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 1041504002293 dimer interface [polypeptide binding]; other site 1041504002294 active site 1041504002295 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1041504002296 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1041504002297 NAD(P) binding site [chemical binding]; other site 1041504002298 homotetramer interface [polypeptide binding]; other site 1041504002299 homodimer interface [polypeptide binding]; other site 1041504002300 active site 1041504002301 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1041504002302 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1041504002303 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1041504002304 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 1041504002305 dimer interface [polypeptide binding]; other site 1041504002306 active site 1041504002307 CoA binding pocket [chemical binding]; other site 1041504002308 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1041504002309 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 1041504002310 dimer interface [polypeptide binding]; other site 1041504002311 active site 1041504002312 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1041504002313 folate binding site [chemical binding]; other site 1041504002314 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1041504002315 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 1041504002316 dimer interface [polypeptide binding]; other site 1041504002317 anticodon binding site; other site 1041504002318 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 1041504002319 homodimer interface [polypeptide binding]; other site 1041504002320 motif 1; other site 1041504002321 active site 1041504002322 motif 2; other site 1041504002323 GAD domain; Region: GAD; pfam02938 1041504002324 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 1041504002325 active site 1041504002326 motif 3; other site 1041504002327 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1041504002328 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 1041504002329 dimer interface [polypeptide binding]; other site 1041504002330 motif 1; other site 1041504002331 active site 1041504002332 motif 2; other site 1041504002333 motif 3; other site 1041504002334 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 1041504002335 anticodon binding site; other site 1041504002336 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1041504002337 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1041504002338 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1041504002339 Zn2+ binding site [ion binding]; other site 1041504002340 Mg2+ binding site [ion binding]; other site 1041504002341 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1041504002342 synthetase active site [active] 1041504002343 NTP binding site [chemical binding]; other site 1041504002344 metal binding site [ion binding]; metal-binding site 1041504002345 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1041504002346 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1041504002347 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1041504002348 active site 1041504002349 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1041504002350 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1041504002351 Protein export membrane protein; Region: SecD_SecF; pfam02355 1041504002352 protein-export membrane protein SecD; Region: secD; TIGR01129 1041504002353 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1041504002354 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 1041504002355 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 1041504002356 FeS/SAM binding site; other site 1041504002357 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1041504002358 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 1041504002359 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002360 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1041504002361 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1041504002362 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1041504002363 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1041504002364 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1041504002365 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1041504002366 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 1041504002367 Walker A motif; other site 1041504002368 ATP binding site [chemical binding]; other site 1041504002369 Walker B motif; other site 1041504002370 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1041504002371 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1041504002372 RuvA N terminal domain; Region: RuvA_N; pfam01330 1041504002373 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1041504002374 hypothetical protein; Validated; Region: PRK00110 1041504002375 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 1041504002376 homodimer interface [polypeptide binding]; other site 1041504002377 chemical substrate binding site [chemical binding]; other site 1041504002378 oligomer interface [polypeptide binding]; other site 1041504002379 metal binding site [ion binding]; metal-binding site 1041504002380 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1041504002381 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1041504002382 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1041504002383 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1041504002384 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1041504002385 HflX GTPase family; Region: HflX; cd01878 1041504002386 G1 box; other site 1041504002387 GTP/Mg2+ binding site [chemical binding]; other site 1041504002388 Switch I region; other site 1041504002389 G2 box; other site 1041504002390 G3 box; other site 1041504002391 Switch II region; other site 1041504002392 G4 box; other site 1041504002393 G5 box; other site 1041504002394 Transglycosylase; Region: Transgly; pfam00912 1041504002395 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1041504002396 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1041504002397 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1041504002398 active site 1041504002399 metal binding site [ion binding]; metal-binding site 1041504002400 homotetramer interface [polypeptide binding]; other site 1041504002401 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 1041504002402 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1041504002403 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1041504002404 homodimer interface [polypeptide binding]; other site 1041504002405 NADP binding site [chemical binding]; other site 1041504002406 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 1041504002407 active site 1041504002408 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1041504002409 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1041504002410 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1041504002411 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1041504002412 NodB motif; other site 1041504002413 active site 1041504002414 catalytic site [active] 1041504002415 Zn binding site [ion binding]; other site 1041504002416 Predicted permeases [General function prediction only]; Region: COG0701 1041504002417 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1041504002418 dimerization interface [polypeptide binding]; other site 1041504002419 putative DNA binding site [nucleotide binding]; other site 1041504002420 putative Zn2+ binding site [ion binding]; other site 1041504002421 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1041504002422 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1041504002423 dimerization interface [polypeptide binding]; other site 1041504002424 domain crossover interface; other site 1041504002425 redox-dependent activation switch; other site 1041504002426 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1041504002427 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 1041504002428 protein binding site [polypeptide binding]; other site 1041504002429 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1041504002430 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1041504002431 dimer interface [polypeptide binding]; other site 1041504002432 active site 1041504002433 metal binding site [ion binding]; metal-binding site 1041504002434 Protein of unknown function (DUF552); Region: DUF552; pfam04472 1041504002435 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1041504002436 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 1041504002437 RNA binding surface [nucleotide binding]; other site 1041504002438 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1041504002439 active site 1041504002440 DivIVA protein; Region: DivIVA; pfam05103 1041504002441 DivIVA domain; Region: DivI1A_domain; TIGR03544 1041504002442 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1041504002443 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1041504002444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1041504002445 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1041504002446 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1041504002447 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1041504002448 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 1041504002449 Mg++ binding site [ion binding]; other site 1041504002450 putative catalytic motif [active] 1041504002451 putative substrate binding site [chemical binding]; other site 1041504002452 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1041504002453 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1041504002454 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1041504002455 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1041504002456 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1041504002457 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1041504002458 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1041504002459 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 1041504002460 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1041504002461 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1041504002462 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 1041504002463 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 1041504002464 Cell division protein FtsL; Region: FtsL; cl11433 1041504002465 MraW methylase family; Region: Methyltransf_5; cl17771 1041504002466 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1041504002467 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1041504002468 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1041504002469 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1041504002470 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1041504002471 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1041504002472 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1041504002473 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1041504002474 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1041504002475 Walker A/P-loop; other site 1041504002476 ATP binding site [chemical binding]; other site 1041504002477 Q-loop/lid; other site 1041504002478 ABC transporter signature motif; other site 1041504002479 Walker B; other site 1041504002480 D-loop; other site 1041504002481 H-loop/switch region; other site 1041504002482 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1041504002483 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1041504002484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504002485 Walker A/P-loop; other site 1041504002486 ATP binding site [chemical binding]; other site 1041504002487 Q-loop/lid; other site 1041504002488 ABC transporter signature motif; other site 1041504002489 Walker B; other site 1041504002490 D-loop; other site 1041504002491 H-loop/switch region; other site 1041504002492 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 1041504002493 catalytic loop [active] 1041504002494 iron binding site [ion binding]; other site 1041504002495 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1041504002496 4Fe-4S binding domain; Region: Fer4; pfam00037 1041504002497 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1041504002498 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1041504002499 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 1041504002500 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 1041504002501 G1 box; other site 1041504002502 GTP/Mg2+ binding site [chemical binding]; other site 1041504002503 Switch I region; other site 1041504002504 G2 box; other site 1041504002505 Switch II region; other site 1041504002506 G3 box; other site 1041504002507 G4 box; other site 1041504002508 G5 box; other site 1041504002509 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 1041504002510 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 1041504002511 FeS/SAM binding site; other site 1041504002512 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1041504002513 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 1041504002514 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 1041504002515 FeS/SAM binding site; other site 1041504002516 GTP-binding protein YchF; Reviewed; Region: PRK09601 1041504002517 YchF GTPase; Region: YchF; cd01900 1041504002518 G1 box; other site 1041504002519 GTP/Mg2+ binding site [chemical binding]; other site 1041504002520 Switch I region; other site 1041504002521 G2 box; other site 1041504002522 Switch II region; other site 1041504002523 G3 box; other site 1041504002524 G4 box; other site 1041504002525 G5 box; other site 1041504002526 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 1041504002527 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1041504002528 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1041504002529 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1041504002530 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1041504002531 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 1041504002532 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 1041504002533 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1041504002534 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1041504002535 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 1041504002536 TPR motif; other site 1041504002537 TPR repeat; Region: TPR_11; pfam13414 1041504002538 binding surface 1041504002539 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1041504002540 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1041504002541 active site 1041504002542 substrate binding site [chemical binding]; other site 1041504002543 metal binding site [ion binding]; metal-binding site 1041504002544 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1041504002545 