-- dump date 20120504_140708 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1029718000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1029718000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1029718000003 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 1029718000004 Walker A motif; other site 1029718000005 ATP binding site [chemical binding]; other site 1029718000006 Walker B motif; other site 1029718000007 arginine finger; other site 1029718000008 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 1029718000009 DnaA box-binding interface [nucleotide binding]; other site 1029718000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1029718000011 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 1029718000012 putative DNA binding surface [nucleotide binding]; other site 1029718000013 dimer interface [polypeptide binding]; other site 1029718000014 beta-clamp/clamp loader binding surface; other site 1029718000015 beta-clamp/translesion DNA polymerase binding surface; other site 1029718000016 recombination protein F; Reviewed; Region: recF; PRK00064 1029718000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000018 Walker A/P-loop; other site 1029718000019 ATP binding site [chemical binding]; other site 1029718000020 Q-loop/lid; other site 1029718000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000022 ABC transporter signature motif; other site 1029718000023 Walker B; other site 1029718000024 D-loop; other site 1029718000025 H-loop/switch region; other site 1029718000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1029718000027 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 1029718000028 ATP binding site [chemical binding]; other site 1029718000029 Mg2+ binding site [ion binding]; other site 1029718000030 G-X-G motif; other site 1029718000031 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 1029718000032 anchoring element; other site 1029718000033 dimer interface [polypeptide binding]; other site 1029718000034 ATP binding site [chemical binding]; other site 1029718000035 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 1029718000036 active site 1029718000037 putative metal-binding site [ion binding]; other site 1029718000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1029718000039 DNA gyrase subunit A; Validated; Region: PRK05560 1029718000040 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 in DNA...; Region: TOP4c; cd00187 1029718000041 CAP-like domain; other site 1029718000042 active site 1029718000043 primary dimer interface [polypeptide binding]; other site 1029718000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029718000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029718000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029718000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029718000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1029718000049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1029718000050 seryl-tRNA synthetase; Provisional; Region: PRK05431 1029718000051 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1029718000052 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 bound...; Region: SerRS_core; cd00770 1029718000053 dimer interface [polypeptide binding]; other site 1029718000054 active site 1029718000055 motif 1; other site 1029718000056 motif 2; other site 1029718000057 motif 3; other site 1029718000058 tRNA, pseudo 1029718000059 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1029718000060 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1029718000061 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1029718000062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000063 Family description; Region: UvrD_C_2; cl15862 1029718000064 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1029718000065 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1029718000066 active site 1029718000067 NTP binding site [chemical binding]; other site 1029718000068 metal binding triad [ion binding]; metal-binding site 1029718000069 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1029718000070 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1029718000071 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 inactive in...; Region: YhaM_OBF_like; cd04492 1029718000072 generic binding surface II; other site 1029718000073 generic binding surface I; other site 1029718000074 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1029718000075 Helix-turn-helix domains; Region: HTH; cl00088 1029718000076 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 1029718000077 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 1029718000078 dimer interface [polypeptide binding]; other site 1029718000079 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029718000080 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1029718000081 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1029718000082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718000083 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1029718000084 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1029718000085 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1029718000086 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1029718000087 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1029718000088 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 1029718000089 ATP binding site [chemical binding]; other site 1029718000090 putative Mg++ binding site [ion binding]; other site 1029718000091 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1029718000092 Chromate transporter; Region: Chromate_transp; pfam02417 1029718000093 Chromate transporter; Region: Chromate_transp; pfam02417 1029718000094 DHHW protein; Region: DHHW; pfam14286 1029718000095 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1029718000096 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 1029718000097 prolyl-tRNA synthetase; Provisional; Region: PRK08661 1029718000098 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 formation of...; Region: ProRS_core_arch_euk; cd00778 1029718000099 dimer interface [polypeptide binding]; other site 1029718000100 motif 1; other site 1029718000101 active site 1029718000102 motif 2; other site 1029718000103 motif 3; other site 1029718000104 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 1029718000105 anticodon binding site; other site 1029718000106 zinc-binding site [ion binding]; other site 1029718000107 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1029718000108 Domain of unknown function DUF21; Region: DUF21; pfam01595 1029718000109 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 1029718000110 Transporter associated domain; Region: CorC_HlyC; cl08393 1029718000111 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 1029718000112 nucleoside/Zn binding site; other site 1029718000113 dimer interface [polypeptide binding]; other site 1029718000114 catalytic motif [active] 1029718000115 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1029718000116 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 1029718000117 Walker A motif; other site 1029718000118 ATP binding site [chemical binding]; other site 1029718000119 Walker B motif; other site 1029718000120 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 1029718000121 recombination protein RecR; Reviewed; Region: recR; PRK00076 1029718000122 RecR protein; Region: RecR; pfam02132 1029718000123 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 1029718000124 putative active site [active] 1029718000125 putative metal-binding site [ion binding]; other site 1029718000126 tetramer interface [polypeptide binding]; other site 1029718000127 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 1029718000128 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 1029718000129 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1029718000130 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 1029718000131 putative ATP binding site [chemical binding]; other site 1029718000132 putative substrate interface [chemical binding]; other site 1029718000133 methicillin resistance protein, pseudogene 1029718000134 Predicted methyltransferases [General function prediction only]; Region: COG0313 1029718000135 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1029718000136 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1029718000137 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1029718000138 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1029718000139 OpgC protein; Region: OpgC_C; cl00792 1029718000140 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029718000141 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 1029718000142 putative ADP-binding pocket [chemical binding]; other site 1029718000143 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029718000144 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 1029718000145 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 1029718000146 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718000147 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1029718000148 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1029718000149 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029718000150 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 1029718000151 putative ADP-binding pocket [chemical binding]; other site 1029718000152 Bacterial sugar transferase; Region: Bac_transf; cl00939 1029718000153 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1029718000154 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1029718000155 Substrate binding site; other site 1029718000156 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1029718000157 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 1029718000158 active site 1029718000159 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1029718000160 active site 1029718000161 tetramer interface; other site 1029718000162 Isochorismatase family; Region: Isochorismatase; pfam00857 1029718000163 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 1029718000164 catalytic triad [active] 1029718000165 conserved cis-peptide bond; other site 1029718000166 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 1029718000167 dimer interface [polypeptide binding]; other site 1029718000168 ssDNA binding site [nucleotide binding]; other site 1029718000169 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1029718000170 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1029718000171 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1029718000172 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1029718000173 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1029718000174 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1029718000175 alanine racemase; Reviewed; Region: alr; PRK00053 1029718000176 active site 1029718000177 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1029718000178 dimer interface [polypeptide binding]; other site 1029718000179 substrate binding site [chemical binding]; other site 1029718000180 catalytic residues [active] 1029718000181 PemK-like protein; Region: PemK; cl00995 1029718000182 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 1029718000183 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 1029718000184 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 1029718000185 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1029718000186 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000187 Walker A/P-loop; other site 1029718000188 ATP binding site [chemical binding]; other site 1029718000189 Q-loop/lid; other site 1029718000190 ABC transporter signature motif; other site 1029718000191 Walker B; other site 1029718000192 D-loop; other site 1029718000193 H-loop/switch region; other site 1029718000194 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1029718000195 FtsX-like permease family; Region: FtsX; cl15850 1029718000196 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1029718000197 C-terminal peptidase (prc); Region: prc; TIGR00225 1029718000198 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 1029718000199 protein binding site [polypeptide binding]; other site 1029718000200 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1029718000201 Catalytic dyad [active] 1029718000202 excinuclease ABC subunit B; Provisional; Region: PRK05298 1029718000203 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 1029718000204 ATP binding site [chemical binding]; other site 1029718000205 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 1029718000206 nucleotide binding region [chemical binding]; other site 1029718000207 ATP-binding site [chemical binding]; other site 1029718000208 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1029718000209 UvrB/uvrC motif; Region: UVR; pfam02151 1029718000210 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1029718000211 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 1029718000212 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 1029718000213 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 1029718000214 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1029718000215 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1029718000216 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1029718000217 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718000218 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1029718000219 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1029718000220 GIY-YIG motif/motif A; other site 1029718000221 active site 1029718000222 catalytic site [active] 1029718000223 putative DNA binding site [nucleotide binding]; other site 1029718000224 metal binding site [ion binding]; metal-binding site 1029718000225 UvrB/uvrC motif; Region: UVR; pfam02151 1029718000226 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1029718000227 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1029718000228 FAD binding domain; Region: FAD_binding_4; pfam01565 1029718000229 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1029718000230 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 1029718000231 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 1029718000232 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1029718000233 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 1029718000234 putative substrate binding pocket [chemical binding]; other site 1029718000235 dimer interface [polypeptide binding]; other site 1029718000236 phosphate binding site [ion binding]; other site 1029718000237 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 1029718000238 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 1029718000239 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 1029718000240 active site 1029718000241 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1029718000242 dimer interface [polypeptide binding]; other site 1029718000243 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 1029718000244 Ligand Binding Site [chemical binding]; other site 1029718000245 Molecular Tunnel; other site 1029718000246 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 1029718000247 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1029718000248 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 1029718000249 generic binding surface II; other site 1029718000250 generic binding surface I; other site 1029718000251 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 1029718000252 active site 1029718000253 ADP/pyrophosphate binding site [chemical binding]; other site 1029718000254 dimerization interface [polypeptide binding]; other site 1029718000255 allosteric effector site; other site 1029718000256 fructose-1,6-bisphosphate binding site; other site 1029718000257 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; cl09155 1029718000258 pyruvate kinase; Provisional; Region: PRK05826 1029718000259 domain interfaces; other site 1029718000260 active site 1029718000261 TRAM domain; Region: TRAM; cl01282 1029718000262 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1029718000263 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; cl15754 1029718000264 prophage SFBMP1 1029718000265 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1029718000266 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1029718000267 Int/Topo IB signature motif; other site 1029718000268 Predicted ATPases [General function prediction only]; Region: COG1106 1029718000269 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000270 Walker A/P-loop; other site 1029718000271 ATP binding site [chemical binding]; other site 1029718000272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000273 ABC transporter signature motif; other site 1029718000274 Walker B; other site 1029718000275 D-loop; other site 1029718000276 H-loop/switch region; other site 1029718000277 LexA repressor, partial, pseudogene 1029718000278 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 1029718000279 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 1029718000280 non-specific DNA binding site [nucleotide binding]; other site 1029718000281 salt bridge; other site 1029718000282 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1029718000283 sequence-specific DNA binding site [nucleotide binding]; other site 1029718000284 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1029718000285 Catalytic site [active] 1029718000286 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 1029718000287 non-specific DNA binding site [nucleotide binding]; other site 1029718000288 salt bridge; other site 1029718000289 sequence-specific DNA binding site [nucleotide binding]; other site 1029718000290 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 1029718000291 non-specific DNA binding site [nucleotide binding]; other site 1029718000292 salt bridge; other site 1029718000293 sequence-specific DNA binding site [nucleotide binding]; other site 1029718000294 BRO family, N-terminal domain; Region: Bro-N; cl10591 1029718000295 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 1029718000296 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 1029718000297 non-specific DNA binding site [nucleotide binding]; other site 1029718000298 salt bridge; other site 1029718000299 sequence-specific DNA binding site [nucleotide binding]; other site 1029718000300 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 1029718000301 non-specific DNA binding site [nucleotide binding]; other site 1029718000302 salt bridge; other site 1029718000303 sequence-specific DNA binding site [nucleotide binding]; other site 1029718000304 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1029718000305 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 1029718000306 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1029718000307 active site 1029718000308 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 1029718000309 active site 1029718000310 DNA binding site [nucleotide binding] 1029718000311 catalytic site [active] 1029718000312 virulence-associated E family protein, pseudogene 1029718000313 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1029718000314 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1029718000315 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 1029718000316 ATP binding site [chemical binding]; other site 1029718000317 putative Mg++ binding site [ion binding]; other site 1029718000318 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 1029718000319 nucleotide binding region [chemical binding]; other site 1029718000320 ATP-binding site [chemical binding]; other site 1029718000321 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 1029718000322 salt bridge; other site 1029718000323 non-specific DNA binding site [nucleotide binding]; other site 1029718000324 sequence-specific DNA binding site [nucleotide binding]; other site 1029718000325 Short C-terminal domain; Region: SHOCT; cl01373 1029718000326 Terminase small subunit; Region: Terminase_2; cl01513 1029718000327 Phage terminase large subunit; Region: Terminase_3; cl12054 1029718000328 Terminase-like family; Region: Terminase_6; pfam03237 1029718000329 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1029718000330 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 1029718000331 salt bridge; other site 1029718000332 non-specific DNA binding site [nucleotide binding]; other site 1029718000333 sequence-specific DNA binding site [nucleotide binding]; other site 1029718000334 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1029718000335 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1029718000336 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 1029718000337 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1029718000338 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 1029718000339 active site 1029718000340 conformational flexibility of ligand binding pocket; other site 1029718000341 ADP-ribosylating toxin turn-turn motif; other site 1029718000342 YjcQ protein; Region: YjcQ; pfam09639 1029718000343 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 1029718000344 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1029718000345 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1029718000346 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 1029718000347 Phage XkdN-like protein; Region: XkdN; pfam08890 1029718000348 Phage-related minor tail protein [Function unknown]; Region: COG5281 1029718000349 tape measure domain; Region: tape_meas_nterm; TIGR02675 1029718000350 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 1029718000351 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 1029718000352 Baseplate J-like protein; Region: Baseplate_J; cl01294 1029718000353 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 1029718000354 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 1029718000355 aconitate hydratase; Validated; Region: PRK09277 1029718000356 Holin family; Region: Phage_holin_4; cl01989 1029718000357 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 1029718000358 amidase catalytic site [active] 1029718000359 Zn binding residues [ion binding]; other site 1029718000360 substrate binding site [chemical binding]; other site 1029718000361 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718000362 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1029718000363 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 1029718000364 salt bridge; other site 1029718000365 non-specific DNA binding site [nucleotide binding]; other site 1029718000366 sequence-specific DNA binding site [nucleotide binding]; other site 1029718000367 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1029718000368 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718000369 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1029718000370 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 1029718000371 Catalytic site [active] 1029718000372 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1029718000373 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000374 Family description; Region: UvrD_C_2; cl15862 1029718000375 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1029718000376 Cation efflux family; Region: Cation_efflux; cl00316 1029718000377 aspartate kinase; Reviewed; Region: PRK06635 1029718000378 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1029718000379 putative nucleotide binding site [chemical binding]; other site 1029718000380 putative catalytic residues [active] 1029718000381 putative Mg ion binding site [ion binding]; other site 1029718000382 putative aspartate binding site [chemical binding]; other site 1029718000383 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 1029718000384 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 1029718000385 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1029718000386 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1029718000387 active site 1029718000388 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1029718000389 substrate binding site [chemical binding]; other site 1029718000390 catalytic residues [active] 1029718000391 dimer interface [polypeptide binding]; other site 1029718000392 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1029718000393 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1029718000394 active site 1029718000395 metal binding site [ion binding]; metal-binding site 1029718000396 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 1029718000397 homotrimer interaction site [polypeptide binding]; other site 1029718000398 zinc binding site [ion binding]; other site 1029718000399 CDP-binding sites; other site 1029718000400 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1029718000401 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 1029718000402 RNA binding surface [nucleotide binding]; other site 1029718000403 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 1029718000404 probable active site [active] 1029718000405 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1029718000406 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1029718000407 arsenate reductase, partial, pseudogene 1029718000408 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1029718000409 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1029718000410 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1029718000411 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1029718000412 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1029718000413 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1029718000414 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1029718000415 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1029718000416 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1029718000417 Walker A/P-loop; other site 1029718000418 ATP binding site [chemical binding]; other site 1029718000419 Q-loop/lid; other site 1029718000420 ABC transporter signature motif; other site 1029718000421 Walker B; other site 1029718000422 D-loop; other site 1029718000423 H-loop/switch region; other site 1029718000424 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1029718000425 FtsX-like permease family; Region: FtsX; cl15850 1029718000426 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1029718000427 Sulfatase; Region: Sulfatase; cl10460 1029718000428 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 1029718000429 active site 1029718000430 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1029718000431 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1029718000432 Walker A/P-loop; other site 1029718000433 ATP binding site [chemical binding]; other site 1029718000434 Q-loop/lid; other site 1029718000435 ABC transporter signature motif; other site 1029718000436 Walker B; other site 1029718000437 D-loop; other site 1029718000438 H-loop/switch region; other site 1029718000439 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 1029718000440 dimer interface [polypeptide binding]; other site 1029718000441 conserved gate region; other site 1029718000442 putative PBP binding loops; other site 1029718000443 ABC-ATPase subunit interface; other site 1029718000444 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1029718000445 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 1029718000446 substrate binding pocket [chemical binding]; other site 1029718000447 membrane-bound complex binding site; other site 1029718000448 hinge residues; other site 1029718000449 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1029718000450 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1029718000451 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1029718000452 putative active site [active] 1029718000453 catalytic site [active] 1029718000454 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1029718000455 putative active site [active] 1029718000456 catalytic site [active] 1029718000457 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 1029718000458 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1029718000459 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 1029718000460 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 1029718000461 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 1029718000462 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1029718000463 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 1029718000464 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1029718000465 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1029718000466 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1029718000467 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 1029718000468 TM-ABC transporter signature motif; other site 1029718000469 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1029718000470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718000471 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1029718000472 Phosphoglycerate kinase; Region: PGK; pfam00162 1029718000473 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 1029718000474 substrate binding site [chemical binding]; other site 1029718000475 hinge regions; other site 1029718000476 ADP binding site [chemical binding]; other site 1029718000477 catalytic site [active] 1029718000478 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 1029718000479 substrate binding site [chemical binding]; other site 1029718000480 dimer interface [polypeptide binding]; other site 1029718000481 catalytic triad [active] 1029718000482 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1029718000483 Sulfatase; Region: Sulfatase; cl10460 1029718000484 enolase; Provisional; Region: eno; PRK00077 1029718000485 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 1029718000486 dimer interface [polypeptide binding]; other site 1029718000487 metal binding site [ion binding]; metal-binding site 1029718000488 substrate binding pocket [chemical binding]; other site 1029718000489 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1029718000490 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1029718000491 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1029718000492 shikimate binding site; other site 1029718000493 NAD(P) binding site [chemical binding]; other site 1029718000494 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 1029718000495 trimer interface [polypeptide binding]; other site 1029718000496 active site 1029718000497 dimer interface [polypeptide binding]; other site 1029718000498 Chorismate mutase type II; Region: CM_2; cl00693 1029718000499 shikimate kinase; Reviewed; Region: aroK; PRK00131 1029718000500 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 1029718000501 ADP binding site [chemical binding]; other site 1029718000502 magnesium binding site [ion binding]; other site 1029718000503 putative shikimate binding site; other site 1029718000504 Preprotein translocase SecG subunit; Region: SecG; cl09123 1029718000505 ribonuclease R; Region: RNase_R; TIGR02063 1029718000506 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 1029718000507 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 1029718000508 RNB domain; Region: RNB; pfam00773 1029718000509 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 play an important...; Region: S1_RNase_R; cd04471 1029718000510 RNA binding site [nucleotide binding]; other site 1029718000511 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 1029718000512 SmpB-tmRNA interface; other site 1029718000513 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; cl00065 1029718000514 inner membrane transporter YjeM; Provisional; Region: PRK15238 1029718000515 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; cl00161 1029718000516 folate binding site [chemical binding]; other site 1029718000517 NADP+ binding site [chemical binding]; other site 1029718000518 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1029718000519 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1029718000520 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1029718000521 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1029718000522 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 1029718000523 active site 1029718000524 P-loop; other site 1029718000525 phosphorylation site [posttranslational modification] 1029718000526 