-- dump date 20140619_002906 -- class Genbank::misc_feature -- table misc_feature_note -- id note 565042000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 565042000002 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 565042000003 Walker A motif; other site 565042000004 ATP binding site [chemical binding]; other site 565042000005 Walker B motif; other site 565042000006 arginine finger; other site 565042000007 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 565042000008 DnaA box-binding interface [nucleotide binding]; other site 565042000009 DNA polymerase III subunit beta; Validated; Region: PRK07761 565042000010 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 565042000011 putative DNA binding surface [nucleotide binding]; other site 565042000012 dimer interface [polypeptide binding]; other site 565042000013 beta-clamp/clamp loader binding surface; other site 565042000014 beta-clamp/translesion DNA polymerase binding surface; other site 565042000015 recombination protein F; Reviewed; Region: recF; PRK00064 565042000016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042000017 Walker A/P-loop; other site 565042000018 ATP binding site [chemical binding]; other site 565042000019 Q-loop/lid; other site 565042000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042000021 ABC transporter signature motif; other site 565042000022 Walker B; other site 565042000023 D-loop; other site 565042000024 H-loop/switch region; other site 565042000025 Protein of unknown function (DUF721); Region: DUF721; pfam05258 565042000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 565042000027 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 565042000028 Mg2+ binding site [ion binding]; other site 565042000029 G-X-G motif; other site 565042000030 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 565042000031 anchoring element; other site 565042000032 dimer interface [polypeptide binding]; other site 565042000033 ATP binding site [chemical binding]; other site 565042000034 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 565042000035 active site 565042000036 putative metal-binding site [ion binding]; other site 565042000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 565042000038 DNA gyrase subunit A; Validated; Region: PRK05560 565042000039 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 565042000040 CAP-like domain; other site 565042000041 active site 565042000042 primary dimer interface [polypeptide binding]; other site 565042000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565042000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565042000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565042000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565042000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565042000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565042000049 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 565042000050 putative pectinesterase; Region: PLN02432; cl01911 565042000051 glutamate dehydrogenase; Provisional; Region: PRK09414 565042000052 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 565042000053 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 565042000054 NAD(P) binding site [chemical binding]; other site 565042000055 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 565042000056 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 565042000057 putative DNA binding site [nucleotide binding]; other site 565042000058 putative Zn2+ binding site [ion binding]; other site 565042000059 AsnC family; Region: AsnC_trans_reg; pfam01037 565042000060 aspartate aminotransferase; Provisional; Region: PRK05764 565042000061 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 565042000062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042000063 homodimer interface [polypeptide binding]; other site 565042000064 catalytic residue [active] 565042000065 Helix-turn-helix domain; Region: HTH_38; pfam13936 565042000066 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042000067 Integrase core domain; Region: rve; pfam00665 565042000068 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 565042000069 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565042000070 Walker A motif; other site 565042000071 ATP binding site [chemical binding]; other site 565042000072 Walker B motif; other site 565042000073 arginine finger; other site 565042000074 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 565042000075 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 565042000076 DNA-binding interface [nucleotide binding]; DNA binding site 565042000077 Integrase core domain; Region: rve; pfam00665 565042000078 Homeodomain-like domain; Region: HTH_23; cl17451 565042000079 AAA domain; Region: AAA_14; pfam13173 565042000080 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 565042000081 Protein of unknown function DUF45; Region: DUF45; pfam01863 565042000082 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 565042000083 AAA domain; Region: AAA_14; pfam13173 565042000084 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 565042000085 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 565042000086 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 565042000087 dimerization interface [polypeptide binding]; other site 565042000088 DPS ferroxidase diiron center [ion binding]; other site 565042000089 ion pore; other site 565042000090 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 565042000091 Domain of unknown function DUF21; Region: DUF21; pfam01595 565042000092 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 565042000093 Transporter associated domain; Region: CorC_HlyC; smart01091 565042000094 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 565042000095 active site clefts [active] 565042000096 zinc binding site [ion binding]; other site 565042000097 dimer interface [polypeptide binding]; other site 565042000098 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 565042000099 peroxiredoxin; Region: AhpC; TIGR03137 565042000100 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 565042000101 dimer interface [polypeptide binding]; other site 565042000102 decamer (pentamer of dimers) interface [polypeptide binding]; other site 565042000103 catalytic triad [active] 565042000104 peroxidatic and resolving cysteines [active] 565042000105 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 565042000106 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 565042000107 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565042000108 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 565042000109 catalytic residue [active] 565042000110 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 565042000111 catalytic residues [active] 565042000112 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 565042000113 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042000114 putative substrate translocation pore; other site 565042000115 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042000116 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042000117 DNA binding site [nucleotide binding] 565042000118 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 