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1041504002546 5S rRNA interface [nucleotide binding]; other site 1041504002547 CTC domain interface [polypeptide binding]; other site 1041504002548 L16 interface [polypeptide binding]; other site 1041504002549 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1041504002550 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1041504002551 homodimer interface [polypeptide binding]; other site 1041504002552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1041504002553 catalytic residue [active] 1041504002554 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1041504002555 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1041504002556 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002557 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002558 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002559 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002560 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1041504002561 nucleotide binding site/active site [active] 1041504002562 HIT family signature motif; other site 1041504002563 catalytic residue [active] 1041504002564 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1041504002565 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1041504002566 TRAM domain; Region: TRAM; cl01282 1041504002567 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1041504002568 RNA methyltransferase, RsmE family; Region: TIGR00046 1041504002569 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1041504002570 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 1041504002571 S-adenosylmethionine binding site [chemical binding]; other site 1041504002572 HIRAN domain; Region: HIRAN; cl07418 1041504002573 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1041504002574 Dynamin family; Region: Dynamin_N; pfam00350 1041504002575 G1 box; other site 1041504002576 GTP/Mg2+ binding site [chemical binding]; other site 1041504002577 G2 box; other site 1041504002578 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1041504002579 G3 box; other site 1041504002580 Switch II region; other site 1041504002581 GTP/Mg2+ binding site [chemical binding]; other site 1041504002582 G4 box; other site 1041504002583 G5 box; other site 1041504002584 recombination factor protein RarA; Reviewed; Region: PRK13342 1041504002585 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 1041504002586 Walker A motif; other site 1041504002587 ATP binding site [chemical binding]; other site 1041504002588 Walker B motif; other site 1041504002589 arginine finger; other site 1041504002590 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1041504002591 chaperone protein DnaJ; Provisional; Region: PRK14297 1041504002592 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 1041504002593 HSP70 interaction site [polypeptide binding]; other site 1041504002594 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1041504002595 substrate binding site [polypeptide binding]; other site 1041504002596 dimer interface [polypeptide binding]; other site 1041504002597 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1041504002598 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1041504002599 nucleotide binding site [chemical binding]; other site 1041504002600 NEF interaction site [polypeptide binding]; other site 1041504002601 SBD interface [polypeptide binding]; other site 1041504002602 GrpE; Region: GrpE; pfam01025 1041504002603 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 1041504002604 dimer interface [polypeptide binding]; other site 1041504002605 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1041504002606 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1041504002607 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 1041504002608 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 1041504002609 FeS/SAM binding site; other site 1041504002610 HemN C-terminal domain; Region: HemN_C; pfam06969 1041504002611 GTP-binding protein LepA; Provisional; Region: PRK05433 1041504002612 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1041504002613 G1 box; other site 1041504002614 putative GEF interaction site [polypeptide binding]; other site 1041504002615 GTP/Mg2+ binding site [chemical binding]; other site 1041504002616 Switch I region; other site 1041504002617 G2 box; other site 1041504002618 G3 box; other site 1041504002619 Switch II region; other site 1041504002620 G4 box; other site 1041504002621 G5 box; other site 1041504002622 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 1041504002623 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 1041504002624 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1041504002625 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 1041504002626 stage II sporulation protein P; Region: spore_II_P; TIGR02867 1041504002627 germination protease; Provisional; Region: PRK12362 1041504002628 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1041504002629 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1041504002630 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1041504002631 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1041504002632 Competence protein; Region: Competence; pfam03772 1041504002633 SpoVA protein; Region: SpoVA; cl04298 1041504002634 stage V sporulation protein AD; Validated; Region: PRK08304 1041504002635 stage V sporulation protein AD; Provisional; Region: PRK12404 1041504002636 SpoVA protein; Region: SpoVA; cl04298 1041504002637 Flagellar protein (FlbD); Region: FlbD; pfam06289 1041504002638 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1041504002639 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1041504002640 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 1041504002641 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 1041504002642 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1041504002643 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1041504002644 Walker A motif/ATP binding site; other site 1041504002645 Walker B motif; other site 1041504002646 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 1041504002647 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1041504002648 FliG C-terminal domain; Region: FliG_C; pfam01706 1041504002649 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 1041504002650 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1041504002651 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1041504002652 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 1041504002653 flagellin; Provisional; Region: PRK12804 1041504002654 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1041504002655 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1041504002656 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1041504002657 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1041504002658 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1041504002659 methionine cluster; other site 1041504002660 active site 1041504002661 phosphorylation site [posttranslational modification] 1041504002662 metal binding site [ion binding]; metal-binding site 1041504002663 Asp23 family; Region: Asp23; pfam03780 1041504002664 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 1041504002665 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 1041504002666 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 1041504002667 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 1041504002668 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 1041504002669 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 1041504002670 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 1041504002671 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 1041504002672 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1041504002673 Walker A motif; other site 1041504002674 ATP binding site [chemical binding]; other site 1041504002675 Walker B motif; other site 1041504002676 elongation factor P; Validated; Region: PRK00529 1041504002677 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1041504002678 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 1041504002679 RNA binding site [nucleotide binding]; other site 1041504002680 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 1041504002681 RNA binding site [nucleotide binding]; other site 1041504002682 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1041504002683 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1041504002684 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1041504002685 Type II/IV secretion system protein; Region: T2SE; pfam00437 1041504002686 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1041504002687 Walker A motif; other site 1041504002688 ATP binding site [chemical binding]; other site 1041504002689 Walker B motif; other site 1041504002690 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1041504002691 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1041504002692 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1041504002693 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1041504002694 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1041504002695 Walker A/P-loop; other site 1041504002696 ATP binding site [chemical binding]; other site 1041504002697 Q-loop/lid; other site 1041504002698 ABC transporter signature motif; other site 1041504002699 Walker B; other site 1041504002700 D-loop; other site 1041504002701 H-loop/switch region; other site 1041504002702 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1041504002703 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; cd06550 1041504002704 ABC-ATPase subunit interface; other site 1041504002705 dimer interface [polypeptide binding]; other site 1041504002706 putative PBP binding regions; other site 1041504002707 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 1041504002708 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 1041504002709 intersubunit interface [polypeptide binding]; other site 1041504002710 peroxiredoxin; Region: AhpC; TIGR03137 1041504002711 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 1041504002712 dimer interface [polypeptide binding]; other site 1041504002713 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1041504002714 catalytic triad [active] 1041504002715 peroxidatic and resolving cysteines [active] 1041504002716 Predicted membrane protein [Function unknown]; Region: COG2510 1041504002717 Predicted membrane protein [Function unknown]; Region: COG2510 1041504002718 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 1041504002719 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1041504002720 beta-galactosidase; Region: BGL; TIGR03356 1041504002721 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1041504002722 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1041504002723 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1041504002724 active site 1041504002725 P-loop; other site 1041504002726 phosphorylation site [posttranslational modification] 1041504002727 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1041504002728 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1041504002729 NAD binding site [chemical binding]; other site 1041504002730 sugar binding site [chemical binding]; other site 1041504002731 divalent metal binding site [ion binding]; other site 1041504002732 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1041504002733 dimer interface [polypeptide binding]; other site 1041504002734 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1041504002735 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1041504002736 DNA interaction; other site 1041504002737 Metal-binding active site; metal-binding site 1041504002738 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1041504002739 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1041504002740 intersubunit interface [polypeptide binding]; other site 1041504002741 active site 1041504002742 Zn2+ binding site [ion binding]; other site 1041504002743 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1041504002744 active site 1041504002745 P-loop; other site 1041504002746 phosphorylation site [posttranslational modification] 1041504002747 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 1041504002748 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1041504002749 active site 1041504002750 phosphorylation site [posttranslational modification] 1041504002751 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1041504002752 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1041504002753 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1041504002754 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1041504002755 putative DNA binding site [nucleotide binding]; other site 1041504002756 dimerization interface [polypeptide binding]; other site 1041504002757 putative Zn2+ binding site [ion binding]; other site 1041504002758 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1041504002759 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1041504002760 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1041504002761 heme-binding site [chemical binding]; other site 1041504002762 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1041504002763 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1041504002764 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1041504002765 sporulation sigma factor SigF; Validated; Region: PRK05572 1041504002766 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1041504002767 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 1041504002768 DNA binding residues [nucleotide binding] 1041504002769 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1041504002770 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 1041504002771 ATP binding site [chemical binding]; other site 1041504002772 Mg2+ binding site [ion binding]; other site 1041504002773 G-X-G motif; other site 1041504002774 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1041504002775 anti sigma factor interaction site; other site 1041504002776 regulatory phosphorylation site [posttranslational modification]; other site 1041504002777 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1041504002778 Peptidase family M28; Region: Peptidase_M28; pfam04389 1041504002779 metal binding site [ion binding]; metal-binding site 1041504002780 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1041504002781 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1041504002782 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002783 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002784 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002785 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1041504002786 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1041504002787 putative active site [active] 1041504002788 putative metal binding site [ion binding]; other site 1041504002789 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1041504002790 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1041504002791 flagellin; Provisional; Region: PRK12803 1041504002792 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1041504002793 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 1041504002794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1041504002795 homodimer interface [polypeptide binding]; other site 1041504002796 catalytic residue [active] 1041504002797 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1041504002798 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1041504002799 dimer interface [polypeptide binding]; other site 1041504002800 putative CheW interface [polypeptide binding]; other site 1041504002801 DNA repair protein RadA; Provisional; Region: PRK11823 1041504002802 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1041504002803 Walker A motif; other site 1041504002804 ATP binding site [chemical binding]; other site 1041504002805 Walker B motif; other site 1041504002806 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1041504002807 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1041504002808 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 1041504002809 active site 1041504002810 catalytic triad [active] 1041504002811 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 1041504002812 active site 1041504002813 catalytic triad [active] 1041504002814 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1041504002815 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1041504002816 glutaminase active site [active] 1041504002817 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1041504002818 dimer interface [polypeptide binding]; other site 1041504002819 active site 1041504002820 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1041504002821 dimer interface [polypeptide binding]; other site 1041504002822 active site 1041504002823 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002824 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002825 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1041504002826 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1041504002827 putative ligand binding site [chemical binding]; other site 1041504002828 putative NAD binding site [chemical binding]; other site 1041504002829 catalytic site [active] 1041504002830 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1041504002831 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1041504002832 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; cd06259 1041504002833 putative active site [active] 1041504002834 aminotransferase A; Validated; Region: PRK07683 1041504002835 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 1041504002836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1041504002837 homodimer interface [polypeptide binding]; other site 1041504002838 catalytic residue [active] 1041504002839 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 1041504002840 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1041504002841 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1041504002842 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 1041504002843 trimer interface [polypeptide binding]; other site 1041504002844 active site 1041504002845 substrate binding site [chemical binding]; other site 1041504002846 CoA binding site [chemical binding]; other site 1041504002847 single-stranded DNA-binding protein; Provisional; Region: PRK05813 1041504002848 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 1041504002849 dimer interface [polypeptide binding]; other site 1041504002850 ssDNA binding site [nucleotide binding]; other site 1041504002851 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1041504002852 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1041504002853 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1041504002854 NodB motif; other site 1041504002855 active site 1041504002856 catalytic site [active] 1041504002857 metal binding site [ion binding]; metal-binding site 1041504002858 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 1041504002859 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1041504002860 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1041504002861 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1041504002862 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1041504002863 active site 1041504002864 HIGH motif; other site 1041504002865 nucleotide binding site [chemical binding]; other site 1041504002866 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1041504002867 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1041504002868 active site 1041504002869 KMSKS motif; other site 1041504002870 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1041504002871 tRNA binding surface [nucleotide binding]; other site 1041504002872 anticodon binding site; other site 1041504002873 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1041504002874 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 1041504002875 TPR motif; other site 1041504002876 TPR repeat; Region: TPR_11; pfam13414 1041504002877 binding surface 1041504002878 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1041504002879 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1041504002880 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 1041504002881 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1041504002882 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1041504002883 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1041504002884 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002885 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1041504002886 Rubredoxin; Region: Rubredoxin; pfam00301 1041504002887 iron binding site [ion binding]; other site 1041504002888 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 1041504002889 Rubrerythrin [Energy production and conversion]; Region: COG1592 1041504002890 diiron binding motif [ion binding]; other site 1041504002891 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504002892 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1041504002893 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1041504002894 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 1041504002895 nucleotide binding pocket [chemical binding]; other site 1041504002896 K-X-D-G motif; other site 1041504002897 catalytic site [active] 1041504002898 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1041504002899 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 1041504002900 Dimer interface [polypeptide binding]; other site 1041504002901 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1041504002902 Part of AAA domain; Region: AAA_19; pfam13245 1041504002903 Family description; Region: UvrD_C_2; pfam13538 1041504002904 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1041504002905 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 1041504002906 RNA binding surface [nucleotide binding]; other site 1041504002907 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1041504002908 active site 1041504002909 uracil binding [chemical binding]; other site 1041504002910 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1041504002911 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 1041504002912 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1041504002913 catalytic residue [active] 1041504002914 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 1041504002915 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1041504002916 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1041504002917 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1041504002918 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1041504002919 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1041504002920 active site 1041504002921 dimer interface [polypeptide binding]; other site 1041504002922 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1041504002923 dimer interface [polypeptide binding]; other site 1041504002924 active site 1041504002925 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1041504002926 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1041504002927 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504002928 Walker A/P-loop; other site 1041504002929 ATP binding site [chemical binding]; other site 1041504002930 Q-loop/lid; other site 1041504002931 ABC transporter signature motif; other site 1041504002932 Walker B; other site 1041504002933 D-loop; other site 1041504002934 H-loop/switch region; other site 1041504002935 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1041504002936 DJ-1 family protein; Region: not_thiJ; TIGR01383 1041504002937 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1041504002938 conserved cys residue [active] 1041504002939 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1041504002940 trimer interface [polypeptide binding]; other site 1041504002941 active site 1041504002942 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 1041504002943 amidase catalytic site [active] 1041504002944 Zn binding residues [ion binding]; other site 1041504002945 substrate binding site [chemical binding]; other site 1041504002946 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1041504002947 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1041504002948 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1041504002949 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1041504002950 Walker A/P-loop; other site 1041504002951 ATP binding site [chemical binding]; other site 1041504002952 Q-loop/lid; other site 1041504002953 ABC transporter signature motif; other site 1041504002954 Walker B; other site 1041504002955 D-loop; other site 1041504002956 H-loop/switch region; other site 1041504002957 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1041504002958 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 1041504002959 ATP binding site [chemical binding]; other site 1041504002960 Mg2+ binding site [ion binding]; other site 1041504002961 G-X-G motif; other site 1041504002962 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1041504002963 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 1041504002964 active site 1041504002965 phosphorylation site [posttranslational modification] 1041504002966 intermolecular recognition site; other site 1041504002967 dimerization interface [polypeptide binding]; other site 1041504002968 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 1041504002969 DNA binding site [nucleotide binding] 1041504002970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1041504002971 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 1041504002972 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1041504002973 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1041504002974 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 1041504002975 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1041504002976 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1041504002977 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 1041504002978 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1041504002979 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1041504002980 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 1041504002981 DNA binding residues [nucleotide binding] 1041504002982 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 1041504002983 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1041504002984 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1041504002985 FHIPEP family; Region: FHIPEP; pfam00771 1041504002986 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 1041504002987 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1041504002988 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1041504002989 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1041504002990 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1041504002991 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 1041504002992 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1041504002993 flagellar motor protein MotS; Reviewed; Region: PRK06925 1041504002994 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1041504002995 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1041504002996 ligand binding site [chemical binding]; other site 1041504002997 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1041504002998 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1041504002999 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1041504003000 active site 1041504003001 adenylosuccinate lyase; Provisional; Region: PRK07492 1041504003002 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1041504003003 tetramer interface [polypeptide binding]; other site 1041504003004 active site 1041504003005 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1041504003006 putative oxidoreductase; Provisional; Region: PRK11579 1041504003007 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1041504003008 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1041504003009 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1041504003010 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1041504003011 GDP-binding site [chemical binding]; other site 1041504003012 ACT binding site; other site 1041504003013 IMP binding site; other site 1041504003014 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1041504003015 ScpA/B protein; Region: ScpA_ScpB; cl00598 1041504003016 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504003017 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1041504003018 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504003019 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1041504003020 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1041504003021 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1041504003022 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 1041504003023 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1041504003024 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1041504003025 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 1041504003026 phosphopentomutase; Provisional; Region: PRK05362 1041504003027 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1041504003028 Integral membrane protein DUF95; Region: DUF95; cl00572 1041504003029 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1041504003030 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1041504003031 dimer interface [polypeptide binding]; other site 1041504003032 ADP-ribose binding site [chemical binding]; other site 1041504003033 active site 1041504003034 nudix motif; other site 1041504003035 metal