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 1029718000527 active site 1029718000528 phosphorylation site [posttranslational modification] 1029718000529 PRD domain; Region: PRD; cl15445 1029718000530 PRD domain; Region: PRD; cl15445 1029718000531 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 1029718000532 P-loop; other site 1029718000533 active site 1029718000534 phosphorylation site [posttranslational modification] 1029718000535 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1029718000536 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1029718000537 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1029718000538 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 1029718000539 active site 1029718000540 metal binding site [ion binding]; metal-binding site 1029718000541 putative efflux protein, MATE family; Region: matE; TIGR00797 1029718000542 MatE; Region: MatE; cl10513 1029718000543 MatE; Region: MatE; cl10513 1029718000544 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 1029718000545 dimerization interface [polypeptide binding]; other site 1029718000546 putative DNA binding site [nucleotide binding]; other site 1029718000547 putative Zn2+ binding site [ion binding]; other site 1029718000548 NAD synthetase; Reviewed; Region: nadE; PRK02628 1029718000549 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1029718000550 multimer interface [polypeptide binding]; other site 1029718000551 active site 1029718000552 catalytic triad [active] 1029718000553 protein interface 1 [polypeptide binding]; other site 1029718000554 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 1029718000555 homodimer interface [polypeptide binding]; other site 1029718000556 NAD binding pocket [chemical binding]; other site 1029718000557 ATP binding pocket [chemical binding]; other site 1029718000558 Mg binding site [ion binding]; other site 1029718000559 active-site loop [active] 1029718000560 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1029718000561 ligand binding site [chemical binding]; other site 1029718000562 active site 1029718000563 UGI interface [polypeptide binding]; other site 1029718000564 catalytic site [active] 1029718000565 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1029718000566 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1029718000567 catalytic residue [active] 1029718000568 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 1029718000569 diaminopimelate epimerase; Provisional; Region: PRK13577 1029718000570 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 1029718000571 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 1029718000572 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1029718000573 classical (c) SDRs; Region: SDR_c; cd05233 1029718000574 NAD(P) binding site [chemical binding]; other site 1029718000575 active site 1029718000576 TraX protein; Region: TraX; cl05434 1029718000577 AAA domain; Region: AAA_21; pfam13304 1029718000578 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1029718000579 NAD(P) binding site [chemical binding]; other site 1029718000580 catalytic residues [active] 1029718000581 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 1029718000582 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 1029718000583 active site 1029718000584 trimer interface [polypeptide binding]; other site 1029718000585 allosteric site; other site 1029718000586 active site lid [active] 1029718000587 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1029718000588 Beta propeller domain; Region: Beta_propel; pfam09826 1029718000589 spermidine synthase; Provisional; Region: PRK00811 1029718000590 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 1029718000591 S-adenosylmethionine binding site [chemical binding]; other site 1029718000592 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 1029718000593 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1029718000594 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 1029718000595 Ligand Binding Site [chemical binding]; other site 1029718000596 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1029718000597 Helix-turn-helix domains; Region: HTH; cl00088 1029718000598 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1029718000599 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029718000600 active site 1029718000601 HIGH motif; other site 1029718000602 nucleotide binding site [chemical binding]; other site 1029718000603 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1029718000604 KMSKS motif; other site 1029718000605 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1029718000606 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 1029718000607 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 1029718000608 active site 1029718000609 metal binding site [ion binding]; metal-binding site 1029718000610 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1029718000611 Catalytic site [active] 1029718000612 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 1029718000613 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1029718000614 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 1029718000615 metal-binding site [ion binding] 1029718000616 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1029718000617 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1029718000618 Staphylococcal nuclease homologues; Region: SNc; smart00318 1029718000619 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1029718000620 Catalytic site; other site 1029718000621 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 1029718000622 metal-binding site [ion binding] 1029718000623 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1029718000624 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029718000625 active site 1029718000626 HIGH motif; other site 1029718000627 nucleotide binding site [chemical binding]; other site 1029718000628 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1029718000629 active site 1029718000630 KMSKS motif; other site 1029718000631 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1029718000632 tRNA binding surface [nucleotide binding]; other site 1029718000633 anticodon binding site; other site 1029718000634 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1029718000635 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1029718000636 DNA binding site [nucleotide binding] 1029718000637 domain linker motif; other site 1029718000638 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 1029718000639 dimerization interface [polypeptide binding]; other site 1029718000640 ligand binding site [chemical binding]; other site 1029718000641 Nucleoside recognition; Region: Gate; cl00486 1029718000642 Nucleoside recognition; Region: Gate; cl00486 1029718000643 phosphodiesterase; Provisional; Region: PRK12704 1029718000644 proline aminopeptidase P II; Provisional; Region: PRK10879 1029718000645 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 1029718000646 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 1029718000647 active site 1029718000648 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1029718000649 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1029718000650 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1029718000651 RNA binding site [nucleotide binding]; other site 1029718000652 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1029718000653 RNA binding site [nucleotide binding]; other site 1029718000654 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 1029718000655 RNA binding site [nucleotide binding]; other site 1029718000656 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 1029718000657 RNA binding site [nucleotide binding]; other site 1029718000658 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1029718000659 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1029718000660 metal binding site [ion binding]; metal-binding site 1029718000661 dimer interface [polypeptide binding]; other site 1029718000662 TspO/MBR family; Region: TspO_MBR; cl01379 1029718000663 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1029718000664 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 1029718000665 active site 1029718000666 OpgC protein; Region: OpgC_C; cl00792 1029718000667 RmuC family; Region: RmuC; pfam02646 1029718000668 DNA polymerase I; Provisional; Region: PRK05755 1029718000669 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1029718000670 active site 1029718000671 metal binding site 1 [ion binding]; metal-binding site 1029718000672 putative 5' ssDNA interaction site; other site 1029718000673 metal binding site 3; metal-binding site 1029718000674 metal binding site 2 [ion binding]; metal-binding site 1029718000675 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1029718000676 putative DNA binding site [nucleotide binding]; other site 1029718000677 putative metal binding site [ion binding]; other site 1029718000678 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1029718000679 active site 1029718000680 substrate binding site [chemical binding]; other site 1029718000681 catalytic site [active] 1029718000682 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1029718000683 active site 1029718000684 DNA binding site [nucleotide binding] 1029718000685 catalytic site [active] 1029718000686 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1029718000687 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 1029718000688 CoA-binding site [chemical binding]; other site 1029718000689 ATP-binding [chemical binding]; other site 1029718000690 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 catalyze...; Region: LT_GEWL; cd00254 1029718000691 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029718000692 catalytic residue [active] 1029718000693 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1029718000694 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 1029718000695 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; cl09108 1029718000696 phosphate binding site [ion binding]; other site 1029718000697 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1029718000698 NodB motif; other site 1029718000699 active site 1029718000700 catalytic site [active] 1029718000701 Zn binding site [ion binding]; other site 1029718000702 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029718000703 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 1029718000704 active site 1029718000705 phosphorylation site [posttranslational modification] 1029718000706 intermolecular recognition site; other site 1029718000707 dimerization interface [polypeptide binding]; other site 1029718000708 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 1029718000709 DNA binding site [nucleotide binding] 1029718000710 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 1029718000711 dimerization interface [polypeptide binding]; other site 1029718000712 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 1029718000713 dimer interface [polypeptide binding]; other site 1029718000714 phosphorylation site [posttranslational modification] 1029718000715 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 1029718000716 ATP binding site [chemical binding]; other site 1029718000717 Mg2+ binding site [ion binding]; other site 1029718000718 G-X-G motif; other site 1029718000719 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 1029718000720 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 1029718000721 CPxP motif; other site 1029718000722 DsrE/DsrF-like family; Region: DrsE; cl00672 1029718000723 Endodeoxyribonuclease RusA; Region: RusA; cl01885 1029718000724 UGMP family protein; Validated; Region: PRK09604 1029718000725 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1029718000726 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1029718000727 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1029718000728 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1029718000729 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 1029718000730 protein binding site [polypeptide binding]; other site 1029718000731 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1029718000732 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000733 Walker A/P-loop; other site 1029718000734 ATP binding site [chemical binding]; other site 1029718000735 Q-loop/lid; other site 1029718000736 ABC transporter signature motif; other site 1029718000737 Walker B; other site 1029718000738 D-loop; other site 1029718000739 H-loop/switch region; other site 1029718000740 ABC transporter; Region: ABC_tran_2; pfam12848 1029718000741 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 1029718000742 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 1029718000743 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1029718000744 putative active site cavity [active] 1029718000745 N-acetylneuraminate lyase; Region: nanA; TIGR00683 1029718000746 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1029718000747 inhibitor site; inhibition site 1029718000748 active site 1029718000749 dimer interface [polypeptide binding]; other site 1029718000750 catalytic residue [active] 1029718000751 Sodium:solute symporter family; Region: SSF; cl00456 1029718000752 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1029718000753 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1029718000754 Predicted membrane protein [Function unknown]; Region: COG1971 1029718000755 ferric uptake regulator; Provisional; Region: fur; PRK09462 1029718000756 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1029718000757 metal binding site 2 [ion binding]; metal-binding site 1029718000758 putative DNA binding helix; other site 1029718000759 metal binding site 1 [ion binding]; metal-binding site 1029718000760 dimer interface [polypeptide binding]; other site 1029718000761 structural Zn2+ binding site [ion binding]; other site 1029718000762 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1029718000763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000764 Walker A/P-loop; other site 1029718000765 ATP binding site [chemical binding]; other site 1029718000766 Q-loop/lid; other site 1029718000767 ABC transporter signature motif; other site 1029718000768 Walker B; other site 1029718000769 D-loop; other site 1029718000770 H-loop/switch region; other site 1029718000771 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 1029718000772 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1029718000773 intersubunit interface [polypeptide binding]; other site 1029718000774 Rhomboid family; Region: Rhomboid; cl11446 1029718000775 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1029718000776 YtxH-like protein; Region: YtxH; cl02079 1029718000777 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1029718000778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1029718000779 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029718000780 trigger factor; Provisional; Region: tig; PRK01490 1029718000781 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1029718000782 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1029718000783 Clp protease; Region: CLP_protease; pfam00574 1029718000784 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1029718000785 oligomer interface [polypeptide binding]; other site 1029718000786 active site residues [active] 1029718000787 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1029718000788 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 1029718000789 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 1029718000790 Walker A motif; other site 1029718000791 ATP binding site [chemical binding]; other site 1029718000792 Walker B motif; other site 1029718000793 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1029718000794 Predicted GTPase [General function prediction only]; Region: COG0218 1029718000795 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1029718000796 G1 box; other site 1029718000797 GTP/Mg2+ binding site [chemical binding]; other site 1029718000798 Switch I region; other site 1029718000799 G2 box; other site 1029718000800 G3 box; other site 1029718000801 Switch II region; other site 1029718000802 G4 box; other site 1029718000803 G5 box; other site 1029718000804 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; cl02542 1029718000805 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1029718000806 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1029718000807 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1029718000808 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1029718000809 metal binding site [ion binding]; metal-binding site 1029718000810 dimer interface [polypeptide binding]; other site 1029718000811 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1029718000812 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; cl09940 1029718000813 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 1029718000814 active site 1029718000815 MatE; Region: MatE; cl10513 1029718000816 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1029718000817 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1029718000818 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 1029718000819 V-type ATP synthase subunit I; Validated; Region: PRK05771 1029718000820 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1029718000821 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1029718000822 Plant ATP synthase F0; Region: YMF19; cl07975 1029718000823 V-type ATP synthase subunit E; Provisional; Region: PRK02292 1029718000824 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 1029718000825 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 1029718000826 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 1029718000827 V-type ATP synthase subunit A; Provisional; Region: PRK04192 1029718000828 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 1029718000829 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 1029718000830 Walker A motif/ATP binding site; other site 1029718000831 Walker B motif; other site 1029718000832 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1029718000833 V-type ATP synthase subunit B; Provisional; Region: PRK04196 1029718000834 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 1029718000835 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 1029718000836 Walker A motif homologous position; other site 1029718000837 Walker B motif; other site 1029718000838 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1029718000839 ATP synthase subunit D; Region: ATP-synt_D; cl00613 1029718000840 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 1029718000841 Catalytic site [active] 1029718000842 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1029718000843 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1029718000844 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1029718000845 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1029718000846 substrate binding site [chemical binding]; other site 1029718000847 hexamer interface [polypeptide binding]; other site 1029718000848 metal binding site [ion binding]; metal-binding site 1029718000849 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1029718000850 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1029718000851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718000852 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1029718000853 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 1029718000854 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1029718000855 minor groove reading motif; other site 1029718000856 helix-hairpin-helix signature motif; other site 1029718000857 substrate binding pocket [chemical binding]; other site 1029718000858 active site 1029718000859 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 1029718000860 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1029718000861 SdpI/YhfL protein family; Region: SdpI; pfam13630 1029718000862 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 1029718000863 dimerization interface [polypeptide binding]; other site 1029718000864 putative DNA binding site [nucleotide binding]; other site 1029718000865 putative Zn2+ binding site [ion binding]; other site 1029718000866 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 1029718000867 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1029718000868 DRTGG domain; Region: DRTGG; cl12147 1029718000869 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 1029718000870 Hpr binding site; other site 1029718000871 active site 1029718000872 homohexamer subunit interaction site [polypeptide binding]; other site 1029718000873 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1029718000874 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 1029718000875 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 1029718000876 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1029718000877 oligomer interface [polypeptide binding]; other site 1029718000878 putative active site [active] 1029718000879 metal binding site [ion binding]; metal-binding site 1029718000880 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 1029718000881 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1029718000882 active site 1029718000883 motif I; other site 1029718000884 motif II; other site 1029718000885 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 1029718000886 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1029718000887 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 1029718000888 active pocket/dimerization site; other site 1029718000889 active site 1029718000890 phosphorylation site [posttranslational modification] 1029718000891 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 1029718000892 active site 1029718000893 phosphorylation site [posttranslational modification] 1029718000894 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 1029718000895 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1029718000896 Domain of unknown function (DUF956); Region: DUF956; cl01917 1029718000897 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1029718000898 Helix-turn-helix domains; Region: HTH; cl00088 1029718000899 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1029718000900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718000901 UDP-glucose 4-epimerase; Region: PLN02240 1029718000902 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1029718000903 NAD binding site [chemical binding]; other site 1029718000904 homodimer interface [polypeptide binding]; other site 1029718000905 active site 1029718000906 substrate binding site [chemical binding]; other site 1029718000907 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 1029718000908 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 1029718000909 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 1029718000910 HflK protein; Region: hflK; TIGR01933 1029718000911 Domain of unknown function (DUF368); Region: DUF368; cl00893 1029718000912 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1029718000913 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1029718000914 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 1029718000915 putative active site; other site 1029718000916 putative triphosphate binding site [ion binding]; other site 1029718000917 signature motif; other site 1029718000918 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 1029718000919 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1029718000920 intersubunit interface [polypeptide binding]; other site 1029718000921 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 1029718000922 ABC-ATPase subunit interface; other site 1029718000923 dimer interface [polypeptide binding]; other site 1029718000924 putative PBP binding regions; other site 1029718000925 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1029718000926 Walker A/P-loop; other site 1029718000927 ATP binding site [chemical binding]; other site 1029718000928 ABC transporter; Region: ABC_tran; pfam00005 1029718000929 Q-loop/lid; other site 1029718000930 ABC transporter signature motif; other site 1029718000931 Walker B; other site 1029718000932 D-loop; other site 1029718000933 H-loop/switch region; other site 1029718000934 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 1029718000935 Substrate-binding site [chemical binding]; other site 1029718000936 Substrate specificity [chemical binding]; other site 1029718000937 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1029718000938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718000939 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1029718000940 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029718000941 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 1029718000942 active site 1029718000943 phosphorylation site [posttranslational modification] 1029718000944 intermolecular recognition site; other site 1029718000945 dimerization interface [polypeptide binding]; other site 1029718000946 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 1029718000947 DNA binding site [nucleotide binding] 1029718000948 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 1029718000949 dimer interface [polypeptide binding]; other site 1029718000950 phosphorylation site [posttranslational modification] 1029718000951 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 1029718000952 ATP binding site [chemical binding]; other site 1029718000953 Mg2+ binding site [ion binding]; other site 1029718000954 G-X-G motif; other site 1029718000955 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1029718000956 putative metal binding residues [ion binding]; other site 1029718000957 signature motif; other site 1029718000958 dimer interface [polypeptide binding]; other site 1029718000959 polyP binding site; other site 1029718000960 active site 1029718000961 substrate binding site [chemical binding]; other site 1029718000962 acceptor-phosphate pocket; other site 1029718000963 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 1029718000964 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1029718000965 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1029718000966 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1029718000967 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1029718000968 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1029718000969 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1029718000970 Protein of unknown function (DUF327); Region: DUF327; cl00753 1029718000971 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1029718000972 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1029718000973 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1029718000974 non-specific DNA binding site [nucleotide binding]; other site 1029718000975 salt bridge; other site 1029718000976 sequence-specific DNA binding site [nucleotide binding]; other site 1029718000977 prophage SFBMP2, partial 1029718000978 Terminase small subunit; Region: Terminase_2; cl01513 1029718000979 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1029718000980 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1029718000981 Phage terminase large subunit; Region: Terminase_3; cl12054 1029718000982 Terminase-like family; Region: Terminase_6; pfam03237 1029718000983 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 1029718000984 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1029718000985 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 1029718000986 active site 1029718000987 conformational flexibility of ligand binding pocket; other site 1029718000988 ADP-ribosylating toxin turn-turn motif; other site 1029718000989 YjcQ protein; Region: YjcQ; pfam09639 1029718000990 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1029718000991 Predicted ATPases [General function prediction only]; Region: COG1106 1029718000992 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 1029718000993 RloB-like protein; Region: RloB; pfam13707 1029718000994 Predicted membrane protein [Function unknown]; Region: COG2364 1029718000995 Rubrerythrin [Energy production and conversion]; Region: COG1592 1029718000996 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1029718000997 binuclear metal center [ion binding]; other site 1029718000998 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 1029718000999 iron binding site [ion binding]; other site 1029718001000 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 1029718001001 thiamine-monophosphate kinase; Region: thiL; TIGR01379 1029718001002 dimerization interface [polypeptide binding]; other site 1029718001003 putative ATP binding site [chemical binding]; other site 1029718001004 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 1029718001005 active site 1029718001006 dimerization interface [polypeptide binding]; other site 1029718001007 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1029718001008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001009 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1029718001010 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1029718001011 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1029718001012 Putative cyclase; Region: Cyclase; cl00814 1029718001013 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1029718001014 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1029718001015 Walker A/P-loop; other site 1029718001016 ATP binding site [chemical binding]; other site 1029718001017 Q-loop/lid; other site 1029718001018 ABC transporter signature motif; other site 1029718001019 Walker B; other site 1029718001020 D-loop; other site 1029718001021 H-loop/switch region; other site 1029718001022 FtsX-like permease family; Region: FtsX; cl15850 1029718001023 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 1029718001024 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 1029718001025 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 1029718001026 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 1029718001027 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1029718001028 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 1029718001029 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029718001030 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1029718001031 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 1029718001032 active site 1029718001033 dimer interface [polypeptide binding]; other site 1029718001034 catalytic nucleophile [active] 1029718001035 Predicted membrane protein [Function unknown]; Region: COG4684 1029718001036 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1029718001037 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 1029718001038 Protein of unknown function (DUF328); Region: DUF328; cl01143 1029718001039 NlpC/P60 family; Region: NLPC_P60; cl11438 1029718001040 rod shape-determining protein MreB; Provisional; Region: PRK13927 1029718001041 Cell division protein FtsA; Region: FtsA; cl11496 1029718001042 rod shape-determining protein MreC; Provisional; Region: PRK13922 1029718001043 bZIP transcription factor; Region: bZIP_1; cl02576 1029718001044 rod shape-determining protein MreC; Region: MreC; pfam04085 1029718001045 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1029718001046 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1029718001047 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1029718001048 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718001049 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718001050 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718001051 septum formation inhibitor; Reviewed; Region: minC; PRK00513 1029718001052 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1029718001053 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1029718001054 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 1029718001055 Switch I; other site 1029718001056 Switch II; other site 1029718001057 Septum formation topological specificity factor MinE; Region: MinE; cl00538 1029718001058 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1029718001059 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 1029718001060 active site 1029718001061 putative substrate binding region [chemical binding]; other site 1029718001062 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 