565042000119 dimerization interface [polypeptide binding]; other site 565042000120 ligand binding site [chemical binding]; other site 565042000121 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 565042000122 Divergent AAA domain; Region: AAA_4; pfam04326 565042000123 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 565042000124 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 565042000125 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 565042000126 BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of...; Region: GH25_BacA-like; cd06418 565042000127 active site 565042000128 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 565042000129 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 565042000130 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 565042000131 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 565042000132 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 565042000133 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 565042000134 Na binding site [ion binding]; other site 565042000135 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 565042000136 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 565042000137 active site 565042000138 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 565042000139 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 565042000140 active site 565042000141 HIGH motif; other site 565042000142 dimer interface [polypeptide binding]; other site 565042000143 KMSKS motif; other site 565042000144 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 565042000145 homodimer interface [polypeptide binding]; other site 565042000146 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 565042000147 active site pocket [active] 565042000148 Rhomboid family; Region: Rhomboid; pfam01694 565042000149 putative septation inhibitor protein; Reviewed; Region: PRK02251 565042000150 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 565042000151 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd05830 565042000152 active site 565042000153 catalytic site [active] 565042000154 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 565042000155 Glutamine amidotransferase class-I; Region: GATase; pfam00117 565042000156 glutamine binding [chemical binding]; other site 565042000157 catalytic triad [active] 565042000158 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 565042000159 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 565042000160 active site 565042000161 ATP binding site [chemical binding]; other site 565042000162 substrate binding site [chemical binding]; other site 565042000163 activation loop (A-loop); other site 565042000164 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 565042000165 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 565042000166 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 565042000167 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 565042000168 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 565042000169 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 565042000170 active site 565042000171 ATP binding site [chemical binding]; other site 565042000172 substrate binding site [chemical binding]; other site 565042000173 activation loop (A-loop); other site 565042000174 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 565042000175 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 565042000176 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 565042000177 active site 565042000178 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 565042000179 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 565042000180 phosphopeptide binding site; other site 565042000181 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 565042000182 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 565042000183 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 565042000184 phosphopeptide binding site; other site 565042000185 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 565042000186 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 565042000187 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565042000188 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 565042000189 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 565042000190 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 565042000191 metal ion-dependent adhesion site (MIDAS); other site 565042000192 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 565042000193 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 565042000194 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 565042000195 putative dimer interface [polypeptide binding]; other site 565042000196 aromatic amino acid exporter; Provisional; Region: PRK11689 565042000197 Putative esterase; Region: Esterase; pfam00756 565042000198 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 565042000199 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 565042000200 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 565042000201 methionine sulfoxide reductase B; Provisional; Region: PRK00222 565042000202 SelR domain; Region: SelR; pfam01641 565042000203 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 565042000204 PLD-like domain; Region: PLDc_2; pfam13091 565042000205 putative homodimer interface [polypeptide binding]; other site 565042000206 putative active site [active] 565042000207 catalytic site [active] 565042000208 DEAD-like helicases superfamily; Region: DEXDc; smart00487 565042000209 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 565042000210 ATP binding site [chemical binding]; other site 565042000211 putative Mg++ binding site [ion binding]; other site 565042000212 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 565042000213 nucleotide binding region [chemical binding]; other site 565042000214 ATP-binding site [chemical binding]; other site 565042000215 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 565042000216 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 565042000217 active site 565042000218 8-oxo-dGMP binding site [chemical binding]; other site 565042000219 nudix motif; other site 565042000220 metal binding site [ion binding]; metal-binding site 565042000221 hypothetical protein; Provisional; Region: PRK01119 565042000222 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 565042000223 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565042000224 Coenzyme A binding pocket [chemical binding]; other site 565042000225 Haemolysin-III related; Region: HlyIII; pfam03006 565042000226 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 565042000227 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 565042000228 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 565042000229 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 565042000230 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 565042000231 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 565042000232 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 565042000233 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 565042000234 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042000235 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042000236 