binding site [ion binding]; metal-binding site 1041504003036 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1041504003037 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1041504003038 Walker A/P-loop; other site 1041504003039 ATP binding site [chemical binding]; other site 1041504003040 Q-loop/lid; other site 1041504003041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504003042 Q-loop/lid; other site 1041504003043 ABC transporter signature motif; other site 1041504003044 Walker B; other site 1041504003045 D-loop; other site 1041504003046 H-loop/switch region; other site 1041504003047 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1041504003048 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1041504003049 active site 1041504003050 metal binding site [ion binding]; metal-binding site 1041504003051 DNA binding site [nucleotide binding] 1041504003052 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1041504003053 competence damage-inducible protein A; Provisional; Region: PRK00549 1041504003054 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1041504003055 putative MPT binding site; other site 1041504003056 Competence-damaged protein; Region: CinA; pfam02464 1041504003057 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1041504003058 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; cl01054 1041504003059 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 1041504003060 dimer interface [polypeptide binding]; other site 1041504003061 phosphorylation site [posttranslational modification] 1041504003062 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 1041504003063 ATP binding site [chemical binding]; other site 1041504003064 Mg2+ binding site [ion binding]; other site 1041504003065 G-X-G motif; other site 1041504003066 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1041504003067 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 1041504003068 active site 1041504003069 phosphorylation site [posttranslational modification] 1041504003070 intermolecular recognition site; other site 1041504003071 dimerization interface [polypeptide binding]; other site 1041504003072 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 1041504003073 DNA binding site [nucleotide binding] 1041504003074 Predicted membrane protein [Function unknown]; Region: COG3212 1041504003075 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1041504003076 Predicted membrane protein [Function unknown]; Region: COG3212 1041504003077 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1041504003078 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1041504003079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1041504003080 Putative glucoamylase; Region: Glycoamylase; pfam10091 1041504003081 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1041504003082 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1041504003083 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1041504003084 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1041504003085 Walker A/P-loop; other site 1041504003086 ATP binding site [chemical binding]; other site 1041504003087 Q-loop/lid; other site 1041504003088 ABC transporter signature motif; other site 1041504003089 Walker B; other site 1041504003090 D-loop; other site 1041504003091 H-loop/switch region; other site 1041504003092 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1041504003093 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1041504003094 putative ligand binding residues [chemical binding]; other site 1041504003095 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1041504003096 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1041504003097 Walker A/P-loop; other site 1041504003098 ATP binding site [chemical binding]; other site 1041504003099 Q-loop/lid; other site 1041504003100 ABC transporter signature motif; other site 1041504003101 Walker B; other site 1041504003102 D-loop; other site 1041504003103 H-loop/switch region; other site 1041504003104 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; cd06550 1041504003105 ABC-ATPase subunit interface; other site 1041504003106 dimer interface [polypeptide binding]; other site 1041504003107 putative PBP binding regions; other site 1041504003108 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; cd06550 1041504003109 ABC-ATPase subunit interface; other site 1041504003110 dimer interface [polypeptide binding]; other site 1041504003111 putative PBP binding regions; other site 1041504003112 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 1041504003113 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1041504003114 intersubunit interface [polypeptide binding]; other site 1041504003115 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1041504003116 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; cd06550 1041504003117 ABC-ATPase subunit interface; other site 1041504003118 dimer interface [polypeptide binding]; other site 1041504003119 putative PBP binding regions; other site 1041504003120 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1041504003121 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; cd06550 1041504003122 ABC-ATPase subunit interface; other site 1041504003123 dimer interface [polypeptide binding]; other site 1041504003124 putative PBP binding regions; other site 1041504003125 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1041504003126 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1041504003127 Walker A/P-loop; other site 1041504003128 ATP binding site [chemical binding]; other site 1041504003129 Q-loop/lid; other site 1041504003130 ABC transporter signature motif; other site 1041504003131 Walker B; other site 1041504003132 D-loop; other site 1041504003133 H-loop/switch region; other site 1041504003134 H+ Antiporter protein; Region: 2A0121; TIGR00900 1041504003135 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1041504003136 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1244 1041504003137 Cupin domain; Region: Cupin_2; cl17218 1041504003138 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 1041504003139 Peptidase family M28; Region: Peptidase_M28; pfam04389 1041504003140 metal binding site [ion binding]; metal-binding site 1041504003141 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1041504003142 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 1041504003143 Rubredoxin; Region: Rubredoxin; pfam00301 1041504003144 iron binding site [ion binding]; other site 1041504003145 GTPase RsgA; Reviewed; Region: PRK01889 1041504003146 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 1041504003147 RNA binding site [nucleotide binding]; other site 1041504003148 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1041504003149 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1041504003150 GTP/Mg2+ binding site [chemical binding]; other site 1041504003151 G4 box; other site 1041504003152 G5 box; other site 1041504003153 G1 box; other site 1041504003154 Switch I region; other site 1041504003155 G2 box; other site 1041504003156 G3 box; other site 1041504003157 Switch II region; other site 1041504003158 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1041504003159 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1041504003160 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1041504003161 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1041504003162 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1041504003163 tetramer interface [polypeptide binding]; other site 1041504003164 heme binding pocket [chemical binding]; other site 1041504003165 NADPH binding site [chemical binding]; other site 1041504003166 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1041504003167 metal binding site 2 [ion binding]; metal-binding site 1041504003168 putative DNA binding helix; other site 1041504003169 metal binding site 1 [ion binding]; metal-binding site 1041504003170 dimer interface [polypeptide binding]; other site 1041504003171 structural Zn2+ binding site [ion binding]; other site 1041504003172 BioY family; Region: BioY; pfam02632 1041504003173 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1041504003174 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1041504003175 Coenzyme A binding pocket [chemical binding]; other site 1041504003176 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 1041504003177 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1041504003178 dimanganese center [ion binding]; other site 1041504003179 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1041504003180 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1041504003181 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 1041504003182 NgoBV restriction endonuclease; Region: RE_NgoBV; pfam09564 1041504003183 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1041504003184 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 1041504003185 S-adenosylmethionine binding site [chemical binding]; other site 1041504003186 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1041504003187 pyrophosphatase PpaX; Provisional; Region: PRK13288 1041504003188 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 1041504003189 active site 1041504003190 motif I; other site 1041504003191 motif II; other site 1041504003192 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1041504003193 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1041504003194 putative CheW interface [polypeptide binding]; other site 1041504003195 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1041504003196 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1041504003197 putative CheW interface [polypeptide binding]; other site 1041504003198 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1041504003199 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1041504003200 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 1041504003201 carboxyltransferase (CT) interaction site; other site 1041504003202 biotinylation site [posttranslational modification]; other site 1041504003203 oxaloacetate decarboxylase; Provisional; Region: PRK12331 1041504003204 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1041504003205 active site 1041504003206 catalytic residues [active] 1041504003207 metal binding site [ion binding]; metal-binding site 1041504003208 homodimer binding site [polypeptide binding]; other site 1041504003209 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1041504003210 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1041504003211 trimerization site [polypeptide binding]; other site 1041504003212 active site 1041504003213 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1041504003214 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1041504003215 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1041504003216 catalytic residue [active] 1041504003217 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1041504003218 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1041504003219 FeS assembly protein SufB; Region: sufB; TIGR01980 1041504003220 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1041504003221 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1041504003222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1041504003223 Walker A/P-loop; other site 1041504003224 ATP binding site [chemical binding]; other site 1041504003225 Q-loop/lid; other site 1041504003226 ABC transporter signature motif; other site 1041504003227 Walker B; other site 1041504003228 D-loop; other site 1041504003229 H-loop/switch region; other site 1041504003230 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 1041504003231 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1041504003232 active site 1041504003233 motif I; other site 1041504003234 motif II; other site 1041504003235 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1041504003236 alpha-glucosidase; Provisional; Region: PRK10137 1041504003237 Trehalase; Region: Trehalase; cl17346 1041504003238 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1041504003239 active site 1041504003240 dimer interface [polypeptide binding]; other site 1041504003241 metal binding site [ion binding]; metal-binding site 1041504003242 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1041504003243 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1041504003244 Tetramer interface [polypeptide binding]; other site 1041504003245 active site 1041504003246 FMN-binding site [chemical binding]; other site 1041504003247 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1041504003248 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1041504003249 hinge; other site 1041504003250 active site 1041504003251 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 1041504003252 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1041504003253 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 1041504003254 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1041504003255 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1041504003256 active site 1041504003257 dimer interface [polypeptide binding]; other site 1041504003258 effector binding site; other site 1041504003259 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1041504003260 TSCPD domain; Region: TSCPD; cl14834 1041504003261 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1041504003262 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1041504003263 AsnC family; Region: AsnC_trans_reg; pfam01037 1041504003264 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1041504003265 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1041504003266 putative acyl-acceptor binding pocket; other site 1041504003267 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1041504003268 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1041504003269 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1041504003270 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1041504003271 active site 1041504003272 HIGH motif; other site 1041504003273 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1041504003274 active site 1041504003275 KMSKS motif; other site 1041504003276 RNase_H superfamily; Region: RNase_H_2; pfam13482 1041504003277 active site 1041504003278 substrate binding site [chemical binding]; other site 1041504003279 catalytic site [active] 1041504003280 FeoA domain; Region: FeoA; cl00838 1041504003281 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1041504003282 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1041504003283 G1 box; other site 1041504003284 GTP/Mg2+ binding site [chemical binding]; other site 1041504003285 Switch I region; other site 1041504003286 G2 box; other site 1041504003287 G3 box; other site 1041504003288 Switch II region; other site 1041504003289 G4 box; other site 1041504003290 