1029718001063 Protein of unknown function (DUF464); Region: DUF464; cl01080 1029718001064 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 1029718001065 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1029718001066 GTP1/OBG; Region: GTP1_OBG; pfam01018 1029718001067 Obg GTPase; Region: Obg; cd01898 1029718001068 G1 box; other site 1029718001069 GTP/Mg2+ binding site [chemical binding]; other site 1029718001070 Switch I region; other site 1029718001071 G2 box; other site 1029718001072 G3 box; other site 1029718001073 Switch II region; other site 1029718001074 G4 box; other site 1029718001075 G5 box; other site 1029718001076 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 1029718001077 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1029718001078 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1029718001079 active site 1029718001080 (T/H)XGH motif; other site 1029718001081 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 1029718001082 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1029718001083 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1029718001084 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 1029718001085 active site 1029718001086 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1029718001087 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718001088 SLBB domain; Region: SLBB; pfam10531 1029718001089 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1029718001090 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1029718001091 selenophosphate synthetase; Provisional; Region: PRK00943 1029718001092 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 1029718001093 dimerization interface [polypeptide binding]; other site 1029718001094 putative ATP binding site [chemical binding]; other site 1029718001095 selenocysteine synthase; Provisional; Region: PRK04311 1029718001096 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1029718001097 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 1029718001098 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 1029718001099 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1029718001100 G1 box; other site 1029718001101 putative GEF interaction site [polypeptide binding]; other site 1029718001102 GTP/Mg2+ binding site [chemical binding]; other site 1029718001103 Switch I region; other site 1029718001104 G2 box; other site 1029718001105 G3 box; other site 1029718001106 Switch II region; other site 1029718001107 G4 box; other site 1029718001108 G5 box; other site 1029718001109 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 1029718001110 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 1029718001111 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1029718001112 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1029718001113 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1029718001114 metal binding site [ion binding]; metal-binding site 1029718001115 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 1029718001116 active site 1029718001117 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1029718001118 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 1029718001119 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1029718001120 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 1029718001121 active site 1029718001122 dimer interface [polypeptide binding]; other site 1029718001123 motif 1; other site 1029718001124 motif 2; other site 1029718001125 motif 3; other site 1029718001126 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 1029718001127 anticodon binding site; other site 1029718001128 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 1029718001129 oligomerisation interface [polypeptide binding]; other site 1029718001130 mobile loop; other site 1029718001131 roof hairpin; other site 1029718001132 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1029718001133 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 1029718001134 ring oligomerisation interface [polypeptide binding]; other site 1029718001135 ATP/Mg binding site [chemical binding]; other site 1029718001136 stacking interactions; other site 1029718001137 hinge regions; other site 1029718001138 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1029718001139 dimer interface [polypeptide binding]; other site 1029718001140 putative CheW interface [polypeptide binding]; other site 1029718001141 dipeptide transporter permease DppB; Provisional; Region: PRK10914 1029718001142 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 1029718001143 dimer interface [polypeptide binding]; other site 1029718001144 conserved gate region; other site 1029718001145 putative PBP binding loops; other site 1029718001146 ABC-ATPase subunit interface; other site 1029718001147 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1029718001148 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1029718001149 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 1029718001150 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1029718001151 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1029718001152 Walker A/P-loop; other site 1029718001153 ATP binding site [chemical binding]; other site 1029718001154 Q-loop/lid; other site 1029718001155 ABC transporter signature motif; other site 1029718001156 Walker B; other site 1029718001157 D-loop; other site 1029718001158 H-loop/switch region; other site 1029718001159 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1029718001160 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1029718001161 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 1029718001162 Walker A/P-loop; other site 1029718001163 ATP binding site [chemical binding]; other site 1029718001164 Q-loop/lid; other site 1029718001165 ABC transporter signature motif; other site 1029718001166 Walker B; other site 1029718001167 D-loop; other site 1029718001168 H-loop/switch region; other site 1029718001169 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1029718001170 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029718001171 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 1029718001172 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1029718001173 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 1029718001174 Flavoprotein; Region: Flavoprotein; cl08021 1029718001175 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 1029718001176 folate binding site [chemical binding]; other site 1029718001177 NADP+ binding site [chemical binding]; other site 1029718001178 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 1029718001179 dimerization interface [polypeptide binding]; other site 1029718001180 active site 1029718001181 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 1029718001182 N- and C-terminal domain interface [polypeptide binding]; other site 1029718001183 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 1029718001184 active site 1029718001185 MgATP binding site [chemical binding]; other site 1029718001186 catalytic site [active] 1029718001187 metal binding site [ion binding]; metal-binding site 1029718001188 carbohydrate binding site [chemical binding]; other site 1029718001189 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 1029718001190 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 1029718001191 active site 1029718001192 catalytic tetrad [active] 1029718001193 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 1029718001194 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1029718001195 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1029718001196 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 1029718001197 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 1029718001198 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718001199 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718001200 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1029718001201 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718001202 active site 1029718001203 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1029718001204 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029718001205 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 1029718001206 active site 1029718001207 phosphorylation site [posttranslational modification] 1029718001208 intermolecular recognition site; other site 1029718001209 dimerization interface [polypeptide binding]; other site 1029718001210 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 1029718001211 DNA binding site [nucleotide binding] 1029718001212 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 1029718001213 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 1029718001214 dimer interface [polypeptide binding]; other site 1029718001215 phosphorylation site [posttranslational modification] 1029718001216 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 1029718001217 ATP binding site [chemical binding]; other site 1029718001218 Mg2+ binding site [ion binding]; other site 1029718001219 G-X-G motif; other site 1029718001220 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 1029718001221 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 1029718001222 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 1029718001223 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 1029718001224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1029718001225 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029718001226 YtxC-like family; Region: YtxC; cl08500 1029718001227 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1029718001228 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1029718001229 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1029718001230 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 1029718001231 ribosomal protein L20; Region: rpl20; CHL00068 1029718001232 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1029718001233 23S rRNA binding site [nucleotide binding]; other site 1029718001234 L21 binding site [polypeptide binding]; other site 1029718001235 L13 binding site [polypeptide binding]; other site 1029718001236 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1029718001237 Cation transport protein; Region: TrkH; cl10514 1029718001238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001239 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1029718001240 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1029718001241 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1029718001242 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1029718001243 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1029718001244 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 1029718001245 dimer interface [polypeptide binding]; other site 1029718001246 motif 1; other site 1029718001247 active site 1029718001248 motif 2; other site 1029718001249 motif 3; other site 1029718001250 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1029718001251 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 1029718001252 putative tRNA-binding site [nucleotide binding]; other site 1029718001253 B3/4 domain; Region: B3_4; cl11458 1029718001254 tRNA synthetase B5 domain; Region: B5; cl08394 1029718001255 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 1029718001256 dimer interface [polypeptide binding]; other site 1029718001257 motif 1; other site 1029718001258 motif 3; other site 1029718001259 motif 2; other site 1029718001260 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 1029718001261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001262 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718001263 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718001264 Bacteriophage holin; Region: Phage_holin_1; cl02344 1029718001265 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1029718001266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001267 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1029718001268 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1029718001269 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1029718001270 dimer interface [polypeptide binding]; other site 1029718001271 active site 1029718001272 catalytic residue [active] 1029718001273 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1029718001274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001275 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1029718001276 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1029718001277 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1029718001278 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1029718001279 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1029718001280 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1029718001281 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1029718001282 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 1029718001283 TPP-binding site; other site 1029718001284 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 1029718001285 PYR/PP interface [polypeptide binding]; other site 1029718001286 dimer interface [polypeptide binding]; other site 1029718001287 TPP binding site [chemical binding]; other site 1029718001288 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1029718001289 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1029718001290 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1029718001291 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1029718001292 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1029718001293 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1029718001294 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 1029718001295 substrate binding site [chemical binding]; other site 1029718001296 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1029718001297 tyrosine phosphatase, pseudogene 1029718001298 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 1029718001299 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1029718001300 DHH family; Region: DHH; pfam01368 1029718001301 DHHA1 domain; Region: DHHA1; pfam02272 1029718001302 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 1029718001303 dimer interface [polypeptide binding]; other site 1029718001304 phosphorylation site [posttranslational modification] 1029718001305 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 1029718001306 ATP binding site [chemical binding]; other site 1029718001307 Mg2+ binding site [ion binding]; other site 1029718001308 G-X-G motif; other site 1029718001309 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 1029718001310 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 1029718001311 active site 1029718001312 homodimer interface [polypeptide binding]; other site 1029718001313 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 1029718001314 TPR motif; other site 1029718001315 TPR repeat; Region: TPR_11; pfam13414 1029718001316 binding surface 1029718001317 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1029718001318 binding surface 1029718001319 TPR motif; other site 1029718001320 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718001321 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718001322 Cell division protein ZapA; Region: ZapA; cl01146 1029718001323 Rubrerythrin [Energy production and conversion]; Region: COG1592 1029718001324 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1029718001325 binuclear metal center [ion binding]; other site 1029718001326 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 1029718001327 iron binding site [ion binding]; other site 1029718001328 Cation efflux family; Region: Cation_efflux; cl00316 1029718001329 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1029718001330 MatE; Region: MatE; cl10513 1029718001331 MatE; Region: MatE; cl10513 1029718001332 Transglycosylase; Region: Transgly; cl07896 1029718001333 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1029718001334 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1029718001335 Peptidase family U32; Region: Peptidase_U32; cl03113 1029718001336 Collagenase; Region: DUF3656; pfam12392 1029718001337 Peptidase family U32; Region: Peptidase_U32; cl03113 1029718001338 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1029718001339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718001340 Walker A/P-loop; other site 1029718001341 ATP binding site [chemical binding]; other site 1029718001342 Q-loop/lid; other site 1029718001343 ABC transporter signature motif; other site 1029718001344 Walker B; other site 1029718001345 D-loop; other site 1029718001346 H-loop/switch region; other site 1029718001347 Smr domain; Region: Smr; cl02619 1029718001348 YabP family; Region: YabP; cl06766 1029718001349 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 1029718001350 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 1029718001351 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1029718001352 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1029718001353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1029718001354 Zn2+ binding site [ion binding]; other site 1029718001355 Mg2+ binding site [ion binding]; other site 1029718001356 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 1029718001357 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 1029718001358 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 1029718001359 active site 1029718001360 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 1029718001361 active site 1029718001362 catalytic motif [active] 1029718001363 Zn binding site [ion binding]; other site 1029718001364 GTPase Era; Reviewed; Region: era; PRK00089 1029718001365 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1029718001366 G1 box; other site 1029718001367 GTP/Mg2+ binding site [chemical binding]; other site 1029718001368 Switch I region; other site 1029718001369 G2 box; other site 1029718001370 Switch II region; other site 1029718001371 G3 box; other site 1029718001372 G4 box; other site 1029718001373 G5 box; other site 1029718001374 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 1029718001375 Recombination protein O N terminal; Region: RecO_N; cl15812 1029718001376 DNA repair protein RecO; Region: reco; TIGR00613 1029718001377 Recombination protein O C terminal; Region: RecO_C; pfam02565 1029718001378 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1029718001379 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1029718001380 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1029718001381 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; cl09155 1029718001382 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1029718001383 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1029718001384 active site 1029718001385 ATP binding site [chemical binding]; other site 1029718001386 substrate binding site [chemical binding]; other site 1029718001387 DNA primase; Validated; Region: dnaG; PRK05667 1029718001388 CHC2 zinc finger; Region: zf-CHC2; cl15369 1029718001389 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1029718001390 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 1029718001391 active site 1029718001392 metal binding site [ion binding]; metal-binding site 1029718001393 interdomain interaction site; other site 1029718001394 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1029718001395 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1029718001396 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1029718001397 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1029718001398 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029718001399 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1029718001400 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 1029718001401 DNA binding residues [nucleotide binding] 1029718001402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001403 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1029718001404 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1029718001405 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1029718001406 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1029718001407 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 1029718001408 active site 1029718001409 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1029718001410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718001411 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718001412 Family description; Region: UvrD_C_2; cl15862 1029718001413 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1029718001414 homodimer interface [polypeptide binding]; other site 1029718001415 substrate-cofactor binding pocket; other site 1029718001416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029718001417 catalytic residue [active] 1029718001418 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 1029718001419 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029718001420 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 1029718001421 DNA binding residues [nucleotide binding] 1029718001422 Amino acid permease; Region: AA_permease_2; pfam13520 1029718001423 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1029718001424 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 1029718001425 active site residue [active] 1029718001426 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1029718001427 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1029718001428 Beta-Casp domain; Region: Beta-Casp; cl12567 1029718001429 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1029718001430 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1029718001431 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 1029718001432 dimer interface [polypeptide binding]; other site 1029718001433 PYR/PP interface [polypeptide binding]; other site 1029718001434 TPP binding site [chemical binding]; other site 1029718001435 substrate binding site [chemical binding]; other site 1029718001436 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1029718001437 Domain of unknown function; Region: EKR; cl11037 1029718001438 4Fe-4S binding domain; Region: Fer4; cl02805 1029718001439 4Fe-4S binding domain; Region: Fer4; cl02805 1029718001440 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 1029718001441 TPP-binding site [chemical binding]; other site 1029718001442 dimer interface [polypeptide binding]; other site 1029718001443 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1029718001444 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 1029718001445 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1029718001446 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 1029718001447 substrate-cofactor binding pocket; other site 1029718001448 homodimer interface [polypeptide binding]; other site 1029718001449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029718001450 catalytic residue [active] 1029718001451 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; cl00256 1029718001452 CheD chemotactic sensory transduction; Region: CheD; cl00810 1029718001453 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1029718001454 CheB methylesterase; Region: CheB_methylest; pfam01339 1029718001455 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1029718001456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001457 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1029718001458 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 1029718001459 putative binding surface; other site 1029718001460 active site 1029718001461 P2 response regulator binding domain; Region: P2; pfam07194 1029718001462 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1029718001463 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 1029718001464 ATP binding site [chemical binding]; other site 1029718001465 Mg2+ binding site [ion binding]; other site 1029718001466 G-X-G motif; other site 1029718001467 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 1029718001468 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1029718001469 Chemotaxis phosphatase CheX; Region: CheX; cl15816 1029718001470 Response regulator receiver domain; Region: Response_reg; pfam00072 1029718001471 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 1029718001472 active site 1029718001473 phosphorylation site [posttranslational modification] 1029718001474 intermolecular recognition site; other site 1029718001475 dimerization interface [polypeptide binding]; other site 1029718001476 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; cl00256 1029718001477 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1029718001478 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1029718001479 flagellar motor switch protein; Validated; Region: PRK08119 1029718001480 Chemotaxis phosphatase CheX; Region: CheX; cl15816 1029718001481 Chemotaxis phosphatase CheX; Region: CheX; cl15816 1029718001482 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1029718001483 FlgN protein; Region: FlgN; cl09176 1029718001484 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 1029718001485 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1029718001486 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 1029718001487 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1029718001488 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1029718001489 FliW protein; Region: FliW; cl00740 1029718001490 Global regulator protein family; Region: CsrA; cl00670 1029718001491 Flagellar protein FliS; Region: FliS; cl00654 1029718001492 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1029718001493 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1029718001494 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1029718001495 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 1029718001496 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 1029718001497 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1029718001498 flagellin; Reviewed; Region: PRK08869 1029718001499 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1029718001500 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1029718001501 flagellin; Reviewed; Region: PRK08869 1029718001502 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1029718001503 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1029718001504 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1029718001505 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 1029718001506 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1029718001507 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 1029718001508 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1029718001509 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1029718001510 DNA binding residues [nucleotide binding] 1029718001511 putative dimer interface [polypeptide binding]; other site 1029718001512 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 1029718001513 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1029718001514 active site 1029718001515 catalytic tetrad [active] 1029718001516 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 1029718001517 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 1029718001518 active site 1029718001519 catalytic tetrad [active] 1029718001520 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1029718001521 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1029718001522 Domain of unknown function (DUF370); Region: DUF370; cl00898 1029718001523 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1029718001524 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 1029718001525 catalytic site [active] 1029718001526 G-X2-G-X-G-K; other site 1029718001527 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 1029718001528 primosome assembly protein PriA; Validated; Region: PRK05580 1029718001529 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 1029718001530 ATP binding site [chemical binding]; other site 1029718001531 putative Mg++ binding site [ion binding]; other site 1029718001532 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718001533 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 1029718001534 active site 1029718001535 catalytic residues [active] 1029718001536 metal binding site [ion binding]; metal-binding site 1029718001537 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1029718001538 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1029718001539 putative active site [active] 1029718001540 substrate binding site [chemical binding]; other site 1029718001541 putative cosubstrate binding site; other site 1029718001542 catalytic site [active] 1029718001543 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1029718001544 substrate binding site [chemical binding]; other site 1029718001545 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 1029718001546 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1029718001547 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1029718001548 putative RNA binding site [nucleotide binding]; other site 1029718001549 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; cl15754 1029718001550 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 1029718001551 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 1029718001552 FeS/SAM binding site; other site 1029718001553 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 1029718001554 active site 1029718001555 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1029718001556 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1029718001557 active site 1029718001558 ATP binding site [chemical binding]; other site 1029718001559 substrate binding site [chemical binding]; other site 1029718001560 activation loop (A-loop); other site 1029718001561 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 1029718001562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1029718001563 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 1029718001564 GTPase RsgA; Reviewed; Region: PRK00098 1029718001565 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 1029718001566 RNA binding site [nucleotide binding]; other site 1029718001567 homodimer interface [polypeptide binding]; other site 1029718001568 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1029718001569 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1029718001570 GTP/Mg2+ binding site [chemical binding]; other site 1029718001571 G4 box; other site 1029718001572 G5 box; other site 1029718001573 G1 box; other site 1029718001574 Switch I region; other site 1029718001575 G2 box; other site 1029718001576 G3 box; other site 1029718001577 Switch II region; other site 1029718001578 Thiamine pyrophosphokinase; Region: TPK; cd07995 1029718001579 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1029718001580 active site 1029718001581 dimerization interface [polypeptide binding]; other site 1029718001582 thiamine binding site [chemical binding]; other site 1029718001583 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1029718001584 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1029718001585 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1029718001586 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1029718001587 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1029718001588 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1029718001589 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1029718001590 hypothetical protein, pseudogene 1029718001591 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1029718001592 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1029718001593 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1029718001594 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1029718001595 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 1029718001596 Asp23 family; Region: Asp23; cl00574 1029718001597 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1029718001598 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 1029718001599 ATP binding site [chemical binding]; other site 1029718001600 putative Mg++ binding site [ion binding]; other site 1029718001601 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 1029718001602 nucleotide binding region [chemical binding]; other site 1029718001603 ATP-binding site [chemical binding]; other site 1029718001604 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 