DNA binding site [nucleotide binding] 565042000237 domain linker motif; other site 565042000238 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 565042000239 dimerization interface [polypeptide binding]; other site 565042000240 ligand binding site [chemical binding]; other site 565042000241 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 565042000242 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 565042000243 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 565042000244 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 565042000245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 565042000246 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 565042000247 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 565042000248 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 565042000249 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 565042000250 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 565042000251 ferredoxin-NADP+ reductase; Region: PLN02852 565042000252 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 565042000253 heat shock protein HtpX; Provisional; Region: PRK03072 565042000254 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 565042000255 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 565042000256 active site 565042000257 intersubunit interface [polypeptide binding]; other site 565042000258 zinc binding site [ion binding]; other site 565042000259 Na+ binding site [ion binding]; other site 565042000260 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 565042000261 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 565042000262 GDP-binding site [chemical binding]; other site 565042000263 ACT binding site; other site 565042000264 IMP binding site; other site 565042000265 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 565042000266 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 565042000267 Cl- selectivity filter; other site 565042000268 Cl- binding residues [ion binding]; other site 565042000269 pore gating glutamate residue; other site 565042000270 dimer interface [polypeptide binding]; other site 565042000271 H+/Cl- coupling transport residue; other site 565042000272 TrkA-C domain; Region: TrkA_C; pfam02080 565042000273 CrcB-like protein; Region: CRCB; pfam02537 565042000274 CrcB-like protein; Region: CRCB; pfam02537 565042000275 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042000276 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042000277 DNA binding site [nucleotide binding] 565042000278 domain linker motif; other site 565042000279 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 565042000280 dimerization interface [polypeptide binding]; other site 565042000281 ligand binding site [chemical binding]; other site 565042000282 sodium binding site [ion binding]; other site 565042000283 K+ potassium transporter; Region: K_trans; pfam02705 565042000284 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 565042000285 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 565042000286 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042000287 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042000288 DNA binding site [nucleotide binding] 565042000289 domain linker motif; other site 565042000290 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 565042000291 dimerization interface [polypeptide binding]; other site 565042000292 ligand binding site [chemical binding]; other site 565042000293 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 565042000294 Helix-turn-helix domain; Region: HTH_28; pfam13518 565042000295 Winged helix-turn helix; Region: HTH_29; pfam13551 565042000296 putative transposase OrfB; Reviewed; Region: PHA02517 565042000297 HTH-like domain; Region: HTH_21; pfam13276 565042000298 Integrase core domain; Region: rve; pfam00665 565042000299 Integrase core domain; Region: rve_2; pfam13333 565042000300 sucrose phosphorylase; Provisional; Region: PRK13840 565042000301 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 565042000302 active site 565042000303 homodimer interface [polypeptide binding]; other site 565042000304 catalytic site [active] 565042000305 Domain of unknown function (DUF1964); Region: DUF1964; pfam09244 565042000306 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042000307 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 565042000308 putative substrate translocation pore; other site 565042000309 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042000310 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042000311 DNA binding site [nucleotide binding] 565042000312 domain linker motif; other site 565042000313 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 565042000314 dimerization interface [polypeptide binding]; other site 565042000315 ligand binding site [chemical binding]; other site 565042000316 sodium binding site [ion binding]; other site 565042000317 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 565042000318 metabolite-proton symporter; Region: 2A0106; TIGR00883 565042000319 putative substrate translocation pore; other site 565042000320 ketol-acid reductoisomerase; Provisional; Region: PRK05479 565042000321 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 565042000322 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 565042000323 ketol-acid reductoisomerase; Provisional; Region: PRK05479 565042000324 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 565042000325 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 565042000326 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), trehalose synthase (also called maltose alpha-D-glucosyltransferase), and related proteins; Region: AmyAc_OligoGlu_TS; cd11332 565042000327 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 565042000328 active site 565042000329 catalytic site [active] 565042000330 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 565042000331 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042000332 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042000333 DNA binding site [nucleotide binding] 565042000334 domain linker motif; other site 565042000335 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 565042000336 ligand binding site [chemical binding]; other site 565042000337 dimerization interface [polypeptide binding]; other site 565042000338 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 565042000339 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 565042000340 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 565042000341 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 565042000342 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042000343 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042000344 DNA binding site [nucleotide binding] 565042000345 domain linker motif; other site 565042000346 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 565042000347 ligand binding site [chemical binding]; other site 565042000348 dimerization interface [polypeptide binding]; other site 565042000349 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 565042000350 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 565042000351 ABC-ATPase subunit