G5 box; other site 1041504003291 Nucleoside recognition; Region: Gate; pfam07670 1041504003292 Nucleoside recognition; Region: Gate; pfam07670 1041504003293 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1041504003294 Putative carbohydrate binding domain; Region: CBM_X; pfam06204 1041504003295 Glycoside hydrolase family 94 N-terminal-like domain of uncharacterized function; Region: GH94N_like_4; cd11751 1041504003296 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1041504003297 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1041504003298 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1041504003299 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1041504003300 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1041504003301 active site 1041504003302 HIGH motif; other site 1041504003303 KMSK motif region; other site 1041504003304 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1041504003305 tRNA binding surface [nucleotide binding]; other site 1041504003306 anticodon binding site; other site 1041504003307 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1041504003308 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 1041504003309 S-adenosylmethionine binding site [chemical binding]; other site 1041504003310 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1041504003311 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1041504003312 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1041504003313 Arginase family; Region: Arginase; cd09989 1041504003314 active site 1041504003315 Mn binding site [ion binding]; other site 1041504003316 oligomer interface [polypeptide binding]; other site 1041504003317 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1041504003318 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1041504003319 active site 1041504003320 catalytic site [active] 1041504003321 substrate binding site [chemical binding]; other site 1041504003322 glutamate dehydrogenase; Provisional; Region: PRK09414 1041504003323 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1041504003324 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1041504003325 NAD(P) binding site [chemical binding]; other site 1041504003326 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 1041504003327 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1041504003328 phosphofructokinase; Region: PFK_mixed; TIGR02483 1041504003329 active site 1041504003330 ADP/pyrophosphate binding site [chemical binding]; other site 1041504003331 dimerization interface [polypeptide binding]; other site 1041504003332 allosteric effector site; other site 1041504003333 fructose-1,6-bisphosphate binding site; other site 1041504003334 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1041504003335 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 1041504003336 binding surface 1041504003337 TPR repeat; Region: TPR_11; pfam13414 1041504003338 TPR motif; other site 1041504003339 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1041504003340 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1041504003341 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1041504003342 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1041504003343 catalytic triad [active] 1041504003344 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1041504003345 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 1041504003346 active site 1041504003347 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1041504003348 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1041504003349 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1041504003350 NAD binding site [chemical binding]; other site 1041504003351 substrate binding site [chemical binding]; other site 1041504003352 homodimer interface [polypeptide binding]; other site 1041504003353 active site 1041504003354 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1041504003355 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1041504003356 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1041504003357 active site 1041504003358 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1041504003359 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 1041504003360 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1041504003361 Na binding site [ion binding]; other site 1041504003362 putative substrate binding site [chemical binding]; other site 1041504003363 cytosine deaminase; Provisional; Region: PRK09230 1041504003364 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1041504003365 active site 1041504003366 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1041504003367 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 1041504003368 active site 1041504003369 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1041504003370 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1041504003371 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1041504003372 AAA domain; Region: AAA_27; pfam13514 1041504003373 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1041504003374 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1041504003375 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1041504003376 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1041504003377 NodB motif; other site 1041504003378 active site 1041504003379 catalytic site [active] 1041504003380 Zn binding site [ion binding]; other site 1041504003381 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1041504003382 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1041504003383 Glycoprotease family; Region: Peptidase_M22; pfam00814 1041504003384 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1041504003385 Coenzyme A binding pocket [chemical binding]; other site 1041504003386 Predicted membrane protein [Function unknown]; Region: COG3601 1041504003387 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1041504003388 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1041504003389 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1041504003390 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1041504003391 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1041504003392 RNA binding site [nucleotide binding]; other site 1041504003393 peptide chain release factor 2; Provisional; Region: PRK05589 1041504003394 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1041504003395 RF-1 domain; Region: RF-1; pfam00472 1041504003396 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1041504003397 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; cl17251 1041504003398 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1041504003399 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 1041504003400 nucleotide binding region [chemical binding]; other site 1041504003401 ATP-binding site [chemical binding]; other site 1041504003402 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 1041504003403 30S subunit binding site; other site 1041504003404 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1041504003405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1041504003406 active site 1041504003407 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1041504003408 AAA domain; Region: AAA_30; pfam13604 1041504003409 Family description; Region: UvrD_C_2; pfam13538 1041504003410 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1041504003411 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1041504003412 active site 1041504003413 dimer interface [polypeptide binding]; other site 1041504003414 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1041504003415 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1041504003416 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1041504003417 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1041504003418 Stage III sporulation protein D; Region: SpoIIID; pfam12116 1041504003419 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1041504003420 Peptidase family M23; Region: Peptidase_M23; pfam01551 1041504003421 Stage II sporulation protein; Region: SpoIID; pfam08486 1041504003422 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1041504003423 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1041504003424 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 1041504003425 hinge; other site 1041504003426 active site 1041504003427 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1041504003428 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 1041504003429 active site 1041504003430 homodimer interface [polypeptide binding]; other site 1041504003431 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1041504003432 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1041504003433 Mg++ binding site [ion binding]; other site 1041504003434 putative catalytic motif [active] 1041504003435 substrate binding site [chemical binding]; other site 1041504003436 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1041504003437 active site 1041504003438 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1041504003439 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1041504003440 active site 1041504003441 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1041504003442 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1041504003443 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1041504003444 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1041504003445 RF-1 domain; Region: RF-1; pfam00472 1041504003446 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 1041504003447 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1041504003448 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 1041504003449 thymidine kinase; Provisional; Region: PRK04296 1041504003450 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1041504003451 ATP binding site [chemical binding]; other site 1041504003452 Walker A motif; other site 1041504003453 Walker B motif; other site 1041504003454 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1041504003455 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1041504003456 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1041504003457 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 1041504003458 RNA binding site [nucleotide binding]; other site 1041504003459 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1041504003460 Walker A motif; other site 1041504003461 ATP binding site [chemical binding]; other site 1041504003462 Walker B motif; other site 1041504003463 CTP synthetase; Validated; Region: pyrG; PRK05380 1041504003464 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 1041504003465 Catalytic site [active] 1041504003466 active site 1041504003467 UTP binding site [chemical binding]; other site 1041504003468 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1041504003469 active site 1041504003470 putative oxyanion hole; other site 1041504003471 catalytic triad [active] 1041504003472 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1041504003473 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 1041504003474 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 1041504003475 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1041504003476 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1041504003477 Spore germination protein; Region: Spore_permease; cl17796 1041504003478 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1041504003479 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1041504003480 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1041504003481 cyanophycin synthetase; Provisional; Region: PRK14016 1041504003482 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1041504003483 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1041504003484 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1041504003485 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1041504003486 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1041504003487 proposed catalytic triad [active] 1041504003488 active site nucleophile [active] 1041504003489 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1041504003490 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1041504003491 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1041504003492 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1041504003493 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 1041504003494 YabG peptidase U57; Region: Peptidase_U57; cl05250 1041504003495 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 1041504003496 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1041504003497 NAD binding site [chemical binding]; other site 1041504003498 homotetramer interface [polypeptide binding]; other site 1041504003499 homodimer interface [polypeptide binding]; other site 1041504003500 substrate binding site [chemical binding]; other site 1041504003501 active site 1041504003502 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1041504003503 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1041504003504 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1041504003505 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1041504003506 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1041504003507 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1041504003508 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1041504003509 EDD domain protein, DegV family; Region: DegV; TIGR00762 1041504003510 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1041504003511 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1041504003512 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1041504003513 VanW like protein; Region: VanW; pfam04294 1041504003514 G5 domain; Region: G5; pfam07501 1041504003515 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1041504003516 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1041504003517 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1041504003518 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1041504003519 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1041504003520 minor groove reading motif; other site 1041504003521 helix-hairpin-helix signature motif; other site 1041504003522 substrate binding pocket [chemical binding]; other site 1041504003523 active site 1041504003524 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1041504003525 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1041504003526 putative acyl-acceptor binding pocket; other site 1041504003527 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1041504003528 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 1041504003529 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1041504003530 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1041504003531 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 1041504003532 Predicted membrane protein [Function unknown]; Region: COG2323 1041504003533 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 1041504003534 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1041504003535 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1041504003536 intersubunit interface [polypeptide binding]; other site 1041504003537 active site 1041504003538 zinc binding site [ion binding]; other site 1041504003539 Na+ binding site [ion binding]; other site 1041504003540 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 1041504003541 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1041504003542 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1041504003543 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1041504003544 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1041504003545 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1041504003546 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1041504003547 G1 box; other site 1041504003548 GTP/Mg2+ binding site [chemical binding]; other site 1041504003549 Switch I region; other site 1041504003550 G2 box; other site 1041504003551 G3 box; other site 1041504003552 Switch II region; other site 1041504003553 G4 box; other site 1041504003554 G5 box; other site 1041504003555 Nucleoside recognition; Region: Gate; pfam07670 1041504003556 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1041504003557 FeoA domain; Region: FeoA; cl00838 1041504003558 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1041504003559 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1041504003560 metal binding site [ion binding]; metal-binding site 1041504003561 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1041504003562 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1041504003563 active site 1041504003564 Zn binding site [ion binding]; other site 1041504003565 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1041504003566 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1041504003567 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1041504003568 Zn binding site [ion binding]; other site 1041504003569 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1041504003570 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1041504003571 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1041504003572 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1041504003573 ligand binding site [chemical binding]; other site 1041504003574 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1041504003575 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1041504003576 HIGH motif; other site 1041504003577 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1041504003578 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1041504003579 active site 1041504003580 KMSKS motif; other site 1041504003581 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1041504003582 tRNA binding surface [nucleotide binding]; other site 1041504003583 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1041504003584 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1041504003585 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1041504003586 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1041504003587 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 1041504003588 ATP binding site [chemical binding]; other site 1041504003589 putative Mg++ binding site [ion binding]; other site 1041504003590 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 1041504003591 nucleotide binding region [chemical binding]; other site 1041504003592 ATP-binding site [chemical binding]; other site 1041504003593 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1041504003594 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1041504003595 active site 1041504003596 HIGH motif; other site 1041504003597 dimer interface [polypeptide binding]; other site 1041504003598 KMSKS motif; other site 1041504003599 Probable zinc-binding domain; Region: zf-trcl; pfam13451 1041504003600 YfhG lipoprotein; Region: Lipoprotein_20; cl08141 1041504003601 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1041504003602 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1041504003603 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1041504003604 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1041504003605 metal binding site [ion binding]; metal-binding site 1041504003606 active site 1041504003607 I-site; other site 1041504003608 Predicted phosphohydrolase [General function prediction only]; Region: COG1768 1041504003609 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1041504003610 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1041504003611 synthetase active site [active] 1041504003612 NTP binding site [chemical binding]; other site 1041504003613 metal binding site [ion binding]; metal-binding site 1041504003614 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1041504003615 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1041504003616 G1 box; other site 1041504003617 putative GEF interaction site [polypeptide binding]; other site 1041504003618 GTP/Mg2+ binding site [chemical binding]; other site 1041504003619 Switch I region; other site 1041504003620 G2 box; other site 1041504003621 G3 box; other site 1041504003622 Switch II region; other site 1041504003623 G4 box; other site 1041504003624 G5 box; other site 1041504003625 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1041504003626 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 1041504003627 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1041504003628 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1041504003629 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1041504003630 active site 1041504003631 HIGH motif; other site 1041504003632 dimer interface [polypeptide binding]; other site 1041504003633 KMSKS motif; other site 1041504003634 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 1041504003635 RNA binding surface [nucleotide binding]; other site 1041504003636 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 1041504003637 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1041504003638 Putative glucoamylase; Region: Glycoamylase; pfam10091 1041504003639 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 1041504003640 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1041504003641 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1041504003642 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1041504003643 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1041504003644 putative catalytic cysteine [active] 1041504003645 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1041504003646 putative active site [active] 1041504003647 metal binding site [ion binding]; metal-binding site 1041504003648 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 1041504003649 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 1041504003650 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1041504003651 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 1041504003652 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1041504003653 active site 1041504003654 motif I; other site 1041504003655 motif II; other site 1041504003656 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1041504003657 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1041504003658 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1041504003659 active site 1041504003660 substrate binding site [chemical binding]; other site 1041504003661 metal binding site [ion binding]; metal-binding site 1041504003662 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1041504003663 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1041504003664 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 1041504003665 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 1041504003666 TPP-binding site [chemical binding]; other site 1041504003667 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 1041504003668 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1041504003669 dimer interface [polypeptide binding]; other site 1041504003670 PYR/PP interface [polypeptide binding]; other site 1041504003671 TPP binding site [chemical binding]; other site 1041504003672 substrate binding site [chemical binding]; other site 1041504003673 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1041504003674 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1041504003675 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1041504003676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1041504003677 YbbR-like protein; Region: YbbR; pfam07949 1041504003678 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1041504003679 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1041504003680 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 1041504003681 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1041504003682 catalytic residues [active] 1041504003683 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1041504003684 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1041504003685 active site 1041504003686 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1041504003687 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1041504003688 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1041504003689 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1041504003690 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 1041504003691 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1041504003692 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1041504003693 active site 1041504003694 metal binding site [ion binding]; metal-binding site 1041504003695 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1041504003696 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 1041504003697 23S rRNA interface [nucleotide binding]; other site 1041504003698 L3 interface [polypeptide binding]; other site 1041504003699 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1041504003700 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1041504003701 dimerization interface 3.5A [polypeptide binding]; other site 1041504003702 active site 1041504003703 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1041504003704 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 1041504003705 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1041504003706 Walker A/P-loop; other site 1041504003707 ATP binding site [chemical binding]; other site 1041504003708 Q-loop/lid; other site 1041504003709 ABC transporter signature motif; other site 1041504003710 Walker B; other site 1041504003711 D-loop; other site 1041504003712 H-loop/switch region; other site 1041504003713 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 1041504003714 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1041504003715 Walker A/P-loop; other site 1041504003716 ATP binding site [chemical binding]; other site 1041504003717 Q-loop/lid; other site 1041504003718 ABC transporter signature motif; other site 1041504003719 Walker B; other site 1041504003720 D-loop; other site 1041504003721 H-loop/switch region; other site 1041504003722 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1041504003723 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1041504003724 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1041504003725 alphaNTD homodimer interface [polypeptide binding]; other site 1041504003726 alphaNTD - beta interaction site [polypeptide binding]; other site 1041504003727 alphaNTD - beta' interaction site [polypeptide binding]; other site 1041504003728 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1041504003729 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1041504003730 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1041504003731 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 1041504003732 RNA binding surface [nucleotide binding]; other site 1041504003733 30S ribosomal protein S11; Validated; Region: PRK05309 1041504003734 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1041504003735 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1041504003736 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1041504003737 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 1041504003738 rRNA binding site [nucleotide binding]; other site 1041504003739 predicted 30S ribosome binding site; other site 1041504003740 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 1041504003741 active site 1041504003742 adenylate kinase; Reviewed; Region: adk; PRK00279 1041504003743 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 1041504003744 AMP-binding site [chemical binding]; other site 1041504003745 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1041504003746 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1041504003747 SecY translocase; Region: SecY; pfam00344 1041504003748 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1041504003749 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 1041504003750 23S rRNA binding site [nucleotide binding]; other site 1041504003751 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1041504003752 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1041504003753 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1041504003754 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 1041504003755 23S rRNA interface [nucleotide binding]; other site 1041504003756 5S rRNA interface [nucleotide binding]; other site 1041504003757 L27 interface [polypeptide binding]; other site 1041504003758 L5 interface [polypeptide binding]; other site 1041504003759 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1041504003760 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1041504003761 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1041504003762 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1041504003763 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1041504003764 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1041504003765 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1041504003766 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1041504003767 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1041504003768 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1041504003769 RNA binding site [nucleotide binding]; other site 1041504003770 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1041504003771 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1041504003772 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 1041504003773 23S rRNA interface [nucleotide binding]; other site 1041504003774 putative translocon interaction site; other site 1041504003775 signal recognition particle (SRP54) interaction site; other site 1041504003776 L23 interface [polypeptide binding]; other site 1041504003777 trigger factor interaction site; other site 1041504003778 