1029718001605 S-adenosylmethionine binding site [chemical binding]; other site 1029718001606 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1029718001607 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1029718001608 active site 1029718001609 (T/H)XGH motif; other site 1029718001610 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 1029718001611 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1029718001612 active site 1029718001613 motif I; other site 1029718001614 motif II; other site 1029718001615 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1029718001616 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 1029718001617 Nucleoside recognition; Region: Gate; cl00486 1029718001618 hypothetical protein; Provisional; Region: PRK13670 1029718001619 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029718001620 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1029718001621 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1029718001622 Acetokinase family; Region: Acetate_kinase; cl01029 1029718001623 propionate/acetate kinase; Provisional; Region: PRK12379 1029718001624 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1029718001625 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 1029718001626 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1029718001627 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1029718001628 ribonuclease III; Reviewed; Region: rnc; PRK00102 1029718001629 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 1029718001630 dimerization interface [polypeptide binding]; other site 1029718001631 active site 1029718001632 metal binding site [ion binding]; metal-binding site 1029718001633 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 1029718001634 dsRNA binding site [nucleotide binding]; other site 1029718001635 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 1029718001636 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 1029718001637 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 1029718001638 AP (apurinic/apyrimidinic) site pocket; other site 1029718001639 DNA interaction; other site 1029718001640 Metal-binding active site; metal-binding site 1029718001641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001642 HI0933-like protein; Region: HI0933_like; pfam03486 1029718001643 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029718001644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001645 cytidylate kinase; Provisional; Region: cmk; PRK00023 1029718001646 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 1029718001647 CMP-binding site; other site 1029718001648 The sites determining sugar specificity; other site 1029718001649 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 1029718001650 LytB protein; Region: LYTB; cl00507 1029718001651 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1029718001652 RNA binding site [nucleotide binding]; other site 1029718001653 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1029718001654 RNA binding site [nucleotide binding]; other site 1029718001655 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 1029718001656 RNA binding site [nucleotide binding]; other site 1029718001657 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 1029718001658 RNA binding site [nucleotide binding]; other site 1029718001659 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 1029718001660 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 1029718001661 RNA/DNA hybrid binding site [nucleotide binding]; other site 1029718001662 active site 1029718001663 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 1029718001664 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 the guanine...; Region: IMPDH; cd00381 1029718001665 active site 1029718001666 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1029718001667 GMP synthase; Reviewed; Region: guaA; PRK00074 1029718001668 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1029718001669 AMP/PPi binding site [chemical binding]; other site 1029718001670 candidate oxyanion hole; other site 1029718001671 catalytic triad [active] 1029718001672 potential glutamine specificity residues [chemical binding]; other site 1029718001673 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 1029718001674 ATP Binding subdomain [chemical binding]; other site 1029718001675 Ligand Binding sites [chemical binding]; other site 1029718001676 Dimerization subdomain; other site 1029718001677 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1029718001678 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1029718001679 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1029718001680 NMT1-like family; Region: NMT1_2; cl15260 1029718001681 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1029718001682 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1029718001683 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 1029718001684 Walker A/P-loop; other site 1029718001685 ATP binding site [chemical binding]; other site 1029718001686 Q-loop/lid; other site 1029718001687 ABC transporter signature motif; other site 1029718001688 Walker B; other site 1029718001689 D-loop; other site 1029718001690 H-loop/switch region; other site 1029718001691 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1029718001692 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 1029718001693 dimer interface [polypeptide binding]; other site 1029718001694 conserved gate region; other site 1029718001695 putative PBP binding loops; other site 1029718001696 ABC-ATPase subunit interface; other site 1029718001697 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1029718001698 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 1029718001699 dimer interface [polypeptide binding]; other site 1029718001700 conserved gate region; other site 1029718001701 ABC-ATPase subunit interface; other site 1029718001702 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1029718001703 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1029718001704 active site 1029718001705 metal binding site [ion binding]; metal-binding site 1029718001706 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1029718001707 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 1029718001708 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1029718001709 active site 1029718001710 catalytic tetrad [active] 1029718001711 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 1029718001712 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 1029718001713 active site 1029718001714 phosphorylation site [posttranslational modification] 1029718001715 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 1029718001716 P-loop; other site 1029718001717 active site 1029718001718 phosphorylation site [posttranslational modification] 1029718001719 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1029718001720 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1029718001721 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1029718001722 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 1029718001723 putative substrate binding site [chemical binding]; other site 1029718001724 putative ATP binding site [chemical binding]; other site 1029718001725 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1029718001726 putative RNA binding site [nucleotide binding]; other site 1029718001727 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1029718001728 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 1029718001729 generic binding surface II; other site 1029718001730 generic binding surface I; other site 1029718001731 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 1029718001732 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1029718001733 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1029718001734 substrate binding pocket [chemical binding]; other site 1029718001735 chain length determination region; other site 1029718001736 substrate-Mg2+ binding site; other site 1029718001737 catalytic residues [active] 1029718001738 aspartate-rich region 1; other site 1029718001739 active site lid residues [active] 1029718001740 aspartate-rich region 2; other site 1029718001741 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1029718001742 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 1029718001743 RNA binding surface [nucleotide binding]; other site 1029718001744 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; cl15754 1029718001745 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1029718001746 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1029718001747 arginine repressor; Provisional; Region: argR; PRK00441 1029718001748 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1029718001749 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1029718001750 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 1029718001751 Walker A/P-loop; other site 1029718001752 ATP binding site [chemical binding]; other site 1029718001753 Q-loop/lid; other site 1029718001754 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 1029718001755 ABC transporter signature motif; other site 1029718001756 Walker B; other site 1029718001757 D-loop; other site 1029718001758 H-loop/switch region; other site 1029718001759 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 1029718001760 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1029718001761 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 1029718001762 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 1029718001763 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 1029718001764 active site 1029718001765 phosphorylation site [posttranslational modification] 1029718001766 intermolecular recognition site; other site 1029718001767 dimerization interface [polypeptide binding]; other site 1029718001768 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 1029718001769 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1029718001770 intersubunit interface [polypeptide binding]; other site 1029718001771 active site 1029718001772 catalytic residue [active] 1029718001773 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 1029718001774 active site 1029718001775 catalytic triad [active] 1029718001776 oxyanion hole [active] 1029718001777 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1029718001778 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 1029718001779 Walker A/P-loop; other site 1029718001780 ATP binding site [chemical binding]; other site 1029718001781 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 1029718001782 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 1029718001783 ABC transporter signature motif; other site 1029718001784 Walker B; other site 1029718001785 D-loop; other site 1029718001786 H-loop/switch region; other site 1029718001787 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1029718001788 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 1029718001789 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 1029718001790 P loop; other site 1029718001791 GTP binding site [chemical binding]; other site 1029718001792 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1029718001793 signal recognition particle protein; Provisional; Region: PRK10867 1029718001794 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 1029718001795 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 1029718001796 P loop; other site 1029718001797 GTP binding site [chemical binding]; other site 1029718001798 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1029718001799 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 1029718001800 RimM N-terminal domain; Region: RimM; pfam01782 1029718001801 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 1029718001802 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 1029718001803 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 1029718001804 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1029718001805 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1029718001806 GTP/Mg2+ binding site [chemical binding]; other site 1029718001807 G4 box; other site 1029718001808 G5 box; other site 1029718001809 G1 box; other site 1029718001810 Switch I region; other site 1029718001811 G2 box; other site 1029718001812 G3 box; other site 1029718001813 Switch II region; other site 1029718001814 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1029718001815 RNA/DNA hybrid binding site [nucleotide binding]; other site 1029718001816 active site 1029718001817 NADH oxidase, pseudogene 1029718001818 Restriction endonuclease; Region: Mrr_cat; cl00516 1029718001819 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 1029718001820 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 1029718001821 Helix-turn-helix domains; Region: HTH; cl00088 1029718001822 hypothetical protein, pseudogene 1029718001823 HsdR family type I site-specific deoxyribonuclease, partial, pseudogene 1029718001824 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1029718001825 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1029718001826 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1029718001827 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1029718001828 ligand binding site [chemical binding]; other site 1029718001829 dimerization interface [polypeptide binding]; other site 1029718001830 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 1029718001831 TM-ABC transporter signature motif; other site 1029718001832 ribose ABC transporter ATP-binding protein, pseudogene 1029718001833 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 1029718001834 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1029718001835 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 1029718001836 substrate binding site [chemical binding]; other site 1029718001837 dimer interface [polypeptide binding]; other site 1029718001838 ATP binding site [chemical binding]; other site 1029718001839 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 1029718001840 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718001841 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1029718001842 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1029718001843 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09651 1029718001844 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 1029718001845 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 1029718001846 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1029718001847 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1029718001848 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1029718001849 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1029718001850 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 1029718001851 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 1029718001852 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1029718001853 PTS_IIB, PTS system, glucose/sucrose 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_glc; cd00212 1029718001854 active site turn [active] 1029718001855 phosphorylation site [posttranslational modification] 1029718001856 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1029718001857 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 1029718001858 HPr interaction site; other site 1029718001859 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1029718001860 active site 1029718001861 phosphorylation site [posttranslational modification] 1029718001862 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1029718001863 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 1029718001864 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 1029718001865 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1029718001866 Helix-turn-helix domains; Region: HTH; cl00088 1029718001867 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 1029718001868 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1029718001869 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1029718001870 PTS_IIB, PTS system, glucose/sucrose 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_glc; cd00212 1029718001871 active site turn [active] 1029718001872 phosphorylation site [posttranslational modification] 1029718001873 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1029718001874 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 1029718001875 HPr interaction site; other site 1029718001876 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1029718001877 active site 1029718001878 phosphorylation site [posttranslational modification] 1029718001879 beta-glucosidas, C-terminal part, pseudogene 1029718001880 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1029718001881 CAT RNA binding domain; Region: CAT_RBD; cl03904 1029718001882 PRD domain; Region: PRD; cl15445 1029718001883 PRD domain; Region: PRD; cl15445 1029718001884 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1029718001885 Helix-turn-helix domains; Region: HTH; cl00088 1029718001886 PRD domain; Region: PRD; cl15445 1029718001887 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 1029718001888 P-loop; other site 1029718001889 active site 1029718001890 phosphorylation site [posttranslational modification] 1029718001891 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1029718001892 active site 1029718001893 catalytic residues [active] 1029718001894 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 1029718001895 active site 1029718001896 phosphorylation site [posttranslational modification] 1029718001897 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 1029718001898 active site 1029718001899 phosphorylation site [posttranslational modification] 1029718001900 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1029718001901 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 1029718001902 P-loop; other site 1029718001903 active site 1029718001904 phosphorylation site [posttranslational modification] 1029718001905 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 1029718001906 S-adenosylmethionine binding site [chemical binding]; other site 1029718001907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718001908 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1029718001909 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1029718001910 putative active site [active] 1029718001911 catalytic site [active] 1029718001912 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1029718001913 putative active site [active] 1029718001914 catalytic site [active] 1029718001915 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1029718001916 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1029718001917 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 1029718001918 Walker A motif; other site 1029718001919 ATP binding site [chemical binding]; other site 1029718001920 Walker B motif; other site 1029718001921 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1029718001922 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1029718001923 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1029718001924 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 1029718001925 putative DNA binding site [nucleotide binding]; other site 1029718001926 dimerization interface [polypeptide binding]; other site 1029718001927 putative Zn2+ binding site [ion binding]; other site 1029718001928 DNA topoisomerase I; Validated; Region: PRK05582 1029718001929 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 1029718001930 active site 1029718001931 interdomain interaction site; other site 1029718001932 putative metal-binding site [ion binding]; other site 1029718001933 nucleotide binding site [chemical binding]; other site 1029718001934 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 1029718001935 domain I; other site 1029718001936 DNA binding groove [nucleotide binding] 1029718001937 phosphate binding site [ion binding]; other site 1029718001938 domain II; other site 1029718001939 domain III; other site 1029718001940 nucleotide binding site [chemical binding]; other site 1029718001941 catalytic site [active] 1029718001942 domain IV; other site 1029718001943 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1029718001944 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1029718001945 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 1029718001946 rRNA interaction site [nucleotide binding]; other site 1029718001947 S8 interaction site; other site 1029718001948 putative laminin-1 binding site; other site 1029718001949 elongation factor Ts; Provisional; Region: tsf; PRK09377 1029718001950 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 1029718001951 Elongation factor TS; Region: EF_TS; pfam00889 1029718001952 Elongation factor TS; Region: EF_TS; pfam00889 1029718001953 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 1029718001954 putative nucleotide binding site [chemical binding]; other site 1029718001955 uridine monophosphate binding site [chemical binding]; other site 1029718001956 homohexameric interface [polypeptide binding]; other site 1029718001957 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1029718001958 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 round of...; Region: RRF; cd00520 1029718001959 hinge region; other site 1029718001960 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; cd00475 1029718001961 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1029718001962 catalytic residue [active] 1029718001963 putative FPP diphosphate binding site; other site 1029718001964 putative FPP binding hydrophobic cleft; other site 1029718001965 dimer interface [polypeptide binding]; other site 1029718001966 putative IPP diphosphate binding site; other site 1029718001967 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 1029718001968 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1029718001969 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 1029718001970 active site 1029718001971 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 1029718001972 protein binding site [polypeptide binding]; other site 1029718001973 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 1029718001974 putative substrate binding region [chemical binding]; other site 1029718001975 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1029718001976 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1029718001977 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1029718001978 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1029718001979 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 1029718001980 generic binding surface II; other site 1029718001981 generic binding surface I; other site 1029718001982 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1029718001983 active site 1029718001984 substrate binding site [chemical binding]; other site 1029718001985 catalytic site [active] 1029718001986 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1029718001987 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1029718001988 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 1029718001989 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 1029718001990 Sm1 motif; other site 1029718001991 D3 - B interaction site; other site 1029718001992 D1 - D2 interaction site; other site 1029718001993 Hfq - Hfq interaction site; other site 1029718001994 RNA binding pocket [nucleotide binding]; other site 1029718001995 Sm2 motif; other site 1029718001996 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1029718001997 NusA N-terminal domain; Region: NusA_N; pfam08529 1029718001998 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 1029718001999 RNA binding site [nucleotide binding]; other site 1029718002000 homodimer interface [polypeptide binding]; other site 1029718002001 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 1029718002002 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 1029718002003 G-X-X-G motif; other site 1029718002004 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 1029718002005 putative RNA binding cleft [nucleotide binding]; other site 1029718002006 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1029718002007 translation initiation factor IF-2; Region: IF-2; TIGR00487 1029718002008 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1029718002009 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1029718002010 G1 box; other site 1029718002011 putative GEF interaction site [polypeptide binding]; other site 1029718002012 GTP/Mg2+ binding site [chemical binding]; other site 1029718002013 Switch I region; other site 1029718002014 G2 box; other site 1029718002015 G3 box; other site 1029718002016 Switch II region; other site 1029718002017 G4 box; other site 1029718002018 G5 box; other site 1029718002019 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 1029718002020 Translation-initiation factor 2; Region: IF-2; pfam11987 1029718002021 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 1029718002022 Ribosome-binding factor A; Region: RBFA; cl00542 1029718002023 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1029718002024 DHH family; Region: DHH; pfam01368 1029718002025 DHHA1 domain; Region: DHHA1; pfam02272 1029718002026 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 1029718002027 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 1029718002028 RNA binding site [nucleotide binding]; other site 1029718002029 active site 1029718002030 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1029718002031 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1029718002032 active site 1029718002033 Riboflavin kinase; Region: Flavokinase; cl03312 1029718002034 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 1029718002035 16S/18S rRNA binding site [nucleotide binding]; other site 1029718002036 S13e-L30e interaction site [polypeptide binding]; other site 1029718002037 25S rRNA binding site [nucleotide binding]; other site 1029718002038 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1029718002039 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1029718002040 RNase E interface [polypeptide binding]; other site 1029718002041 trimer interface [polypeptide binding]; other site 1029718002042 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1029718002043 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1029718002044 RNase E interface [polypeptide binding]; other site 1029718002045 trimer interface [polypeptide binding]; other site 1029718002046 active site 1029718002047 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 1029718002048 RNA binding site [nucleotide binding]; other site 1029718002049 domain interface; other site 1029718002050 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 1029718002051 aspartate kinase I; Reviewed; Region: PRK08210 1029718002052 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 1029718002053 nucleotide binding site [chemical binding]; other site 1029718002054 substrate binding site [chemical binding]; other site 1029718002055 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1029718002056 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1029718002057 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1029718002058 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1029718002059 active site 1029718002060 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1029718002061 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1029718002062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002063 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 1029718002064 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1029718002065 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1029718002066 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 1029718002067 FeS/SAM binding site; other site 1029718002068 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1029718002069 recombinase A; Provisional; Region: recA; PRK09354 1029718002070 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 1029718002071 hexamer interface [polypeptide binding]; other site 1029718002072 Walker A motif; other site 1029718002073 ATP binding site [chemical binding]; other site 1029718002074 Walker B motif; other site 1029718002075 phosphodiesterase; Provisional; Region: PRK12704 1029718002076 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1029718002077 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 1029718002078 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 1029718002079 dimerization domain swap beta strand [polypeptide binding]; other site 1029718002080 regulatory protein interface [polypeptide binding]; other site 1029718002081 active site 1029718002082 regulatory phosphorylation site [posttranslational modification]; other site 1029718002083 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1029718002084 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 1029718002085 DNA binding site [nucleotide binding] 1029718002086 Int/Topo IB signature motif; other site 1029718002087 active site 1029718002088 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1029718002089 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 1029718002090 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002091 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1029718002092 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1029718002093 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 1029718002094 ATP binding site [chemical binding]; other site 1029718002095 Mg2+ binding site [ion binding]; other site 1029718002096 G-X-G motif; other site 1029718002097 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 1029718002098 ATP binding site [chemical binding]; other site 1029718002099 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 1029718002100 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1029718002101 MutS domain I; Region: MutS_I; pfam01624 1029718002102 MutS domain II; Region: MutS_II; pfam05188 1029718002103 MutS family domain IV; Region: MutS_IV; pfam05190 1029718002104 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 1029718002105 Walker A/P-loop; other site 1029718002106 ATP binding site [chemical binding]; other site 1029718002107 Q-loop/lid; other site 1029718002108 ABC transporter signature motif; other site 1029718002109 Walker B; other site 1029718002110 D-loop; other site 1029718002111 H-loop/switch region; other site 1029718002112 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 1029718002113 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1029718002114 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; cl15377 1029718002115 FeS/SAM binding site; other site 1029718002116 TRAM domain; Region: TRAM; cl01282 1029718002117 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1029718002118 active site 1029718002119 catalytic site [active] 1029718002120 Predicted transcriptional regulators [Transcription]; Region: COG1725 1029718002121 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1029718002122 DNA-binding site [nucleotide binding]; DNA binding site 1029718002123 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1029718002124 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 1029718002125 Walker A/P-loop; other site 1029718002126 ATP binding site [chemical binding]; other site 1029718002127 Q-loop/lid; other site 1029718002128 ABC transporter signature motif; other site 1029718002129 Walker B; other site 1029718002130 D-loop; other site 1029718002131 H-loop/switch region; other site 1029718002132 aspartate aminotransferase; Provisional; Region: PRK07568 1029718002133 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 1029718002134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029718002135 homodimer interface [polypeptide binding]; other site 1029718002136 catalytic residue [active] 1029718002137 TIR domain; Region: TIR_2; cl15770 1029718002138 HsdR family type I site-specific deoxyribonuclease, pseudogene 1029718002139 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1029718002140 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; cl09108 1029718002141 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1029718002142 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 1029718002143 prophage SFBMP3, partial 1029718002144 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1029718002145 