interface; other site 565042000352 putative PBP binding loops; other site 565042000353 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 565042000354 This family represents an uncharacterized glycosyl hydrolase family 31 (GH31) enzyme found in bacteria and eukaryotes that is related to the XylS xylosidase of Sulfolobus solfataricus. Alpha-xylosidases catalyze the release of an alpha-xylose residue...; Region: GH31_xylosidase_XylS-like; cd06595 565042000355 putative active site [active] 565042000356 putative catalytic site [active] 565042000357 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 565042000358 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 565042000359 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 565042000360 nucleotide binding site [chemical binding]; other site 565042000361 GrpE; Region: GrpE; pfam01025 565042000362 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 565042000363 dimer interface [polypeptide binding]; other site 565042000364 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 565042000365 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 565042000366 HSP70 interaction site [polypeptide binding]; other site 565042000367 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 565042000368 substrate binding site [polypeptide binding]; other site 565042000369 dimer interface [polypeptide binding]; other site 565042000370 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 565042000371 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 565042000372 DNA binding residues [nucleotide binding] 565042000373 putative dimer interface [polypeptide binding]; other site 565042000374 xanthine permease; Region: pbuX; TIGR03173 565042000375 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 565042000376 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 565042000377 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 565042000378 putative catalytic cysteine [active] 565042000379 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 565042000380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565042000381 NAD(P) binding site [chemical binding]; other site 565042000382 active site 565042000383 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 565042000384 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 565042000385 motif II; other site 565042000386 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 565042000387 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 565042000388 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]; Region: VirB11; COG0630 565042000389 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 565042000390 ATP binding site [chemical binding]; other site 565042000391 Walker B motif; other site 565042000392 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 565042000393 helicase/secretion neighborhood TadE-like protein; Region: tadE_like_DECH; TIGR03816 565042000394 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 565042000395 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 565042000396 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565042000397 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565042000398 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 565042000399 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 565042000400 Walker A motif; other site 565042000401 ATP binding site [chemical binding]; other site 565042000402 Walker B motif; other site 565042000403 arginine finger; other site 565042000404 recombination protein RecR; Reviewed; Region: recR; PRK00076 565042000405 RecR protein; Region: RecR; pfam02132 565042000406 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 565042000407 putative active site [active] 565042000408 putative metal-binding site [ion binding]; other site 565042000409 tetramer interface [polypeptide binding]; other site 565042000410 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 565042000411 active site 565042000412 catalytic site [active] 565042000413 AAA domain; Region: AAA_14; pfam13173 565042000414 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 565042000415 aspartate kinase; Reviewed; Region: PRK06635 565042000416 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 565042000417 putative nucleotide binding site [chemical binding]; other site 565042000418 putative catalytic residues [active] 565042000419 putative Mg ion binding site [ion binding]; other site 565042000420 putative aspartate binding site [chemical binding]; other site 565042000421 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 565042000422 putative allosteric regulatory site; other site 565042000423 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 565042000424 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 565042000425 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 565042000426 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 565042000427 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 565042000428 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 565042000429 metal binding site [ion binding]; metal-binding site 565042000430 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 565042000431 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 565042000432 2-isopropylmalate synthase; Validated; Region: PRK03739 565042000433 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 565042000434 active site 565042000435 catalytic residues [active] 565042000436 metal binding site [ion binding]; metal-binding site 565042000437 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 565042000438 Transglycosylase; Region: Transgly; pfam00912 565042000439 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 565042000440 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 565042000441 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 565042000442 active site 565042000443 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 565042000444 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 565042000445 active site 565042000446 interdomain interaction site; other site 565042000447 putative metal-binding site [ion binding]; other site 565042000448 nucleotide binding site [chemical binding]; other site 565042000449 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 565042000450 domain I; other site 565042000451 phosphate binding site [ion binding]; other site 565042000452 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 565042000453 domain II; other site 565042000454 domain III; other site 565042000455 nucleotide binding site [chemical binding]; other site 565042000456 DNA binding groove [nucleotide binding] 565042000457 catalytic site [active] 565042000458 domain IV; other site 565042000459 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 565042000460 thymidylate kinase; Validated; Region: tmk; PRK00698 565042000461 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 565042000462 TMP-binding site; other site 565042000463 ATP-binding site [chemical binding]; other site 565042000464 DNA polymerase III subunit delta'; Validated; Region: PRK07940 565042000465 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 565042000466 Walker A motif; other site 565042000467 ATP binding site [chemical binding]; other site 565042000468 Walker B motif; other site 565042000469 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 565042000470 substrate binding site [chemical binding]; other site 565042000471 Peptidase family C69; Region: Peptidase_C69; pfam03577 565042000472 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 565042000473 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 565042000474 macrophage migration inhibitory factor-like protein; Provisional; Region: PTZ00450 565042000475 Predicted membrane protein [Function unknown]; Region: COG2246 565042000476 GtrA-like protein; Region: GtrA; pfam04138 565042000477 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042000478 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 565042000479 catalytic core [active] 565042000480 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 565042000481 active site 565042000482 phosphate binding residues; other site 565042000483 catalytic residues [active] 565042000484 Predicted membrane protein [Function unknown]; Region: COG3152 565042000485 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 565042000486 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 565042000487 HIGH motif; other site 565042000488 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 565042000489 active site 565042000490 KMSKS motif; other site 565042000491 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 565042000492 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 565042000493 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 565042000494 sugar binding site [chemical binding]; other site 565042000495 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 565042000496 Helix-turn-helix domain; Region: HTH_28; pfam13518 565042000497 Integrase core domain; Region: rve; pfam00665 565042000498 Integrase core domain; Region: rve_2; pfam13333 565042000499 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565042000500 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565042000501 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; cd05466 565042000502 dimerization interface [polypeptide binding]; other site 565042000503 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 565042000504 Predicted transcriptional regulators [Transcription]; Region: COG1733 565042000505 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 565042000506 dimerization interface [polypeptide binding]; other site 565042000507 putative DNA binding site [nucleotide binding]; other site 565042000508 putative Zn2+ binding site [ion binding]; other site 565042000509 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 565042000510 NADH(P)-binding; Region: NAD_binding_10; pfam13460 565042000511 NAD binding site [chemical binding]; other site 565042000512 substrate binding site [chemical binding]; other site 565042000513 putative active site [active] 565042000514 Iron permease FTR1 family; Region: FTR1; cl00475 565042000515 Fe2+ transport protein; Region: Iron_transport; pfam10634 565042000516 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 565042000517 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 565042000518 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 565042000519 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 565042000520 FtsX-like permease family; Region: FtsX; pfam02687 565042000521 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 565042000522 FtsX-like permease family; Region: FtsX; pfam02687 565042000523 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042000524 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565042000525 Walker A/P-loop; other site 565042000526 ATP binding site [chemical binding]; other site 565042000527 Q-loop/lid; other site 565042000528 ABC transporter signature motif; other site 565042000529 Walker B; other site 565042000530 D-loop; other site 565042000531 H-loop/switch region; other site 565042000532 FMN-binding domain; Region: FMN_bind; cl01081 565042000533 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565042000534 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565042000535 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 565042000536 Predicted membrane protein [Function unknown]; Region: COG1511 565042000537 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 565042000538 Predicted membrane protein [Function unknown]; Region: COG1511 565042000539 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 565042000540 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 565042000541 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 565042000542 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 565042000543 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 565042000544 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 565042000545 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 565042000546 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 565042000547 putative active site [active] 565042000548 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 565042000549 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; pfam10128 565042000550 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 565042000551 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 565042000552 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 565042000553 Peptidase family C69; Region: Peptidase_C69; pfam03577 565042000554 putative glycosyl transferase; Provisional; Region: PRK10073 565042000555 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 565042000556 active site 565042000557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565042000558 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565042000559 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 565042000560 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 565042000561 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 565042000562 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 565042000563 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 565042000564 Nitrogen regulatory protein P-II; Region: P-II; smart00938 565042000565 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 565042000566 metal binding triad; other site 565042000567 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 565042000568 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 565042000569 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 565042000570 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 565042000571 replicative DNA helicase; Region: DnaB; TIGR00665 565042000572 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 565042000573 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 565042000574 Walker A motif; other site 565042000575 ATP binding site [chemical binding]; other site 565042000576 Walker B motif; other site 565042000577 DNA binding loops [nucleotide binding] 565042000578 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565042000579 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 565042000580 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 565042000581 catalytic triad [active] 565042000582 Uncharacterized conserved protein [Function unknown]; Region: COG3937 565042000583 