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 1041504003779 23S rRNA interface [nucleotide binding]; other site 1041504003780 5S rRNA interface [nucleotide binding]; other site 1041504003781 putative antibiotic binding site [chemical binding]; other site 1041504003782 L25 interface [polypeptide binding]; other site 1041504003783 L27 interface [polypeptide binding]; other site 1041504003784 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1041504003785 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 1041504003786 G-X-X-G motif; other site 1041504003787 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1041504003788 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 1041504003789 putative translocon binding site; other site 1041504003790 protein-rRNA interface [nucleotide binding]; other site 1041504003791 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1041504003792 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1041504003793 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1041504003794 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1041504003795 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1041504003796 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1041504003797 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1041504003798 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1041504003799 elongation factor Tu; Reviewed; Region: PRK00049 1041504003800 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1041504003801 G1 box; other site 1041504003802 GEF interaction site [polypeptide binding]; other site 1041504003803 GTP/Mg2+ binding site [chemical binding]; other site 1041504003804 Switch I region; other site 1041504003805 G2 box; other site 1041504003806 G3 box; other site 1041504003807 Switch II region; other site 1041504003808 G4 box; other site 1041504003809 G5 box; other site 1041504003810 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 1041504003811 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 1041504003812 Antibiotic Binding Site [chemical binding]; other site 1041504003813 elongation factor G; Reviewed; Region: PRK00007 1041504003814 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1041504003815 G1 box; other site 1041504003816 putative GEF interaction site [polypeptide binding]; other site 1041504003817 GTP/Mg2+ binding site [chemical binding]; other site 1041504003818 Switch I region; other site 1041504003819 G2 box; other site 1041504003820 G3 box; other site 1041504003821 Switch II region; other site 1041504003822 G4 box; other site 1041504003823 G5 box; other site 1041504003824 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 1041504003825 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 1041504003826 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 1041504003827 30S ribosomal protein S7; Validated; Region: PRK05302 1041504003828 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 1041504003829 S17 interaction site [polypeptide binding]; other site 1041504003830 S8 interaction site; other site 1041504003831 16S rRNA interaction site [nucleotide binding]; other site 1041504003832 streptomycin interaction site [chemical binding]; other site 1041504003833 23S rRNA interaction site [nucleotide binding]; other site 1041504003834 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1041504003835 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1041504003836 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1041504003837 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1041504003838 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1041504003839 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1041504003840 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1041504003841 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1041504003842 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1041504003843 G-loop; other site 1041504003844 DNA binding site [nucleotide binding] 1041504003845 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 1041504003846 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1041504003847 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 1041504003848 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1041504003849 RPB1 interaction site [polypeptide binding]; other site 1041504003850 RPB10 interaction site [polypeptide binding]; other site 1041504003851 RPB11 interaction site [polypeptide binding]; other site 1041504003852 RPB3 interaction site [polypeptide binding]; other site 1041504003853 RPB12 interaction site [polypeptide binding]; other site 1041504003854 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 1041504003855 core dimer interface [polypeptide binding]; other site 1041504003856 peripheral dimer interface [polypeptide binding]; other site 1041504003857 L10 interface [polypeptide binding]; other site 1041504003858 L11 interface [polypeptide binding]; other site 1041504003859 putative EF-Tu interaction site [polypeptide binding]; other site 1041504003860 putative EF-G interaction site [polypeptide binding]; other site 1041504003861 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 1041504003862 23S rRNA interface [nucleotide binding]; other site 1041504003863 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1041504003864 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 1041504003865 mRNA/rRNA interface [nucleotide binding]; other site 1041504003866 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1041504003867 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 1041504003868 23S rRNA interface [nucleotide binding]; other site 1041504003869 L7/L12 interface [polypeptide binding]; other site 1041504003870 putative thiostrepton binding site; other site 1041504003871 L25 interface [polypeptide binding]; other site 1041504003872 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1041504003873 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1041504003874 putative homodimer interface [polypeptide binding]; other site 1041504003875 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1041504003876 heterodimer interface [polypeptide binding]; other site 1041504003877 homodimer interface [polypeptide binding]; other site 1041504003878 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1041504003879 elongation factor Tu; Reviewed; Region: PRK00049 1041504003880 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1041504003881 G1 box; other site 1041504003882 GEF interaction site [polypeptide binding]; other site 1041504003883 GTP/Mg2+ binding site [chemical binding]; other site 1041504003884 Switch I region; other site 1041504003885 G2 box; other site 1041504003886 G3 box; other site 1041504003887 Switch II region; other site 1041504003888 G4 box; other site 1041504003889 G5 box; other site 1041504003890 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 1041504003891 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 1041504003892 Antibiotic Binding Site [chemical binding]; other site 1041504003893 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1041504003894 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1041504003895 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 1041504003896 DNA binding residues [nucleotide binding] 1041504003897 YacP-like NYN domain; Region: NYN_YacP; pfam05991 1041504003898 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1041504003899 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1041504003900 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1041504003901 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; cl00258 1041504003902 active site 1041504003903 metal binding site [ion binding]; metal-binding site 1041504003904 dimerization interface [polypeptide binding]; other site 1041504003905 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1041504003906 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1041504003907 active site 1041504003908 HIGH motif; other site 1041504003909 nucleotide binding site [chemical binding]; other site 1041504003910 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1041504003911 active site 1041504003912 KMSKS motif; other site 1041504003913 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1041504003914 tRNA binding surface [nucleotide binding]; other site 1041504003915 anticodon binding site; other site 1041504003916 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1041504003917 substrate binding site; other site 1041504003918 dimer interface; other site 1041504003919 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1041504003920 Clp amino terminal domain; Region: Clp_N; pfam02861 1041504003921 Clp amino terminal domain; Region: Clp_N; pfam02861 1041504003922 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 1041504003923 Walker A motif; other site 1041504003924 ATP binding site [chemical binding]; other site 1041504003925 Walker B motif; other site 1041504003926 arginine finger; other site 1041504003927 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 1041504003928 Walker A motif; other site 1041504003929 ATP binding site [chemical binding]; other site 1041504003930 Walker B motif; other site 1041504003931 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1041504003932 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 1041504003933 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 1041504003934 ADP binding site [chemical binding]; other site 1041504003935 phosphagen binding site; other site 1041504003936 substrate specificity loop; other site 1041504003937 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1041504003938 UvrB/uvrC motif; Region: UVR; pfam02151 1041504003939 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1041504003940 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1041504003941 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 1041504003942 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 1041504003943 DNA polymerase III subunit delta'; Validated; Region: PRK08058 1041504003944 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 1041504003945 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 1041504003946 TMP-binding site; other site 1041504003947 ATP-binding site [chemical binding]; other site 1041504003948 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1041504003949 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1041504003950 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1041504003951 catalytic residue [active] 1041504003952 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1041504003953 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1041504003954 Cl binding site [ion binding]; other site 1041504003955 oligomer interface [polypeptide binding]; other site 1041504003956 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1041504003957 dimer interface [polypeptide binding]; other site 1041504003958 catalytic triad [active] 1041504003959 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 1041504003960 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1041504003961 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1041504003962 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1041504003963 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1041504003964 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 1041504003965 motif 1; other site 1041504003966 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1041504003967 active site 1041504003968 motif 2; other site 1041504003969 motif 3; other site 1041504003970 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 1041504003971 anticodon binding site; other site 1041504003972 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 1041504003973 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 1041504003974 Walker A motif; other site 1041504003975 ATP binding site [chemical binding]; other site 1041504003976 Walker B motif; other site 1041504003977 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1041504003978 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1041504003979 substrate binding site [chemical binding]; other site 1041504003980 dimer interface [polypeptide binding]; other site 1041504003981 ATP binding site [chemical binding]; other site 1041504003982 D-ribose pyranase; Provisional; Region: PRK11797 1041504003983 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1041504003984 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1041504003985 Walker A/P-loop; other site 1041504003986 ATP binding site [chemical binding]; other site 1041504003987 Q-loop/lid; other site 1041504003988 ABC transporter signature motif; other site 1041504003989 Walker B; other site 1041504003990 D-loop; other site 1041504003991 H-loop/switch region; other site 1041504003992 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1041504003993 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1041504003994 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1041504003995 TM-ABC transporter signature motif; other site 1041504003996 potential protein location (hypothetical protein) that overlaps protein (ribose ABC transporter) 1041504003997 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1041504003998 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1041504003999 ligand binding site [chemical binding]; other site 1041504004000 dimerization interface [polypeptide binding]; other site 1041504004001 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504004002 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1041504004003 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1041504004004 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1041504004005 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1041504004006 dimer interface [polypeptide binding]; other site 1041504004007 putative anticodon binding site; other site 1041504004008 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1041504004009 motif 1; other site 1041504004010 active site 1041504004011 motif 2; other site 1041504004012 motif 3; other site 1041504004013 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1041504004014 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1041504004015 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1041504004016 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1041504004017 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 1041504004018 FMN binding site [chemical binding]; other site 1041504004019 active site 1041504004020 catalytic residues [active] 1041504004021 substrate binding site [chemical binding]; other site 1041504004022 FtsH Extracellular; Region: FtsH_ext; pfam06480 1041504004023 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1041504004024 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 1041504004025 Walker A