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1029718002146 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1029718002147 Uncharacterized conserved protein [Function unknown]; Region: COG4983 1029718002148 D5 N terminal like; Region: D5_N; cl07360 1029718002149 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1029718002150 Phage capsid family; Region: Phage_capsid; pfam05065 1029718002151 integrase, pseudogene 1029718002152 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1029718002153 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 1029718002154 uracil-xanthine permease; Region: ncs2; TIGR00801 1029718002155 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1029718002156 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029718002157 active site 1029718002158 putative hydrolase; Validated; Region: PRK09248 1029718002159 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 1029718002160 gating phenylalanine in ion channel; other site 1029718002161 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1029718002162 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1029718002163 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 the...; Region: GH85_ENGase; cd06547 1029718002164 putative active site [active] 1029718002165 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1029718002166 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 1029718002167 sugar binding site [chemical binding]; other site 1029718002168 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1029718002169 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1029718002170 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 1029718002171 Walker A/P-loop; other site 1029718002172 ATP binding site [chemical binding]; other site 1029718002173 Q-loop/lid; other site 1029718002174 ABC transporter signature motif; other site 1029718002175 Walker B; other site 1029718002176 D-loop; other site 1029718002177 H-loop/switch region; other site 1029718002178 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1029718002179 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1029718002180 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1029718002181 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 1029718002182 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1029718002183 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 1029718002184 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 1029718002185 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1029718002186 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 1029718002187 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1029718002188 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 1029718002189 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 1029718002190 ABC-ATPase subunit interface; other site 1029718002191 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1029718002192 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 1029718002193 active site 1029718002194 phosphorylation site [posttranslational modification] 1029718002195 intermolecular recognition site; other site 1029718002196 dimerization interface [polypeptide binding]; other site 1029718002197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029718002198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1029718002199 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 1029718002200 dimerization interface [polypeptide binding]; other site 1029718002201 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1029718002202 Histidine kinase; Region: His_kinase; pfam06580 1029718002203 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 1029718002204 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1029718002205 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 1029718002206 trimer interface [polypeptide binding]; other site 1029718002207 active site 1029718002208 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 1029718002209 catalytic site [active] 1029718002210 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1029718002211 predicted active site [active] 1029718002212 catalytic triad [active] 1029718002213 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1029718002214 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 1029718002215 active site 1029718002216 multimer interface [polypeptide binding]; other site 1029718002217 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1029718002218 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1029718002219 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 1029718002220 ATP binding site [chemical binding]; other site 1029718002221 putative Mg++ binding site [ion binding]; other site 1029718002222 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 1029718002223 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1029718002224 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1029718002225 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1029718002226 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 1029718002227 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1029718002228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718002229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002230 AAA domain; Region: AAA_13; pfam13166 1029718002231 HpaII restriction endonuclease; Region: RE_HpaII; pfam09561 1029718002232 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1029718002233 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1029718002234 cofactor binding site; other site 1029718002235 DNA binding site [nucleotide binding] 1029718002236 substrate interaction site [chemical binding]; other site 1029718002237 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1029718002238 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1029718002239 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 1029718002240 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1029718002241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718002242 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1029718002243 GTP-binding protein Der; Reviewed; Region: PRK00093 1029718002244 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1029718002245 G1 box; other site 1029718002246 GTP/Mg2+ binding site [chemical binding]; other site 1029718002247 Switch I region; other site 1029718002248 G2 box; other site 1029718002249 Switch II region; other site 1029718002250 G3 box; other site 1029718002251 G4 box; other site 1029718002252 G5 box; other site 1029718002253 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1029718002254 G1 box; other site 1029718002255 GTP/Mg2+ binding site [chemical binding]; other site 1029718002256 Switch I region; other site 1029718002257 G2 box; other site 1029718002258 G3 box; other site 1029718002259 Switch II region; other site 1029718002260 G4 box; other site 1029718002261 G5 box; other site 1029718002262 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 1029718002263 metal binding site [ion binding]; metal-binding site 1029718002264 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 1029718002265 non-specific DNA binding site [nucleotide binding]; other site 1029718002266 salt bridge; other site 1029718002267 sequence-specific DNA binding site [nucleotide binding]; other site 1029718002268 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 1029718002269 amidase catalytic site [active] 1029718002270 Zn binding residues [ion binding]; other site 1029718002271 substrate binding site [chemical binding]; other site 1029718002272 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002273 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1029718002274 PhoU domain; Region: PhoU; pfam01895 1029718002275 PhoU domain; Region: PhoU; pfam01895 1029718002276 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 1029718002277 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 1029718002278 Walker A/P-loop; other site 1029718002279 ATP binding site [chemical binding]; other site 1029718002280 Q-loop/lid; other site 1029718002281 ABC transporter signature motif; other site 1029718002282 Walker B; other site 1029718002283 D-loop; other site 1029718002284 H-loop/switch region; other site 1029718002285 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1029718002286 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1029718002287 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 1029718002288 dimer interface [polypeptide binding]; other site 1029718002289 conserved gate region; other site 1029718002290 putative PBP binding loops; other site 1029718002291 ABC-ATPase subunit interface; other site 1029718002292 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 1029718002293 dimer interface [polypeptide binding]; other site 1029718002294 conserved gate region; other site 1029718002295 putative PBP binding loops; other site 1029718002296 ABC-ATPase subunit interface; other site 1029718002297 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1029718002298 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1029718002299 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 1029718002300 dimer interface [polypeptide binding]; other site 1029718002301 phosphorylation site [posttranslational modification] 1029718002302 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 1029718002303 ATP binding site [chemical binding]; other site 1029718002304 Mg2+ binding site [ion binding]; other site 1029718002305 G-X-G motif; other site 1029718002306 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029718002307 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 1029718002308 active site 1029718002309 phosphorylation site [posttranslational modification] 1029718002310 intermolecular recognition site; other site 1029718002311 dimerization interface [polypeptide binding]; other site 1029718002312 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 1029718002313 DNA binding site [nucleotide binding] 1029718002314 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1029718002315 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 1029718002316 heavy metal translocating P-type ATPase, pseudogene 1029718002317 sporulation sigma factor SigG; Reviewed; Region: PRK08215 1029718002318 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029718002319 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1029718002320 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 1029718002321 DNA binding residues [nucleotide binding] 1029718002322 sporulation sigma factor SigE; Reviewed; Region: PRK08301 1029718002323 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029718002324 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 1029718002325 DNA binding residues [nucleotide binding] 1029718002326 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 1029718002327 cell division protein FtsZ; Validated; Region: PRK09330 1029718002328 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 1029718002329 nucleotide binding site [chemical binding]; other site 1029718002330 SulA interaction site; other site 1029718002331 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1029718002332 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1029718002333 DXD motif; other site 1029718002334 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1029718002335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002336 Walker A motif; other site 1029718002337 ATP binding site [chemical binding]; other site 1029718002338 Walker B motif; other site 1029718002339 sporulation sigma factor SigK; Reviewed; Region: PRK05803 1029718002340 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029718002341 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 1029718002342 DNA binding residues [nucleotide binding] 1029718002343 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1029718002344 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718002345 putative protease; Provisional; Region: PRK15452 1029718002346 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; cl09108 1029718002347 Peptidase family U32; Region: Peptidase_U32; cl03113 1029718002348 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 1029718002349 S-adenosylmethionine binding site [chemical binding]; other site 1029718002350 YceG-like family; Region: YceG; pfam02618 1029718002351 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1029718002352 dimerization interface [polypeptide binding]; other site 1029718002353 Protein of unknown function (DUF964); Region: DUF964; cl01483 1029718002354 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1029718002355 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1029718002356 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1029718002357 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1029718002358 metal binding site 2 [ion binding]; metal-binding site 1029718002359 putative DNA binding helix; other site 1029718002360 metal binding site 1 [ion binding]; metal-binding site 1029718002361 dimer interface [polypeptide binding]; other site 1029718002362 structural Zn2+ binding site [ion binding]; other site 1029718002363 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 1029718002364 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 1029718002365 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1029718002366 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 formation of...; Region: AlaRS_core; cd00673 1029718002367 motif 1; other site 1029718002368 active site 1029718002369 motif 2; other site 1029718002370 motif 3; other site 1029718002371 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1029718002372 DHHA1 domain; Region: DHHA1; pfam02272 1029718002373 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1029718002374 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 1029718002375 Ligand Binding Site [chemical binding]; other site 1029718002376 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 1029718002377 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 1029718002378 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029718002379 catalytic residue [active] 1029718002380 Helix-turn-helix domains; Region: HTH; cl00088 1029718002381 Rrf2 family protein; Region: rrf2_super; TIGR00738 1029718002382 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1029718002383 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1029718002384 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1029718002385 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1029718002386 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1029718002387 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1029718002388 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1029718002389 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 1029718002390 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 1029718002391 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 1029718002392 carboxyltransferase (CT) interaction site; other site 1029718002393 biotinylation site [posttranslational modification]; other site 1029718002394 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1029718002395 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 1029718002396 dimer interface [polypeptide binding]; other site 1029718002397 active site 1029718002398 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1029718002399 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1029718002400 NAD(P) binding site [chemical binding]; other site 1029718002401 homotetramer interface [polypeptide binding]; other site 1029718002402 homodimer interface [polypeptide binding]; other site 1029718002403 active site 1029718002404 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1029718002405 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1029718002406 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1029718002407 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 1029718002408 dimer interface [polypeptide binding]; other site 1029718002409 active site 1029718002410 CoA binding pocket [chemical binding]; other site 1029718002411 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1029718002412 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 1029718002413 dimer interface [polypeptide binding]; other site 1029718002414 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1029718002415 active site 1029718002416 folate binding site [chemical binding]; other site 1029718002417 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1029718002418 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 1029718002419 dimer interface [polypeptide binding]; other site 1029718002420 anticodon binding site; other site 1029718002421 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 the...; Region: AspRS_core; cd00777 1029718002422 homodimer interface [polypeptide binding]; other site 1029718002423 motif 1; other site 1029718002424 active site 1029718002425 motif 2; other site 1029718002426 GAD domain; Region: GAD; pfam02938 1029718002427 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 attaches...; Region: class_II_aaRS-like_core; cl00268 1029718002428 active site 1029718002429 motif 3; other site 1029718002430 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1029718002431 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 ATP-dependent...; Region: HisRS-like_core; cd00773 1029718002432 dimer interface [polypeptide binding]; other site 1029718002433 motif 1; other site 1029718002434 active site 1029718002435 motif 2; other site 1029718002436 motif 3; other site 1029718002437 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 1029718002438 anticodon binding site; other site 1029718002439 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1029718002440 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1029718002441 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1029718002442 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1029718002443 synthetase active site [active] 1029718002444 NTP binding site [chemical binding]; other site 1029718002445 metal binding site [ion binding]; metal-binding site 1029718002446 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 1029718002447 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1029718002448 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 1029718002449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029718002450 active site 1029718002451 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1029718002452 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1029718002453 Protein export membrane protein; Region: SecD_SecF; cl14618 1029718002454 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1029718002455 Protein export membrane protein; Region: SecD_SecF; cl14618 1029718002456 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 1029718002457 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 1029718002458 FeS/SAM binding site; other site 1029718002459 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 1029718002460 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 1029718002461 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002462 Preprotein translocase subunit; Region: YajC; cl00806 1029718002463 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1029718002464 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1029718002465 S-adenosylmethionine:tRNA ribosyltransferase-isomerase, pseudogene 1029718002466 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1029718002467 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 1029718002468 Walker A motif; other site 1029718002469 ATP binding site [chemical binding]; other site 1029718002470 Walker B motif; other site 1029718002471 arginine finger; other site 1029718002472 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1029718002473 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1029718002474 RuvA N terminal domain; Region: RuvA_N; pfam01330 1029718002475 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1029718002476 hypothetical protein, pseudogene 1029718002477 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 1029718002478 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1029718002479 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1029718002480 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1029718002481 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1029718002482 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1029718002483 HflX GTPase family; Region: HflX; cd01878 1029718002484 G1 box; other site 1029718002485 GTP/Mg2+ binding site [chemical binding]; other site 1029718002486 Switch I region; other site 1029718002487 G2 box; other site 1029718002488 G3 box; other site 1029718002489 Switch II region; other site 1029718002490 G4 box; other site 1029718002491 G5 box; other site 1029718002492 Transglycosylase; Region: Transgly; cl07896 1029718002493 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1029718002494 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718002495 Rdx family; Region: Rdx; cl01407 1029718002496 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1029718002497 active site 1029718002498 metal binding site [ion binding]; metal-binding site 1029718002499 homotetramer interface [polypeptide binding]; other site 1029718002500 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1029718002501 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1029718002502 homodimer interface [polypeptide binding]; other site 1029718002503 NADP binding site [chemical binding]; other site 1029718002504 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1029718002505 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 1029718002506 active site 1029718002507 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 1029718002508 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1029718002509 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1029718002510 NodB motif; other site 1029718002511 active site 1029718002512 catalytic site [active] 1029718002513 Zn binding site [ion binding]; other site 1029718002514 hypothetical protein, pseudogene 1029718002515 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1029718002516 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 1029718002517 dimerization interface [polypeptide binding]; other site 1029718002518 domain crossover interface; other site 1029718002519 redox-dependent activation switch; other site 1029718002520 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1029718002521 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 1029718002522 protein binding site [polypeptide binding]; other site 1029718002523 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1029718002524 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1029718002525 dimer interface [polypeptide binding]; other site 1029718002526 active site 1029718002527 metal binding site [ion binding]; metal-binding site 1029718002528 Protein of unknown function (DUF552); Region: DUF552; cl00775 1029718002529 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1029718002530 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 1029718002531 RNA binding surface [nucleotide binding]; other site 1029718002532 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 1029718002533 active site 1029718002534 DivIVA protein; Region: DivIVA; pfam05103 1029718002535 DivIVA domain; Region: DivI1A_domain; TIGR03544 1029718002536 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1029718002537 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1029718002538 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; cl09940 1029718002539 Protein of unknown function (DUF552); Region: DUF552; cl00775 1029718002540 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1029718002541 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1029718002542 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1029718002543 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 1029718002544 Mg++ binding site [ion binding]; other site 1029718002545 putative catalytic motif [active] 1029718002546 putative substrate binding site [chemical binding]; other site 1029718002547 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1029718002548 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1029718002549 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029718002550 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1029718002551 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1029718002552 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1029718002553 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029718002554 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1029718002555 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 1029718002556 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1029718002557 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718002558 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 1029718002559 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 1029718002560 Septum formation initiator; Region: DivIC; cl11433 1029718002561 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1029718002562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718002563 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1029718002564 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1029718002565 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1029718002566 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1029718002567 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1029718002568 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1029718002569 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1029718002570 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 1029718002571 Walker A/P-loop; other site 1029718002572 ATP binding site [chemical binding]; other site 1029718002573 Q-loop/lid; other site 1029718002574 ABC transporter signature motif; other site 1029718002575 Walker B; other site 1029718002576 D-loop; other site 1029718002577 H-loop/switch region; other site 1029718002578 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1029718002579 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1029718002580 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002581 Walker A/P-loop; other site 1029718002582 ATP binding site [chemical binding]; other site 1029718002583 Q-loop/lid; other site 1029718002584 ABC transporter signature motif; other site 1029718002585 Walker B; other site 1029718002586 D-loop; other site 1029718002587 H-loop/switch region; other site 1029718002588 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 1029718002589 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Provisional; Region: PRK06259 1029718002590 catalytic loop [active] 1029718002591 iron binding site [ion binding]; other site 1029718002592 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1029718002593 4Fe-4S binding domain; Region: Fer4; cl02805 1029718002594 4Fe-4S binding domain; Region: Fer4; cl02805 1029718002595 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1029718002596 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 1029718002597 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 1029718002598 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 1029718002599 G1 box; other site 1029718002600 GTP/Mg2+ binding site [chemical binding]; other site 1029718002601 Switch I region; other site 1029718002602 G2 box; other site 1029718002603 Switch II region; other site 1029718002604 G3 box; other site 1029718002605 G4 box; other site 1029718002606 G5 box; other site 1029718002607 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 1029718002608 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 1029718002609 FeS/SAM binding site; other site 1029718002610 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 1029718002611 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 1029718002612 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 1029718002613 FeS/SAM binding site; other site 1029718002614 GTP-binding protein YchF; Reviewed; Region: PRK09601 1029718002615 YchF GTPase; Region: YchF; cd01900 1029718002616 G1 box; other site 1029718002617 GTP/Mg2+ binding site [chemical binding]; other site 1029718002618 Switch I region; other site 1029718002619 G2 box; other site 1029718002620 Switch II region; other site 1029718002621 G3 box; other site 1029718002622 G4 box; other site 1029718002623 G5 box; other site 1029718002624 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 1029718002625 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 1029718002626 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1029718002627 NodB motif; other site 1029718002628 active site 1029718002629 catalytic site [active] 1029718002630 Cd binding site [ion binding]; other site 1029718002631 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 1029718002632 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 1029718002633 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 1029718002634 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 1029718002635 TPR motif; other site 1029718002636 binding surface 1029718002637 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1029718002638 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 1029718002639 active site 1029718002640 substrate binding site [chemical binding]; other site 1029718002641 metal binding site [ion binding]; metal-binding site 1029718002642 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1029718002643 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1029718002644 5S rRNA interface [nucleotide binding]; other site 1029718002645 CTC domain interface [polypeptide binding]; other site 1029718002646 L16 interface [polypeptide binding]; other site 1029718002647 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1029718002648 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 1029718002649 homodimer interface [polypeptide binding]; other site 1029718002650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029718002651 catalytic residue [active] 1029718002652 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1029718002653 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 1029718002654 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002655 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002656 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002657 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002658 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 1029718002659 nucleotide binding site/active site [active] 1029718002660 HIT family signature motif; other site 1029718002661 catalytic residue [active] 1029718002662 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1029718002663 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1029718002664 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 1029718002665 FeS/SAM binding site; other site 1029718002666 TRAM domain; Region: TRAM; cl01282 1029718002667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 1029718002668 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 1029718002669 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1029718002670 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 1029718002671 S-adenosylmethionine binding site [chemical binding]; other site 1029718002672 HIRAN domain; Region: HIRAN; cl07418 1029718002673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002674 Dynamin family; Region: Dynamin_N; pfam00350 1029718002675 G1 box; other site 1029718002676 GTP/Mg2+ binding site [chemical binding]; other site 1029718002677 G2 box; other site 1029718002678 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002679 G3 box; other site 1029718002680 Switch II region; other site 1029718002681 GTP/Mg2+ binding site [chemical binding]; other site 1029718002682 G4 box; other site 1029718002683 G5 box; other site 1029718002684 recombination factor protein RarA; Reviewed; Region: PRK13342 1029718002685 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 1029718002686 Walker A motif; other site 1029718002687 ATP binding site [chemical binding]; other site 1029718002688 Walker B motif; other site 1029718002689 arginine finger; other site 