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 565042000584 ABC1 family; Region: ABC1; cl17513 565042000585 Nucleotidyl transferase of unknown function (DUF2204); Region: DUF2204; cl17690 565042000586 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042000587 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042000588 DNA binding site [nucleotide binding] 565042000589 domain linker motif; other site 565042000590 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 565042000591 dimerization interface [polypeptide binding]; other site 565042000592 ligand binding site [chemical binding]; other site 565042000593 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 565042000594 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 565042000595 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 565042000596 dimer interface [polypeptide binding]; other site 565042000597 conserved gate region; other site 565042000598 putative PBP binding loops; other site 565042000599 ABC-ATPase subunit interface; other site 565042000600 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 565042000601 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 565042000602 dimer interface [polypeptide binding]; other site 565042000603 conserved gate region; other site 565042000604 putative PBP binding loops; other site 565042000605 ABC-ATPase subunit interface; other site 565042000606 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 565042000607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 565042000608 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 565042000609 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 565042000610 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 565042000611 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 565042000612 substrate binding site [chemical binding]; other site 565042000613 active site 565042000614 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 565042000615 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 565042000616 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 565042000617 catalytic residue [active] 565042000618 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 565042000619 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 565042000620 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565042000621 active site 565042000622 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 565042000623 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 565042000624 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 565042000625 dimer interface [polypeptide binding]; other site 565042000626 ssDNA binding site [nucleotide binding]; other site 565042000627 tetramer (dimer of dimers) interface [polypeptide binding]; other site 565042000628 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 565042000629 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 565042000630 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 565042000631 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 565042000632 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 565042000633 dimerization domain swap beta strand [polypeptide binding]; other site 565042000634 regulatory protein interface [polypeptide binding]; other site 565042000635 active site 565042000636 regulatory phosphorylation site [posttranslational modification]; other site 565042000637 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 565042000638 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 565042000639 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 565042000640 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 565042000641 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 565042000642 amphipathic channel; other site 565042000643 Asn-Pro-Ala signature motifs; other site 565042000644 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 565042000645 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 565042000646 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 565042000647 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 565042000648 active site 565042000649 motif I; other site 565042000650 motif II; other site 565042000651 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 565042000652 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 565042000653 putative homodimer interface [polypeptide binding]; other site 565042000654 putative homotetramer interface [polypeptide binding]; other site 565042000655 putative allosteric switch controlling residues; other site 565042000656 putative metal binding site [ion binding]; other site 565042000657 putative homodimer-homodimer interface [polypeptide binding]; other site 565042000658 RmuC family; Region: RmuC; pfam02646 565042000659 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 565042000660 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 565042000661 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 565042000662 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 565042000663 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 565042000664 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 565042000665 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 565042000666 GatB domain; Region: GatB_Yqey; pfam02637 565042000667 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565042000668 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 565042000669 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 565042000670 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 565042000671 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 565042000672 hypothetical protein; Provisional; Region: PRK07208 565042000673 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 565042000674 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 565042000675 transcription termination factor Rho; Provisional; Region: PRK12608 565042000676 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 565042000677 RNA binding site [nucleotide binding]; other site 565042000678 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 565042000679 multimer interface [polypeptide binding]; other site 565042000680 Walker A motif; other site 565042000681 ATP binding site [chemical binding]; other site 565042000682 Walker B motif; other site 565042000683 monofunctional chorismate mutase, alpha proteobacterial type; Region: CM_mono_cladeE; TIGR01795 565042000684 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 565042000685 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565042000686 active site 565042000687 HIGH motif; other site 565042000688 nucleotide binding site [chemical binding]; other site 565042000689 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565042000690 active site 565042000691 KMSKS motif; other site 565042000692 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 565042000693 tRNA binding surface [nucleotide binding]; other site 565042000694 anticodon binding site; other site 565042000695 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 565042000696 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 565042000697 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 565042000698 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 