motif; other site 1041504004026 ATP binding site [chemical binding]; other site 1041504004027 Walker B motif; other site 1041504004028 arginine finger; other site 1041504004029 Peptidase family M41; Region: Peptidase_M41; pfam01434 1041504004030 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1041504004031 active site 1041504004032 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1041504004033 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 1041504004034 Ligand Binding Site [chemical binding]; other site 1041504004035 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1041504004036 stage II sporulation protein E; Region: spore_II_E; TIGR02865 1041504004037 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1041504004038 hypothetical protein; Provisional; Region: PRK05807 1041504004039 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 1041504004040 RNA binding site [nucleotide binding]; other site 1041504004041 Septum formation initiator; Region: DivIC; cl17659 1041504004042 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 1041504004043 YabP family; Region: YabP; cl06766 1041504004044 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 1041504004045 RNA binding surface [nucleotide binding]; other site 1041504004046 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 1041504004047 IHF dimer interface [polypeptide binding]; other site 1041504004048 IHF - DNA interface [nucleotide binding]; other site 1041504004049 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1041504004050 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1041504004051 stage V sporulation protein T; Region: spore_V_T; TIGR02851 1041504004052 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1041504004053 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1041504004054 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1041504004055 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1041504004056 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1041504004057 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 1041504004058 putative active site [active] 1041504004059 catalytic residue [active] 1041504004060 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1041504004061 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1041504004062 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1041504004063 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 1041504004064 dimerization interface [polypeptide binding]; other site 1041504004065 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 1041504004066 dimer interface [polypeptide binding]; other site 1041504004067 phosphorylation site [posttranslational modification] 1041504004068 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 1041504004069 ATP binding site [chemical binding]; other site 1041504004070 Mg2+ binding site [ion binding]; other site 1041504004071 G-X-G motif; other site 1041504004072 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1041504004073 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 1041504004074 active site 1041504004075 phosphorylation site [posttranslational modification] 1041504004076 intermolecular recognition site; other site 1041504004077 dimerization interface [polypeptide binding]; other site 1041504004078 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 1041504004079 DNA binding site [nucleotide binding] 1041504004080 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1041504004081 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1041504004082 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1041504004083 active site 1041504004084 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1041504004085 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1041504004086 Substrate binding site; other site 1041504004087 Mg++ binding site; other site 1041504004088 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1041504004089 active site 1041504004090 substrate binding site [chemical binding]; other site 1041504004091 CoA binding site [chemical binding]; other site 1041504004092 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1041504004093 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1041504004094 putative dimer interface [polypeptide binding]; other site 1041504004095 putative anticodon binding site; other site 1041504004096 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1041504004097 homodimer interface [polypeptide binding]; other site 1041504004098 motif 1; other site 1041504004099 motif 2; other site 1041504004100 active site 1041504004101 motif 3; other site 1041504004102 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 1041504004103 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1041504004104 active site 1041504004105 metal binding site [ion binding]; metal-binding site 1041504004106 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1041504004107 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1041504004108 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1041504004109 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1041504004110 regulatory protein SpoVG; Reviewed; Region: PRK13259 1041504004111 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1041504004112 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 1041504004113 interface (dimer of trimers) [polypeptide binding]; other site 1041504004114 Substrate-binding/catalytic site; other site 1041504004115 Zn-binding sites [ion binding]; other site 1041504004116 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1041504004117 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1041504004118 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1041504004119 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 1041504004120 S-adenosylmethionine binding site [chemical binding]; other site 1041504004121 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1041504004122 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 1041504004123 active site 1041504004124 metal binding site [ion binding]; metal-binding site 1041504004125 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1041504004126 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1041504004127 G5 domain; Region: G5; pfam07501 1041504004128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1041504004129 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1041504004130 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1041504004131 active site 1041504004132 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1041504004133 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1041504004134 PYR/PP interface [polypeptide binding]; other site 1041504004135 dimer interface [polypeptide binding]; other site 1041504004136 TPP binding site [chemical binding]; other site 1041504004137 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1041504004138 transketolase; Reviewed; Region: PRK05899 1041504004139 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1041504004140 TPP-binding site [chemical binding]; other site 1041504004141 dimer interface [polypeptide binding]; other site 1041504004142 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1041504004143 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1041504004144 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1041504004145 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1041504004146 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 1041504004147 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1041504004148 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1041504004149 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1041504004150 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1041504004151 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1041504004152 hypothetical protein; Provisional; Region: PRK13661 1041504004153 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1041504004154 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1041504004155 Walker A/P-loop; other site 1041504004156 ATP binding site [chemical binding]; other site 1041504004157 Q-loop/lid; other site 1041504004158 ABC transporter signature motif; other site 1041504004159 Walker B; other site 1041504004160 D-loop; other site 1041504004161 H-loop/switch region; other site 1041504004162 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1041504004163 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1041504004164 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1041504004165 Walker A/P-loop; other site 1041504004166 ATP binding site [chemical binding]; other site 1041504004167 Q-loop/lid; other site 1041504004168 ABC transporter signature motif; other site 1041504004169 Walker B; other site 1041504004170 D-loop; other site 1041504004171 H-loop/switch region; other site 1041504004172 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1041504004173 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1041504004174 Sulfatase; Region: Sulfatase; cl17466 1041504004175 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1041504004176 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1041504004177 active site 1041504004178 HIGH motif; other site 1041504004179 KMSKS motif; other site 1041504004180 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1041504004181 tRNA binding surface [nucleotide binding]; other site 1041504004182 anticodon binding site; other site 1041504004183 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1041504004184 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1041504004185 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1041504004186 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 1041504004187 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 1041504004188 Walker A motif; other site 1041504004189 ATP binding site [chemical binding]; other site 1041504004190 Walker B motif; other site 1041504004191 arginine finger; other site 1041504004192 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1041504004193 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1041504004194 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 1041504004195 non-specific DNA binding site [nucleotide binding]; other site 1041504004196 salt bridge; other site 1041504004197 sequence-specific DNA binding site [nucleotide binding]; other site 1041504004198 Cupin domain; Region: Cupin_2; pfam07883 1041504004199 replicative DNA helicase; Region: DnaB; TIGR00665 1041504004200 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1041504004201 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 1041504004202 Walker A motif; other site 1041504004203 ATP binding site [chemical binding]; other site 1041504004204 Walker B motif; other site 1041504004205 DNA binding loops [nucleotide binding] 1041504004206 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 1041504004207 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 1041504004208 hypothetical protein; Provisional; Region: PRK05590 1041504004209 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1041504004210 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1041504004211 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 1041504004212 hinge; other site 1041504004213 active site 1041504004214 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1041504004215 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1041504004216 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1041504004217 active site 1041504004218 catalytic residues [active] 1041504004219 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1041504004220 Peptidase family M23; Region: Peptidase_M23; pfam01551 1041504004221 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1041504004222 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1041504004223 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1041504004224 DNA replication protein DnaC; Validated; Region: PRK06835 1041504004225 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 1041504004226 Walker A motif; other site 1041504004227 ATP binding site [chemical binding]; other site 1041504004228 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1041504004229 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1041504004230 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 1041504004231 dimer interface [polypeptide binding]; other site 1041504004232 ssDNA binding site [nucleotide binding]; other site 1041504004233 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1041504004234 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 1041504004235 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1041504004236 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1041504004237 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1041504004238 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1041504004239 catalytic residue [active] 1041504004240 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1041504004241 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 1041504004242 P-loop; other site 1041504004243 Magnesium ion binding site [ion binding]; other site 1041504004244 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 1041504004245 Magnesium ion binding site [ion binding]; other site 1041504004246 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1041504004247 ParB-like nuclease domain; Region: ParB; smart00470 1041504004248 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 1041504004249 amidase catalytic site [active] 1041504004250 Zn binding residues [ion binding]; other site 1041504004251 substrate binding site [chemical binding]; other site 1041504004252 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1041504004253 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1041504004254 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1041504004255 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1041504004256 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1041504004257 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1041504004258 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1041504004259 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1041504004260 G1 box; other site 1041504004261 GTP/Mg2+ binding site [chemical binding]; other site 1041504004262 Switch I region; other site 1041504004263 G2 box; other site 1041504004264 Switch II region; other site 1041504004265 G3 box; other site 1041504004266 G4 box; other site 1041504004267 G5 box; other site 1041504004268 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1041504004269 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1041504004270 Haemolytic domain; Region: Haemolytic; pfam01809 1041504004271 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1041504004272 Ribosomal protein L34; Region: Ribosomal_L34; cl00370