1029718002690 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1029718002691 chaperone protein DnaJ; Provisional; Region: PRK14297 1029718002692 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 1029718002693 HSP70 interaction site [polypeptide binding]; other site 1029718002694 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1029718002695 substrate binding site [polypeptide binding]; other site 1029718002696 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1029718002697 Zn binding sites [ion binding]; other site 1029718002698 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1029718002699 dimer interface [polypeptide binding]; other site 1029718002700 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1029718002701 heat shock protein GrpE; Provisional; Region: PRK14140 1029718002702 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 1029718002703 dimer interface [polypeptide binding]; other site 1029718002704 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1029718002705 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1029718002706 HrcA protein C terminal domain; Region: HrcA; pfam01628 1029718002707 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 1029718002708 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 1029718002709 FeS/SAM binding site; other site 1029718002710 HemN C-terminal domain; Region: HemN_C; pfam06969 1029718002711 GTP-binding protein LepA; Provisional; Region: PRK05433 1029718002712 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1029718002713 G1 box; other site 1029718002714 putative GEF interaction site [polypeptide binding]; other site 1029718002715 GTP/Mg2+ binding site [chemical binding]; other site 1029718002716 Switch I region; other site 1029718002717 G2 box; other site 1029718002718 G3 box; other site 1029718002719 Switch II region; other site 1029718002720 G4 box; other site 1029718002721 G5 box; other site 1029718002722 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 1029718002723 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 1029718002724 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1029718002725 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 1029718002726 stage II sporulation protein P; Region: spore_II_P; TIGR02867 1029718002727 Germination protease; Region: Peptidase_A25; cl04057 1029718002728 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 1029718002729 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1029718002730 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1029718002731 Competence protein; Region: Competence; cl00471 1029718002732 SpoVA protein; Region: SpoVA; cl04298 1029718002733 stage V sporulation protein AD; Validated; Region: PRK08304 1029718002734 stage V sporulation protein AD; Provisional; Region: PRK12404 1029718002735 SpoVA protein; Region: SpoVA; cl04298 1029718002736 Flagellar protein (FlbD); Region: FlbD; cl00683 1029718002737 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1029718002738 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 1029718002739 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 1029718002740 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 1029718002741 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 1029718002742 Walker A motif/ATP binding site; other site 1029718002743 Walker B motif; other site 1029718002744 flagellar assembly protein H; Validated; Region: fliH; PRK06669 1029718002745 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1029718002746 FliG C-terminal domain; Region: FliG_C; pfam01706 1029718002747 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 1029718002748 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 1029718002749 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1029718002750 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1029718002751 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 1029718002752 flagellin; Provisional; Region: PRK12807 1029718002753 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1029718002754 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1029718002755 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1029718002756 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1029718002757 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 1029718002758 methionine cluster; other site 1029718002759 active site 1029718002760 phosphorylation site [posttranslational modification] 1029718002761 metal binding site [ion binding]; metal-binding site 1029718002762 Asp23 family; Region: Asp23; cl00574 1029718002763 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 1029718002764 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 1029718002765 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 1029718002766 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 1029718002767 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 1029718002768 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 1029718002769 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 1029718002770 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 1029718002771 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 1029718002772 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002773 Walker A motif; other site 1029718002774 ATP binding site [chemical binding]; other site 1029718002775 Walker B motif; other site 1029718002776 elongation factor P; Validated; Region: PRK00529 1029718002777 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1029718002778 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 1029718002779 RNA binding site [nucleotide binding]; other site 1029718002780 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 1029718002781 RNA binding site [nucleotide binding]; other site 1029718002782 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 1029718002783 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 1029718002784 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1029718002785 Type II/IV secretion system protein; Region: T2SE; pfam00437 1029718002786 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002787 Walker A motif; other site 1029718002788 ATP binding site [chemical binding]; other site 1029718002789 Walker B motif; other site 1029718002790 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 1029718002791 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1029718002792 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1029718002793 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1029718002794 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1029718002795 Walker A/P-loop; other site 1029718002796 ATP binding site [chemical binding]; other site 1029718002797 Q-loop/lid; other site 1029718002798 ABC transporter signature motif; other site 1029718002799 Walker B; other site 1029718002800 D-loop; other site 1029718002801 H-loop/switch region; other site 1029718002802 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 1029718002803 ABC-ATPase subunit interface; other site 1029718002804 dimer interface [polypeptide binding]; other site 1029718002805 putative PBP binding regions; other site 1029718002806 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 1029718002807 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 1029718002808 intersubunit interface [polypeptide binding]; other site 1029718002809 peroxiredoxin; Region: AhpC; TIGR03137 1029718002810 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 1029718002811 dimer interface [polypeptide binding]; other site 1029718002812 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1029718002813 catalytic triad [active] 1029718002814 peroxidatic and resolving cysteines [active] 1029718002815 EamA-like transporter family; Region: EamA; cl01037 1029718002816 EamA-like transporter family; Region: EamA; cl01037 1029718002817 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1029718002818 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1029718002819 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1029718002820 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1029718002821 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 1029718002822 active site 1029718002823 P-loop; other site 1029718002824 phosphorylation site [posttranslational modification] 1029718002825 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1029718002826 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1029718002827 NAD binding site [chemical binding]; other site 1029718002828 sugar binding site [chemical binding]; other site 1029718002829 divalent metal binding site [ion binding]; other site 1029718002830 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1029718002831 dimer interface [polypeptide binding]; other site 1029718002832 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1029718002833 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 1029718002834 DNA interaction; other site 1029718002835 Metal-binding active site; metal-binding site 1029718002836 L-ribulose-5-phosphate 4-epimerase, truncated by premature stop codon, pseudogene 1029718002837 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 1029718002838 P-loop; other site 1029718002839 active site 1029718002840 phosphorylation site [posttranslational modification] 1029718002841 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1029718002842 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 1029718002843 active site 1029718002844 phosphorylation site [posttranslational modification] 1029718002845 L-ascorbate 6-phosphate lactonase, pseudogene 1029718002846 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1029718002847 Helix-turn-helix domains; Region: HTH; cl00088 1029718002848 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1029718002849 CutC family; Region: CutC; cl01218 1029718002850 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 1029718002851 heme-binding site [chemical binding]; other site 1029718002852 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1029718002853 heme-binding site [chemical binding]; other site 1029718002854 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1029718002855 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1029718002856 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1029718002857 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1029718002858 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1029718002859 active site 1029718002860 SCP-2 sterol transfer family; Region: SCP2; cl01225 1029718002861 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1029718002862 sporulation sigma factor SigF; Validated; Region: PRK05572 1029718002863 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029718002864 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 1029718002865 DNA binding residues [nucleotide binding] 1029718002866 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1029718002867 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 1029718002868 ATP binding site [chemical binding]; other site 1029718002869 Mg2+ binding site [ion binding]; other site 1029718002870 G-X-G motif; other site 1029718002871 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 1029718002872 anti sigma factor interaction site; other site 1029718002873 regulatory phosphorylation site [posttranslational modification]; other site 1029718002874 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1029718002875 metal binding site [ion binding]; metal-binding site 1029718002876 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 1029718002877 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1029718002878 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002879 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 1029718002880 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002881 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002882 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002883 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 1029718002884 putative active site [active] 1029718002885 putative metal binding site [ion binding]; other site 1029718002886 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1029718002887 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1029718002888 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1029718002889 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 1029718002890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029718002891 homodimer interface [polypeptide binding]; other site 1029718002892 catalytic residue [active] 1029718002893 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1029718002894 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1029718002895 dimer interface [polypeptide binding]; other site 1029718002896 putative CheW interface [polypeptide binding]; other site 1029718002897 DNA repair protein RadA; Provisional; Region: PRK11823 1029718002898 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002899 Walker A motif; other site 1029718002900 ATP binding site [chemical binding]; other site 1029718002901 Walker B motif; other site 1029718002902 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1029718002903 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 1029718002904 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1029718002905 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 1029718002906 active site 1029718002907 catalytic triad [active] 1029718002908 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 1029718002909 active site 1029718002910 catalytic triad [active] 1029718002911 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1029718002912 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 1029718002913 glutaminase active site [active] 1029718002914 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 1029718002915 dimer interface [polypeptide binding]; other site 1029718002916 active site 1029718002917 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 1029718002918 dimer interface [polypeptide binding]; other site 1029718002919 active site 1029718002920 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002921 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002922 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002923 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002924 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1029718002925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718002926 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1029718002927 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1029718002928 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 1029718002929 putative active site [active] 1029718002930 aminotransferase A; Validated; Region: PRK07683 1029718002931 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 1029718002932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1029718002933 homodimer interface [polypeptide binding]; other site 1029718002934 catalytic residue [active] 1029718002935 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002936 Walker A motif; other site 1029718002937 ATP binding site [chemical binding]; other site 1029718002938 Walker B motif; other site 1029718002939 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1029718002940 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1029718002941 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 1029718002942 trimer interface [polypeptide binding]; other site 1029718002943 active site 1029718002944 substrate binding site [chemical binding]; other site 1029718002945 CoA binding site [chemical binding]; other site 1029718002946 single-stranded DNA-binding protein; Provisional; Region: PRK05813 1029718002947 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 1029718002948 dimer interface [polypeptide binding]; other site 1029718002949 ssDNA binding site [nucleotide binding]; other site 1029718002950 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1029718002951 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1029718002952 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 1029718002953 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1029718002954 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1029718002955 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718002956 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1029718002957 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029718002958 active site 1029718002959 HIGH motif; other site 1029718002960 nucleotide binding site [chemical binding]; other site 1029718002961 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1029718002962 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1029718002963 active site 1029718002964 KMSKS motif; other site 1029718002965 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1029718002966 tRNA binding surface [nucleotide binding]; other site 1029718002967 anticodon binding site; other site 1029718002968 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1029718002969 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1029718002970 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1029718002971 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 1029718002972 RecX family; Region: RecX; cl00936 1029718002973 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1029718002974 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1029718002975 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1029718002976 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002977 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 1029718002978 Rubredoxin; Region: Rubredoxin; pfam00301 1029718002979 iron binding site [ion binding]; other site 1029718002980 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 1029718002981 diiron binding motif [ion binding]; other site 1029718002982 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718002983 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 1029718002984 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1029718002985 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 1029718002986 nucleotide binding pocket [chemical binding]; other site 1029718002987 K-X-D-G motif; other site 1029718002988 catalytic site [active] 1029718002989 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1029718002990 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 1029718002991 Dimer interface [polypeptide binding]; other site 1029718002992 BRCT sequence motif; other site 1029718002993 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1029718002994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718002995 Family description; Region: UvrD_C_2; cl15862 1029718002996 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1029718002997 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 1029718002998 RNA binding surface [nucleotide binding]; other site 1029718002999 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 1029718003000 active site 1029718003001 uracil binding [chemical binding]; other site 1029718003002 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 catalyze...; Region: LT_GEWL; cd00254 1029718003003 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1029718003004 catalytic residue [active] 1029718003005 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 1029718003006 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1029718003007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718003008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718003009 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1029718003010 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 1029718003011 active site 1029718003012 dimer interface [polypeptide binding]; other site 1029718003013 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 1029718003014 dimer interface [polypeptide binding]; other site 1029718003015 active site 1029718003016 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1029718003017 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1029718003018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718003019 Walker A/P-loop; other site 1029718003020 ATP binding site [chemical binding]; other site 1029718003021 Q-loop/lid; other site 1029718003022 ABC transporter signature motif; other site 1029718003023 Walker B; other site 1029718003024 D-loop; other site 1029718003025 H-loop/switch region; other site 1029718003026 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1029718003027 DJ-1 family protein; Region: not_thiJ; TIGR01383 1029718003028 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1029718003029 conserved cys residue [active] 1029718003030 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1029718003031 trimer interface [polypeptide binding]; other site 1029718003032 active site 1029718003033 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 1029718003034 amidase catalytic site [active] 1029718003035 Zn binding residues [ion binding]; other site 1029718003036 substrate binding site [chemical binding]; other site 1029718003037 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1029718003038 MatE; Region: MatE; cl10513 1029718003039 MatE; Region: MatE; cl10513 1029718003040 hypothetical protein, pseudogene 1029718003041 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1029718003042 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 1029718003043 Walker A/P-loop; other site 1029718003044 ATP binding site [chemical binding]; other site 1029718003045 Q-loop/lid; other site 1029718003046 ABC transporter signature motif; other site 1029718003047 Walker B; other site 1029718003048 D-loop; other site 1029718003049 H-loop/switch region; other site 1029718003050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1029718003051 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 1029718003052 ATP binding site [chemical binding]; other site 1029718003053 Mg2+ binding site [ion binding]; other site 1029718003054 G-X-G motif; other site 1029718003055 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029718003056 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 1029718003057 active site 1029718003058 phosphorylation site [posttranslational modification] 1029718003059 intermolecular recognition site; other site 1029718003060 dimerization interface [polypeptide binding]; other site 1029718003061 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 1029718003062 DNA binding site [nucleotide binding] 1029718003063 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1029718003064 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 1029718003065 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 1029718003066 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1029718003067 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 1029718003068 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 1029718003069 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1029718003070 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 1029718003071 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029718003072 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1029718003073 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 1029718003074 DNA binding residues [nucleotide binding] 1029718003075 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1029718003076 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1029718003077 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718003078 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 1029718003079 FHIPEP family; Region: FHIPEP; pfam00771 1029718003080 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 1029718003081 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1029718003082 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1029718003083 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1029718003084 FliP family; Region: FliP; cl00593 1029718003085 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 1029718003086 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1029718003087 flagellar motor protein MotS; Reviewed; Region: PRK06925 1029718003088 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1029718003089 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1029718003090 ligand binding site [chemical binding]; other site 1029718003091 flagellar motor protein MotP; Reviewed; Region: PRK06926 1029718003092 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1029718003093 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 1029718003094 active site 1029718003095 adenylosuccinate lyase; Provisional; Region: PRK07492 1029718003096 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1029718003097 tetramer interface [polypeptide binding]; other site 1029718003098 active site 1029718003099 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1029718003100 putative oxidoreductase; Provisional; Region: PRK11579 1029718003101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718003102 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 1029718003103 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1029718003104 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 1029718003105 GDP-binding site [chemical binding]; other site 1029718003106 ACT binding site; other site 1029718003107 IMP binding site; other site 1029718003108 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1029718003109 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 1029718003110 ScpA/B protein; Region: ScpA_ScpB; cl00598 1029718003111 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1029718003112 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1029718003113 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1029718003114 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1029718003115 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1029718003116 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 1029718003117 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 1029718003118 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1029718003119 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1029718003120 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 1029718003121 Sulfatase; Region: Sulfatase; cl10460 1029718003122 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1029718003123 Integral membrane protein DUF95; Region: DUF95; cl00572 1029718003124 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1029718003125 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 1029718003126 dimer interface [polypeptide binding]; other site 1029718003127 ADP-ribose binding site [chemical binding]; other site 1029718003128 active site 1029718003129 nudix motif; other site 1029718003130 metal binding site [ion binding]; metal-binding site 1029718003131 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 1029718003132 AAA domain; Region: AAA_23; pfam13476 1029718003133 Walker A/P-loop; other site 1029718003134 ATP binding site [chemical binding]; other site 1029718003135 Q-loop/lid; other site 1029718003136 exonuclease SbcC; Region: sbcc; TIGR00618 1029718003137 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 1029718003138 ABC transporter signature motif; other site 1029718003139 Walker B; other site 1029718003140 D-loop; other site 1029718003141 H-loop/switch region; other site 1029718003142 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1029718003143 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1029718003144 active site 1029718003145 metal binding site [ion binding]; metal-binding site 1029718003146 DNA binding site [nucleotide binding] 1029718003147 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1029718003148 competence damage-inducible protein A; Provisional; Region: PRK00549 1029718003149 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 1029718003150 putative MPT binding site; other site 1029718003151 Competence-damaged protein; Region: CinA; cl00666 1029718003152 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 1029718003153 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1029718003154 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 1029718003155 dimer interface [polypeptide binding]; other site 1029718003156 phosphorylation site [posttranslational modification] 1029718003157 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 1029718003158 ATP binding site [chemical binding]; other site 1029718003159 Mg2+ binding site [ion binding]; other site 1029718003160 G-X-G motif; other site 1029718003161 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029718003162 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 1029718003163 active site 1029718003164 phosphorylation site [posttranslational modification] 1029718003165 intermolecular recognition site; other site 1029718003166 dimerization interface [polypeptide binding]; other site 1029718003167 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 1029718003168 DNA binding site [nucleotide binding] 1029718003169 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1029718003170 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1029718003171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1029718003172 Putative glucoamylase; Region: Glycoamylase; pfam10091 1029718003173 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1029718003174 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1029718003175 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1029718003176 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 1029718003177 Walker A/P-loop; other site 1029718003178 ATP binding site [chemical binding]; other site 1029718003179 Q-loop/lid; other site 1029718003180 ABC transporter signature motif; other site 1029718003181 Walker B; other site 1029718003182 D-loop; other site 1029718003183 H-loop/switch region; other site 1029718003184 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1029718003185 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 1029718003186 putative ligand binding residues [chemical binding]; other site 1029718003187 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1029718003188 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1029718003189 Walker A/P-loop; other site 1029718003190 ATP binding site [chemical binding]; other site 1029718003191 Q-loop/lid; other site 1029718003192 ABC transporter signature motif; other site 1029718003193 Walker B; other site 1029718003194 D-loop; other site 1029718003195 H-loop/switch region; other site 1029718003196 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 1029718003197 ABC-ATPase subunit interface; other site 1029718003198 dimer interface [polypeptide binding]; other site 1029718003199 putative PBP binding regions; other site 1029718003200 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 1029718003201 ABC-ATPase subunit interface; other site 1029718003202 dimer interface [polypeptide binding]; other site 1029718003203 putative PBP binding regions; other site 1029718003204 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1029718003205 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 1029718003206 intersubunit interface [polypeptide binding]; other site 1029718003207 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 1029718003208 ABC-ATPase subunit interface; other site 1029718003209 dimer interface [polypeptide binding]; other site 1029718003210 putative PBP binding regions; other site 1029718003211 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 1029718003212 ABC-ATPase subunit interface; other site 1029718003213 dimer interface [polypeptide binding]; other site 1029718003214 putative PBP binding regions; other site 1029718003215 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1029718003216 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1029718003217 Walker A/P-loop; other site 1029718003218 ATP binding site [chemical binding]; other site 1029718003219 Q-loop/lid; other site 1029718003220 ABC transporter signature motif; other site 1029718003221 Walker B; other site 1029718003222 D-loop; other site 1029718003223 H-loop/switch region; other site 1029718003224 H+ Antiporter protein; Region: 2A0121; TIGR00900 1029718003225 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1029718003226 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 1029718003227 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1244 1029718003228 Protein of unknown function DUF262; Region: DUF262; cl14890 1029718003229 Protein of unknown function DUF262; Region: DUF262; cl14890 1029718003230 Cupin domain; Region: Cupin_2; cl09118 1029718003231 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 1029718003232 active site 1029718003233 conformational flexibility of ligand binding pocket; other site 1029718003234 ADP-ribosylating toxin turn-turn motif; other site 1029718003235 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1029718003236 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1029718003237 dimanganese center [ion binding]; other site 1029718003238 Flavin Reductases; Region: FlaRed; cl00801 1029718003239 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 1029718003240 Rubredoxin [Energy production and conversion]; Region: COG1773 1029718003241 iron binding site [ion binding]; other site 1029718003242 Rubrerythrin [Energy production and conversion]; Region: COG1592 1029718003243 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1029718003244 binuclear metal center [ion binding]; other site 1029718003245 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 1029718003246 iron binding site [ion binding]; other site 1029718003247 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1029718003248 MatE; Region: MatE; cl10513 1029718003249 MatE; Region: MatE; cl10513 1029718003250 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1029718003251 Helix-turn-helix domains; Region: HTH; cl00088 1029718003252 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1029718003253 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1029718003254 tetramer interface [polypeptide binding]; other site 1029718003255 heme binding pocket [chemical binding]; other site 1029718003256 NADPH binding site [chemical binding]; other site 1029718003257 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1029718003258 metal binding site 2 [ion binding]; metal-binding site 1029718003259 putative DNA binding helix; other site 1029718003260 metal binding site 1 [ion binding]; metal-binding site 1029718003261 dimer interface [polypeptide binding]; other site 1029718003262 structural Zn2+ binding site [ion binding]; other site 1029718003263 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1029718003264 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 1029718003265 hypothetical protein, pseudogene 1029718003266 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1029718003267 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1029718003268 prophage SFBMP4, partial 1029718003269 CAAX protease self-immunity; Region: Abi; cl00558 1029718003270 virulence-associated protein E, N-ter only, pseudogene 1029718003271 BRO family, N-terminal domain; Region: Bro-N; cl10591 1029718003272 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 1029718003273 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1029718003274 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1029718003275 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1029718003276 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718003277 Family description; Region: UvrD_C_2; cl15862 1029718003278 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1029718003279 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 1029718003280 homodimer interface [polypeptide binding]; other site 1029718003281 putative active site [active] 1029718003282 catalytic site [active] 1029718003283 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1029718003284 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; cl15754 1029718003285 cofactor binding site; other site 1029718003286 DNA binding site [nucleotide binding] 1029718003287 substrate interaction site [chemical binding]; other site 1029718003288 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; cl15754 1029718003289 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1029718003290 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1029718003291 cofactor binding site; other site 1029718003292 DNA binding site [nucleotide binding] 1029718003293 substrate interaction site [chemical binding]; other site 1029718003294 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1029718003295 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1029718003296 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 1029718003297 S-adenosylmethionine binding site [chemical binding]; other site 1029718003298 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1029718003299 active site 1029718003300 NAD binding site [chemical binding]; other site 1029718003301 pyrophosphatase PpaX; Provisional; Region: PRK13288 1029718003302 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 1029718003303 active site 1029718003304 motif I; other site 1029718003305 motif II; other site 1029718003306 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1029718003307 dimer interface [polypeptide binding]; other site 1029718003308 putative CheW interface [polypeptide binding]; other site 1029718003309 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1029718003310 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1029718003311 dimer interface [polypeptide binding]; other site 1029718003312 putative CheW interface [polypeptide binding]; other site 1029718003313 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1029718003314 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 1029718003315 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 1029718003316 carboxyltransferase (CT) interaction site; other site 1029718003317 biotinylation site [posttranslational modification]; other site 1029718003318 oxaloacetate decarboxylase; Provisional; Region: PRK12331 1029718003319 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1029718003320 active site 1029718003321 catalytic residues [active] 1029718003322 metal binding site [ion binding]; metal-binding site 1029718003323 homodimer binding site [polypeptide binding]; other site 1029718003324 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1029718003325 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1029718003326 trimerization site [polypeptide binding]; other site 1029718003327 active site 1029718003328 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1029718003329 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 1029718003330 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029718003331 catalytic residue [active] 1029718003332 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 1029718003333 FeS assembly protein SufB; Region: sufB; TIGR01980 1029718003334 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 1029718003335 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 1029718003336 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1029718003337 Walker A/P-loop; other site 1029718003338 ATP binding site [chemical binding]; other site 1029718003339 Q-loop/lid; other site 1029718003340 ABC transporter signature motif; other site 1029718003341 Walker B; other site 1029718003342 D-loop; other site 1029718003343 H-loop/switch region; other site 1029718003344 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 1029718003345 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1029718003346 active site 1029718003347 motif I; other site 1029718003348 motif II; other site 1029718003349 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1029718003350 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1029718003351 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1029718003352 active site 1029718003353 dimer interface [polypeptide binding]; other site 1029718003354 metal binding site [ion binding]; metal-binding site 1029718003355 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1029718003356 Tetramer interface [polypeptide binding]; other site 1029718003357 active site 1029718003358 FMN-binding site [chemical binding]; other site 1029718003359 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 1029718003360 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 1029718003361 active site 1029718003362 hinge; other site 1029718003363 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1029718003364 NeuB family; Region: NeuB; cl00496 1029718003365 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 1029718003366 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1029718003367 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1029718003368 active site 1029718003369 dimer interface [polypeptide binding]; other site 1029718003370 effector binding site; other site 1029718003371 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1029718003372 TSCPD domain; Region: TSCPD; cl14834 1029718003373 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 1029718003374 Helix-turn-helix domains; Region: HTH; cl00088 1029718003375 Domain of unknown function (DUF378); Region: DUF378; cl00943 1029718003376 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1029718003377 putative acyl-acceptor binding pocket; other site 1029718003378 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1029718003379 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1029718003380 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1029718003381 active site 1029718003382 HIGH motif; other site 1029718003383 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1029718003384 active site 1029718003385 KMSKS motif; other site 1029718003386 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1029718003387 FeoA domain; Region: FeoA; cl00838 1029718003388 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1029718003389 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1029718003390 G1 box; other site 1029718003391 GTP/Mg2+ binding site [chemical binding]; other site 1029718003392 Switch I region; other site 1029718003393 G2 box; other site 1029718003394 G3 box; other site 1029718003395 Switch II region; other site 1029718003396 G4 box; other site 1029718003397 G5 box; other site 1029718003398 Nucleoside recognition; Region: Gate; cl00486 1029718003399 Nucleoside recognition; Region: Gate; cl00486 1029718003400 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1029718003401 Putative carbohydrate binding domain; Region: CBM_X; cl05621 1029718003402 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 1029718003403 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 1029718003404 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1029718003405 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1029718003406 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1029718003407 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 1029718003408 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1029718003409 active site 1029718003410 HIGH motif; other site 1029718003411 KMSK motif region; other site 1029718003412 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1029718003413 tRNA binding surface [nucleotide binding]; other site 1029718003414 anticodon binding site; other site 1029718003415 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 1029718003416 S-adenosylmethionine binding site [chemical binding]; other site 1029718003417 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1029718003418 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1029718003419 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1029718003420 Uncharacterized conserved protein [Function unknown]; Region: COG1543 1029718003421 Arginase family; Region: Arginase; cl00306 1029718003422 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1029718003423 active site 1029718003424 substrate binding site [chemical binding]; other site 1029718003425 catalytic site [active] 1029718003426 glutamate dehydrogenase; Provisional; Region: PRK09414 1029718003427 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1029718003428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718003429 NAD(P) binding pocket [chemical binding]; other site 1029718003430 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 1029718003431 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 1029718003432 active site 1029718003433 ADP/pyrophosphate binding site [chemical binding]; other site 1029718003434 dimerization interface [polypeptide binding]; other site 1029718003435 allosteric effector site; other site 1029718003436 fructose-1,6-bisphosphate binding site; other site 1029718003437 Bacitracin resistance protein BacA; Region: BacA; cl00858 1029718003438 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1029718003439 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029718003440 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1029718003441 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1029718003442 catalytic triad [active] 1029718003443 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1029718003444 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1029718003445 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 1029718003446 active site 1029718003447 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718003448 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1029718003449 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1029718003450 NAD binding site [chemical binding]; other site 1029718003451 substrate binding site [chemical binding]; other site 1029718003452 homodimer interface [polypeptide binding]; other site 1029718003453 active site 1029718003454 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1029718003455 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 1029718003456 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 1029718003457 active site 1029718003458 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 1029718003459 Sodium:solute symporter family; Region: SSF; cl00456 1029718003460 cytosine deaminase; Provisional; Region: PRK09230 1029718003461 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 1029718003462 active site 1029718003463 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1029718003464 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1029718003465 putative metal binding site; other site 1029718003466 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1029718003467 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1029718003468 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1029718003469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718003470 Walker A/P-loop; other site 1029718003471 ATP binding site [chemical binding]; other site 1029718003472 Q-loop/lid; other site 1029718003473 ABC transporter signature motif; other site 1029718003474 Walker B; other site 1029718003475 D-loop; other site 1029718003476 H-loop/switch region; other site 1029718003477 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1029718003478 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1029718003479 NodB motif; other site 1029718003480 active site 1029718003481 catalytic site [active] 1029718003482 Zn binding site [ion binding]; other site 1029718003483 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1029718003484 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1029718003485 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1029718003486 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1029718003487 RNA-binding protein, pseudogene 1029718003488 peptide chain release factor 2; Provisional; Region: PRK05589 1029718003489 RF-1 domain; Region: RF-1; cl02875 1029718003490 RF-1 domain; Region: RF-1; cl02875 1029718003491 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1029718003492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718003493 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 1029718003494 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 1029718003495 nucleotide binding region [chemical binding]; other site 1029718003496 ATP-binding site [chemical binding]; other site 1029718003497 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 A site; Region: RaiA; cd00552 1029718003498 30S subunit binding site; other site 1029718003499 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1029718003500 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029718003501 active site 1029718003502 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1029718003503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718003504 Family description; Region: UvrD_C_2; cl15862 1029718003505 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1029718003506 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 1029718003507 active site 1029718003508 dimer interface [polypeptide binding]; other site 1029718003509 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1029718003510 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1029718003511 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1029718003512 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1029718003513 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 1029718003514 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029718003515 stage II sporulation protein D; Region: spore_II_D; TIGR02870 1029718003516 Stage II sporulation protein; Region: SpoIID; pfam08486 1029718003517 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1029718003518 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 1029718003519 hinge; other site 1029718003520 active site 1029718003521 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1029718003522 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 1029718003523 active site 1029718003524 homodimer interface [polypeptide binding]; other site 1029718003525 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1029718003526 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 1029718003527 Mg++ binding site [ion binding]; other site 1029718003528 putative catalytic motif [active] 1029718003529 substrate binding site [chemical binding]; other site 1029718003530 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029718003531 active site 1029718003532 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1029718003533 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1029718003534 active site 1029718003535 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1029718003536 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1029718003537 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1029718003538 RF-1 domain; Region: RF-1; cl02875 1029718003539 RF-1 domain; Region: RF-1; cl02875 1029718003540 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 1029718003541 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1029718003542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718003543 thymidine kinase; Provisional; Region: PRK04296 1029718003544 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718003545 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 1029718003546 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1029718003547 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1029718003548 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 1029718003549 RNA binding site [nucleotide binding]; other site 1029718003550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718003551 Walker A motif; other site 1029718003552 ATP binding site [chemical binding]; other site 1029718003553 Walker B motif; other site 1029718003554 CTP synthetase; Validated; Region: pyrG; PRK05380 1029718003555 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 1029718003556 Catalytic site [active] 1029718003557 active site 1029718003558 UTP binding site [chemical binding]; other site 1029718003559 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1029718003560 active site 1029718003561 putative oxyanion hole; other site 1029718003562 catalytic triad [active] 1029718003563 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1029718003564 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 1029718003565 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 1029718003566 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 1029718003567 Spore germination protein; Region: Spore_permease; cl15802 1029718003568 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1029718003569 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1029718003570 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1029718003571 cyanophycin synthetase; Provisional; Region: PRK14016 1029718003572 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1029718003573 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029718003574 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1029718003575 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1029718003576 proposed catalytic triad [active] 1029718003577 active site nucleophile [active] 1029718003578 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1029718003579 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1029718003580 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 1029718003581 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 1029718003582 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 1029718003583 YabG peptidase U57; Region: Peptidase_U57; cl05250 1029718003584 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1029718003585 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1029718003586 NAD binding site [chemical binding]; other site 1029718003587 homotetramer interface [polypeptide binding]; other site 1029718003588 homodimer interface [polypeptide binding]; other site 1029718003589 substrate binding site [chemical binding]; other site 1029718003590 active site 1029718003591 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1029718003592 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 1029718003593 substrate binding site [chemical binding]; other site 1029718003594 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 1029718003595 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1029718003596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718003597 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029718003598 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1029718003599 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1029718003600 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1029718003601 VanW like protein; Region: VanW; pfam04294 1029718003602 G5 domain; Region: G5; pfam07501 1029718003603 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1029718003604 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1029718003605 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1029718003606 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1029718003607 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1029718003608 minor groove reading motif; other site 1029718003609 helix-hairpin-helix signature motif; other site 1029718003610 substrate binding pocket [chemical binding]; other site 1029718003611 active site 1029718003612 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1029718003613 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1029718003614 putative acyl-acceptor binding pocket; other site 1029718003615 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1029718003616 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1029718003617 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 1029718003618 MgtE intracellular N domain; Region: MgtE_N; cl15244 1029718003619 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 1029718003620 Protein of unknown function (DUF421); Region: DUF421; cl00990 1029718003621 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 1029718003622 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 1029718003623 hypothetical protein; Provisional; Region: PRK08185 1029718003624 intersubunit interface [polypeptide binding]; other site 1029718003625 active site 1029718003626 zinc binding site [ion binding]; other site 1029718003627 Na+ binding site [ion binding]; other site 1029718003628 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1029718003629 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1029718003630 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1029718003631 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1029718003632 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1029718003633 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1029718003634 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1029718003635 G1 box; other site 1029718003636 GTP/Mg2+ binding site [chemical binding]; other site 1029718003637 Switch I region; other site 1029718003638 G2 box; other site 1029718003639 G3 box; other site 1029718003640 Switch II region; other site 1029718003641 G4 box; other site 1029718003642 G5 box; other site 1029718003643 Nucleoside recognition; Region: Gate; cl00486 1029718003644 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1029718003645 Nucleoside recognition; Region: Gate; cl00486 1029718003646 FeoA domain; Region: FeoA; cl00838 1029718003647 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1029718003648 metal binding site [ion binding]; metal-binding site 1029718003649 oligoendopeptidase F; Region: pepF; TIGR00181 1029718003650 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1029718003651 active site 1029718003652 Zn binding site [ion binding]; other site 1029718003653 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1029718003654 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 1029718003655 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1029718003656 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1029718003657 Zn binding site [ion binding]; other site 1029718003658 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1029718003659 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1029718003660 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1029718003661 DNA binding site [nucleotide binding] 1029718003662 domain linker motif; other site 1029718003663 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 1029718003664 dimerization interface [polypeptide binding]; other site 1029718003665 ligand binding site [chemical binding]; other site 1029718003666 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1029718003667 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1029718003668 HIGH motif; other site 1029718003669 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1029718003670 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1029718003671 active site 1029718003672 KMSKS motif; other site 1029718003673 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1029718003674 tRNA binding surface [nucleotide binding]; other site 1029718003675 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1029718003676 hypothetical protein, pseudogene 1029718003677 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1029718003678 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1029718003679 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 1029718003680 ATP binding site [chemical binding]; other site 1029718003681 putative Mg++ binding site [ion binding]; other site 1029718003682 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 1029718003683 nucleotide binding region [chemical binding]; other site 1029718003684 ATP-binding site [chemical binding]; other site 1029718003685 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1029718003686 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1029718003687 active site 1029718003688 HIGH motif; other site 1029718003689 dimer interface [polypeptide binding]; other site 1029718003690 KMSKS motif; other site 1029718003691 Probable zinc-binding domain; Region: zf-trcl; pfam13451 1029718003692 YfhG lipoprotein; Region: Lipoprotein_20; cl08141 1029718003693 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1029718003694 GAF domain; Region: GAF; cl15785 1029718003695 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1029718003696 metal binding site [ion binding]; metal-binding site 1029718003697 active site 1029718003698 I-site; other site 1029718003699 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1029718003700 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1029718003701 active site 1029718003702 metal binding site [ion binding]; metal-binding site 1029718003703 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1029718003704 synthetase active site [active] 1029718003705 NTP binding site [chemical binding]; other site 1029718003706 metal binding site [ion binding]; metal-binding site 1029718003707 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1029718003708 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1029718003709 G1 box; other site 1029718003710 putative GEF interaction site [polypeptide binding]; other site 1029718003711 GTP/Mg2+ binding site [chemical binding]; other site 1029718003712 Switch I region; other site 1029718003713 G2 box; other site 1029718003714 G3 box; other site 1029718003715 Switch II region; other site 1029718003716 G4 box; other site 1029718003717 G5 box; other site 1029718003718 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 1029718003719 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 1029718003720 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1029718003721 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1029718003722 active site 1029718003723 HIGH motif; other site 1029718003724 dimer interface [polypeptide binding]; other site 1029718003725 KMSKS motif; other site 1029718003726 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; cl09940 1029718003727 Putative glucoamylase; Region: Glycoamylase; pfam10091 1029718003728 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 1029718003729 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 1029718003730 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1029718003731 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1029718003732 Putative carbohydrate binding domain; Region: CBM_X; cl05621 1029718003733 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 1029718003734 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 1029718003735 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1029718003736 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1029718003737 putative catalytic cysteine [active] 1029718003738 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1029718003739 putative active site [active] 1029718003740 metal binding site [ion binding]; metal-binding site 1029718003741 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1029718003742 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1029718003743 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 1029718003744 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1029718003745 active site 1029718003746 motif I; other site 1029718003747 motif II; other site 1029718003748 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 1029718003749 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1029718003750 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 1029718003751 active site 1029718003752 substrate binding site [chemical binding]; other site 1029718003753 metal binding site [ion binding]; metal-binding site 1029718003754 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1029718003755 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1029718003756 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 1029718003757 TPP-binding site [chemical binding]; other site 1029718003758 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 1029718003759 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 1029718003760 dimer interface [polypeptide binding]; other site 1029718003761 PYR/PP interface [polypeptide binding]; other site 1029718003762 TPP binding site [chemical binding]; other site 1029718003763 substrate binding site [chemical binding]; other site 1029718003764 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1029718003765 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 1029718003766 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1029718003767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1029718003768 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1029718003769 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1029718003770 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 1029718003771 catalytic residues [active] 1029718003772 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1029718003773 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 1029718003774 active site 1029718003775 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1029718003776 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1029718003777 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1029718003778 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; cl09155 1029718003779 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 1029718003780 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 1029718003781 active site 1029718003782 metal binding site [ion binding]; metal-binding site 1029718003783 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 1029718003784 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 1029718003785 23S rRNA interface [nucleotide binding]; other site 1029718003786 L3 interface [polypeptide binding]; other site 1029718003787 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1029718003788 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 1029718003789 dimerization interface 3.5A [polypeptide binding]; other site 1029718003790 active site 1029718003791 Cobalt transport protein; Region: CbiQ; cl00463 1029718003792 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 1029718003793 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 1029718003794 Walker A/P-loop; other site 1029718003795 ATP binding site [chemical binding]; other site 1029718003796 Q-loop/lid; other site 1029718003797 ABC transporter signature motif; other site 1029718003798 Walker B; other site 1029718003799 D-loop; other site 1029718003800 H-loop/switch region; other site 1029718003801 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 1029718003802 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 1029718003803 Walker A/P-loop; other site 1029718003804 ATP binding site [chemical binding]; other site 1029718003805 Q-loop/lid; other site 1029718003806 ABC transporter signature motif; other site 1029718003807 Walker B; other site 1029718003808 D-loop; other site 1029718003809 H-loop/switch region; other site 1029718003810 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 1029718003811 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1029718003812 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1029718003813 alphaNTD homodimer interface [polypeptide binding]; other site 1029718003814 alphaNTD - beta interaction site [polypeptide binding]; other site 1029718003815 alphaNTD - beta' interaction site [polypeptide binding]; other site 1029718003816 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 1029718003817 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1029718003818 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1029718003819 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 1029718003820 RNA binding surface [nucleotide binding]; other site 1029718003821 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 1029718003822 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 1029718003823 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1029718003824 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 1029718003825 rRNA binding site [nucleotide binding]; other site 1029718003826 predicted 30S ribosome binding site; other site 1029718003827 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 1029718003828 active site 1029718003829 adenylate kinase; Reviewed; Region: adk; PRK00279 1029718003830 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 1029718003831 AMP-binding site [chemical binding]; other site 1029718003832 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1029718003833 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1029718003834 SecY translocase; Region: SecY; pfam00344 1029718003835 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 1029718003836 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 1029718003837 23S rRNA binding site [nucleotide binding]; other site 1029718003838 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1029718003839 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1029718003840 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1029718003841 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 1029718003842 5S rRNA interface [nucleotide binding]; other site 1029718003843 23S rRNA interface [nucleotide binding]; other site 1029718003844 L5 interface [polypeptide binding]; other site 1029718003845 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1029718003846 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1029718003847 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1029718003848 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 1029718003849 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 1029718003850 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1029718003851 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1029718003852 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1029718003853 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1029718003854 KOW motif; Region: KOW; cl00354 1029718003855 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 1029718003856 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 1029718003857 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 1029718003858 23S rRNA interface [nucleotide binding]; other site 1029718003859 putative translocon interaction site; other site 1029718003860 signal recognition particle (SRP54) interaction site; other site 1029718003861 L23 interface [polypeptide binding]; other site 1029718003862 trigger factor interaction site; other site 1029718003863 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 1029718003864 23S rRNA interface [nucleotide binding]; other site 1029718003865 5S rRNA interface [nucleotide binding]; other site 1029718003866 putative antibiotic binding site [chemical binding]; other site 1029718003867 L25 interface [polypeptide binding]; other site 1029718003868 L27 interface [polypeptide binding]; other site 1029718003869 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1029718003870 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 1029718003871 G-X-X-G motif; other site 1029718003872 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1029718003873 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 1029718003874 putative translocon binding site; other site 1029718003875 protein-rRNA interface [nucleotide binding]; other site 1029718003876 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 1029718003877 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1029718003878 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1029718003879 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1029718003880 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 1029718003881 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1029718003882 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 1029718003883 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 1029718003884 elongation factor Tu; Reviewed; Region: PRK00049 1029718003885 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1029718003886 G1 box; other site 1029718003887 GEF interaction site [polypeptide binding]; other site 1029718003888 GTP/Mg2+ binding site [chemical binding]; other site 1029718003889 Switch I region; other site 1029718003890 G2 box; other site 1029718003891 G3 box; other site 1029718003892 Switch II region; other site 1029718003893 G4 box; other site 1029718003894 G5 box; other site 1029718003895 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 1029718003896 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 1029718003897 Antibiotic Binding Site [chemical binding]; other site 1029718003898 elongation factor G; Reviewed; Region: PRK00007 1029718003899 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1029718003900 G1 box; other site 1029718003901 putative GEF interaction site [polypeptide binding]; other site 1029718003902 GTP/Mg2+ binding site [chemical binding]; other site 1029718003903 Switch I region; other site 1029718003904 G2 box; other site 1029718003905 G3 box; other site 1029718003906 Switch II region; other site 1029718003907 G4 box; other site 1029718003908 G5 box; other site 1029718003909 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 1029718003910 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 1029718003911 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 1029718003912 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 1029718003913 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 1029718003914 S17 interaction site [polypeptide binding]; other site 1029718003915 S8 interaction site; other site 1029718003916 16S rRNA interaction site [nucleotide binding]; other site 1029718003917 streptomycin interaction site [chemical binding]; other site 1029718003918 23S rRNA interaction site [nucleotide binding]; other site 1029718003919 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1029718003920 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1029718003921 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1029718003922 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 1029718003923 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1029718003924 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1029718003925 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1029718003926 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1029718003927 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1029718003928 G-loop; other site 1029718003929 DNA binding site [nucleotide binding] 1029718003930 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1029718003931 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; cl04593 1029718003932 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1029718003933 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; cl04593 1029718003934 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 1029718003935 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 1029718003936 RPB1 interaction site [polypeptide binding]; other site 1029718003937 RPB10 interaction site [polypeptide binding]; other site 1029718003938 RPB11 interaction site [polypeptide binding]; other site 1029718003939 RPB3 interaction site [polypeptide binding]; other site 1029718003940 RPB12 interaction site [polypeptide binding]; other site 1029718003941 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 1029718003942 core dimer interface [polypeptide binding]; other site 1029718003943 peripheral dimer interface [polypeptide binding]; other site 1029718003944 L10 interface [polypeptide binding]; other site 1029718003945 L11 interface [polypeptide binding]; other site 1029718003946 putative EF-Tu interaction site [polypeptide binding]; other site 1029718003947 putative EF-G interaction site [polypeptide binding]; other site 1029718003948 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 1029718003949 23S rRNA interface [nucleotide binding]; other site 1029718003950 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1029718003951 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 1029718003952 mRNA/rRNA interface [nucleotide binding]; other site 1029718003953 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1029718003954 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 1029718003955 23S rRNA interface [nucleotide binding]; other site 1029718003956 L7/L12 interface [polypeptide binding]; other site 1029718003957 putative thiostrepton binding site; other site 1029718003958 L25 interface [polypeptide binding]; other site 1029718003959 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1029718003960 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1029718003961 putative homodimer interface [polypeptide binding]; other site 1029718003962 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 1029718003963 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 1029718003964 elongation factor Tu; Reviewed; Region: PRK00049 1029718003965 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1029718003966 G1 box; other site 1029718003967 GEF interaction site [polypeptide binding]; other site 1029718003968 GTP/Mg2+ binding site [chemical binding]; other site 1029718003969 Switch I region; other site 1029718003970 G2 box; other site 1029718003971 G3 box; other site 1029718003972 Switch II region; other site 1029718003973 G4 box; other site 1029718003974 G5 box; other site 1029718003975 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 1029718003976 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 1029718003977 Antibiotic Binding Site [chemical binding]; other site 1029718003978 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1029718003979 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1029718003980 Helix-turn-helix domains; Region: HTH; cl00088 1029718003981 YacP-like NYN domain; Region: NYN_YacP; cl01491 1029718003982 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1029718003983 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1029718003984 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1029718003985 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 1029718003986 active site 1029718003987 metal binding site [ion binding]; metal-binding site 1029718003988 dimerization interface [polypeptide binding]; other site 1029718003989 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1029718003990 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1029718003991 active site 1029718003992 HIGH motif; other site 1029718003993 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1029718003994 KMSKS motif; other site 1029718003995 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1029718003996 tRNA binding surface [nucleotide binding]; other site 1029718003997 anticodon binding site; other site 1029718003998 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1029718003999 substrate binding site; other site 1029718004000 dimer interface; other site 1029718004001 Clp protease ATP binding subunit; Region: clpC; CHL00095 1029718004002 Clp amino terminal domain; Region: Clp_N; pfam02861 1029718004003 Clp amino terminal domain; Region: Clp_N; pfam02861 1029718004004 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 1029718004005 Walker A motif; other site 1029718004006 ATP binding site [chemical binding]; other site 1029718004007 Walker B motif; other site 1029718004008 arginine finger; other site 1029718004009 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 1029718004010 Walker A motif; other site 1029718004011 ATP binding site [chemical binding]; other site 1029718004012 Walker B motif; other site 1029718004013 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1029718004014 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 1029718004015 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 1029718004016 ADP binding site [chemical binding]; other site 1029718004017 phosphagen binding site; other site 1029718004018 substrate specificity loop; other site 1029718004019 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1029718004020 UvrB/uvrC motif; Region: UVR; pfam02151 1029718004021 hypothetical protein; Provisional; Region: PRK13795 1029718004022 4Fe-4S binding domain; Region: Fer4; cl02805 1029718004023 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1029718004024 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 1029718004025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718004026 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1029718004027 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 1029718004028 TMP-binding site; other site 1029718004029 ATP-binding site [chemical binding]; other site 1029718004030 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1029718004031 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 1029718004032 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029718004033 catalytic residue [active] 1029718004034 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1029718004035 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1029718004036 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1029718004037 dimer interface [polypeptide binding]; other site 1029718004038 catalytic triad [active] 1029718004039 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 1029718004040 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1029718004041 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029718004042 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1029718004043 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 attaches...; Region: class_II_aaRS-like_core; cl00268 1029718004044 motif 1; other site 1029718004045 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 1029718004046 active site 1029718004047 motif 2; other site 1029718004048 motif 3; other site 1029718004049 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 1029718004050 anticodon binding site; other site 1029718004051 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1029718004052 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 1029718004053 Walker A motif; other site 1029718004054 ATP binding site [chemical binding]; other site 1029718004055 Walker B motif; other site 1029718004056 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1029718004057 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 1029718004058 dimer interface [polypeptide binding]; other site 1029718004059 putative anticodon binding site; other site 1029718004060 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 1029718004061 motif 1; other site 1029718004062 active site 1029718004063 motif 2; other site 1029718004064 motif 3; other site 1029718004065 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1029718004066 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1029718004067 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1029718004068 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1029718004069 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 1029718004070 FMN binding site [chemical binding]; other site 1029718004071 active site 1029718004072 catalytic residues [active] 1029718004073 substrate binding site [chemical binding]; other site 1029718004074 FtsH Extracellular; Region: FtsH_ext; pfam06480 1029718004075 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1029718004076 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 1029718004077 Walker A motif; other site 1029718004078 ATP binding site [chemical binding]; other site 1029718004079 Walker B motif; other site 1029718004080 arginine finger; other site 1029718004081 Peptidase family M41; Region: Peptidase_M41; pfam01434 1029718004082 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029718004083 active site 1029718004084 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 1029718004085 Ligand Binding Site [chemical binding]; other site 1029718004086 B3/4 domain; Region: B3_4; cl11458 1029718004087 stage II sporulation protein E; Region: spore_II_E; TIGR02865 1029718004088 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; cl00120 1029718004089 hypothetical protein; Provisional; Region: PRK05807 1029718004090 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 1029718004091 RNA binding site [nucleotide binding]; other site 1029718004092 Septum formation initiator; Region: DivIC; cl11433 1029718004093 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 1029718004094 YabP family; Region: YabP; cl06766 1029718004095 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; cl09940 1029718004096 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 1029718004097 IHF dimer interface [polypeptide binding]; other site 1029718004098 IHF - DNA interface [nucleotide binding]; other site 1029718004099 MatE; Region: MatE; cl10513 1029718004100 MviN-like protein; Region: MVIN; pfam03023 1029718004101 stage V sporulation protein T; Region: spore_V_T; TIGR02851 1029718004102 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1029718004103 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1029718004104 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1029718004105 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1029718004106 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1029718004107 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1029718004108 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 1029718004109 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 1029718004110 ATP binding site [chemical binding]; other site 1029718004111 putative Mg++ binding site [ion binding]; other site 1029718004112 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 1029718004113 nucleotide binding region [chemical binding]; other site 1029718004114 ATP-binding site [chemical binding]; other site 1029718004115 TRCF domain; Region: TRCF; cl04088 1029718004116 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 1029718004117 putative active site [active] 1029718004118 catalytic residue [active] 1029718004119 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1029718004120 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 1029718004121 dimerization interface [polypeptide binding]; other site 1029718004122 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 1029718004123 dimer interface [polypeptide binding]; other site 1029718004124 phosphorylation site [posttranslational modification] 1029718004125 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 1029718004126 ATP binding site [chemical binding]; other site 1029718004127 Mg2+ binding site [ion binding]; other site 1029718004128 G-X-G motif; other site 1029718004129 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1029718004130 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 1029718004131 active site 1029718004132 phosphorylation site [posttranslational modification] 1029718004133 intermolecular recognition site; other site 1029718004134 dimerization interface [polypeptide binding]; other site 1029718004135 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 1029718004136 DNA binding site [nucleotide binding] 1029718004137 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1029718004138 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1029718004139 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1029718004140 active site 1029718004141 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1029718004142 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1029718004143 Substrate binding site; other site 1029718004144 Mg++ binding site; other site 1029718004145 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1029718004146 putative trimer interface [polypeptide binding]; other site 1029718004147 putative CoA binding site [chemical binding]; other site 1029718004148 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1029718004149 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 1029718004150 putative dimer interface [polypeptide binding]; other site 1029718004151 putative anticodon binding site; other site 1029718004152 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 1029718004153 homodimer interface [polypeptide binding]; other site 1029718004154 motif 1; other site 1029718004155 motif 2; other site 1029718004156 active site 1029718004157 motif 3; other site 1029718004158 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1029718004159 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1029718004160 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1029718004161 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1029718004162 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1029718004163 SpoVG; Region: SpoVG; cl00915 1029718004164 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1029718004165 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 1029718004166 interface (dimer of trimers) [polypeptide binding]; other site 1029718004167 Substrate-binding/catalytic site; other site 1029718004168 Zn-binding sites [ion binding]; other site 1029718004169 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1029718004170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718004171 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1029718004172 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 1029718004173 active site 1029718004174 metal binding site [ion binding]; metal-binding site 1029718004175 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1029718004176 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1029718004177 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1029718004178 G5 domain; Region: G5; pfam07501 1029718004179 3D domain; Region: 3D; cl01439 1029718004180 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1029718004181 active site 1029718004182 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1029718004183 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 1029718004184 PYR/PP interface [polypeptide binding]; other site 1029718004185 dimer interface [polypeptide binding]; other site 1029718004186 TPP binding site [chemical binding]; other site 1029718004187 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1029718004188 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 1029718004189 TPP-binding site [chemical binding]; other site 1029718004190 dimer interface [polypeptide binding]; other site 1029718004191 NMT1-like family; Region: NMT1_2; cl15260 1029718004192 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1029718004193 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 1029718004194 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 1029718004195 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1029718004196 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1029718004197 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1029718004198 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1029718004199 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1029718004200 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1029718004201 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1029718004202 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 1029718004203 Walker A/P-loop; other site 1029718004204 ATP binding site [chemical binding]; other site 1029718004205 Q-loop/lid; other site 1029718004206 ABC transporter signature motif; other site 1029718004207 Walker B; other site 1029718004208 D-loop; other site 1029718004209 H-loop/switch region; other site 1029718004210 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1029718004211 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 1029718004212 Walker A/P-loop; other site 1029718004213 ATP binding site [chemical binding]; other site 1029718004214 Q-loop/lid; other site 1029718004215 ABC transporter signature motif; other site 1029718004216 Walker B; other site 1029718004217 D-loop; other site 1029718004218 H-loop/switch region; other site 1029718004219 Cobalt transport protein; Region: CbiQ; cl00463 1029718004220 Sulfatase; Region: Sulfatase; cl10460 1029718004221 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1029718004222 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1029718004223 active site 1029718004224 HIGH motif; other site 1029718004225 KMSKS motif; other site 1029718004226 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1029718004227 tRNA binding surface [nucleotide binding]; other site 1029718004228 anticodon binding site; other site 1029718004229 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1029718004230 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1029718004231 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1029718004232 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 1029718004233 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 1029718004234 Walker A motif; other site 1029718004235 ATP binding site [chemical binding]; other site 1029718004236 Walker B motif; other site 1029718004237 arginine finger; other site 1029718004238 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1029718004239 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1029718004240 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 1029718004241 non-specific DNA binding site [nucleotide binding]; other site 1029718004242 salt bridge; other site 1029718004243 sequence-specific DNA binding site [nucleotide binding]; other site 1029718004244 Cupin domain; Region: Cupin_2; cl09118 1029718004245 replicative DNA helicase; Region: DnaB; TIGR00665 1029718004246 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1029718004247 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 1029718004248 Walker A motif; other site 1029718004249 ATP binding site [chemical binding]; other site 1029718004250 Walker B motif; other site 1029718004251 DNA binding loops [nucleotide binding] 1029718004252 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 1029718004253 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 1029718004254 hypothetical protein; Provisional; Region: PRK05590 1029718004255 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1029718004256 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1029718004257 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 1029718004258 hinge; other site 1029718004259 active site 1029718004260 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1029718004261 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1029718004262 active site 1029718004263 catalytic residues [active] 1029718004264 Peptidase family M23; Region: Peptidase_M23; pfam01551 1029718004265 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1029718004266 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1029718004267 DNA replication protein DnaC; Validated; Region: PRK06835 1029718004268 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718004269 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 1029718004270 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1029718004271 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 1029718004272 dimer interface [polypeptide binding]; other site 1029718004273 ssDNA binding site [nucleotide binding]; other site 1029718004274 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1029718004275 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 1029718004276 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1029718004277 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1029718004278 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 1029718004279 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1029718004280 catalytic residue [active] 1029718004281 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1029718004282 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1029718004283 ParB-like partition proteins; Region: parB_part; TIGR00180 1029718004284 ParB-like nuclease domain; Region: ParBc; cl02129 1029718004285 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 1029718004286 amidase catalytic site [active] 1029718004287 Zn binding residues [ion binding]; other site 1029718004288 substrate binding site [chemical binding]; other site 1029718004289 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; cl15754 1029718004290 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1029718004291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1029718004292 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1029718004293 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1029718004294 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1029718004295 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1029718004296 G1 box; other site 1029718004297 GTP/Mg2+ binding site [chemical binding]; other site 1029718004298 Switch I region; other site 1029718004299 G2 box; other site 1029718004300 Switch II region; other site 1029718004301 G3 box; other site 1029718004302 G4 box; other site 1029718004303 G5 box; other site 1029718004304 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1029718004305 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1029718004306 Haemolytic domain; Region: Haemolytic; cl00506 1029718004307 Ribonuclease P; Region: Ribonuclease_P; cl00457 1029718004308 Ribosomal protein L34; Region: Ribosomal_L34; cl00370