565042000699 minor groove reading motif; other site 565042000700 helix-hairpin-helix signature motif; other site 565042000701 substrate binding pocket [chemical binding]; other site 565042000702 active site 565042000703 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 565042000704 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565042000705 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 565042000706 DNA binding site [nucleotide binding] 565042000707 Predicted membrane protein [Function unknown]; Region: COG1971 565042000708 Domain of unknown function DUF; Region: DUF204; pfam02659 565042000709 Domain of unknown function DUF; Region: DUF204; pfam02659 565042000710 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 565042000711 dimer interface [polypeptide binding]; other site 565042000712 substrate binding site [chemical binding]; other site 565042000713 metal binding sites [ion binding]; metal-binding site 565042000714 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 565042000715 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 565042000716 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 565042000717 active site 565042000718 homodimer interface [polypeptide binding]; other site 565042000719 catalytic site [active] 565042000720 acceptor binding site [chemical binding]; other site 565042000721 homoserine O-succinyltransferase; Provisional; Region: PRK05368 565042000722 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 565042000723 proposed active site lysine [active] 565042000724 conserved cys residue [active] 565042000725 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 565042000726 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 565042000727 ATP synthase subunit C; Region: ATP-synt_C; cl00466 565042000728 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 565042000729 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 565042000730 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13430 565042000731 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 565042000732 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 565042000733 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 565042000734 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 565042000735 beta subunit interaction interface [polypeptide binding]; other site 565042000736 Walker A motif; other site 565042000737 ATP binding site [chemical binding]; other site 565042000738 Walker B motif; other site 565042000739 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 565042000740 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 565042000741 core domain interface [polypeptide binding]; other site 565042000742 delta subunit interface [polypeptide binding]; other site 565042000743 epsilon subunit interface [polypeptide binding]; other site 565042000744 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 565042000745 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 565042000746 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 565042000747 alpha subunit interaction interface [polypeptide binding]; other site 565042000748 Walker A motif; other site 565042000749 ATP binding site [chemical binding]; other site 565042000750 Walker B motif; other site 565042000751 inhibitor binding site; inhibition site 565042000752 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 565042000753 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 565042000754 gamma subunit interface [polypeptide binding]; other site 565042000755 epsilon subunit interface [polypeptide binding]; other site 565042000756 LBP interface [polypeptide binding]; other site 565042000757 hypothetical protein; Provisional; Region: PRK03298 565042000758 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 565042000759 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 565042000760 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 565042000761 putative active site [active] 565042000762 putative metal binding residues [ion binding]; other site 565042000763 signature motif; other site 565042000764 putative dimer interface [polypeptide binding]; other site 565042000765 putative phosphate binding site [ion binding]; other site 565042000766 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 565042000767 homotrimer interaction site [polypeptide binding]; other site 565042000768 putative active site [active] 565042000769 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 565042000770 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 565042000771 putative acyl-acceptor binding pocket; other site 565042000772 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 565042000773 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 565042000774 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 565042000775 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 565042000776 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 565042000777 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 565042000778 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 565042000779 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 565042000780 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 565042000781 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 565042000782 dimer interface [polypeptide binding]; other site 565042000783 conserved gate region; other site 565042000784 putative PBP binding loops; other site 565042000785 ABC-ATPase subunit interface; other site 565042000786 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 565042000787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042000788 Walker A/P-loop; other site 565042000789 ATP binding site [chemical binding]; other site 565042000790 Q-loop/lid; other site 565042000791 ABC transporter signature motif; other site 565042000792 Walker B; other site 565042000793 D-loop; other site 565042000794 H-loop/switch region; other site 565042000795 TOBE domain; Region: TOBE_2; pfam08402 565042000796 CAAX protease self-immunity; Region: Abi; pfam02517 565042000797 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 565042000798 Mechanosensitive ion channel; Region: MS_channel; pfam00924 565042000799 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 565042000800 Aspartase; Region: Aspartase; cd01357 565042000801 active sites [active] 565042000802 tetramer interface [polypeptide binding]; other site 565042000803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565042000804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565042000805 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 565042000806 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565042000807 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 565042000808 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 565042000809 DNA binding site [nucleotide binding] 565042000810 active site 565042000811 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 565042000812 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 565042000813 putative substrate translocation pore; other site 565042000814 YegV-like sugar kinase. Found only in bacteria, YegV-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YegV_kinase_like; cd01944 565042000815 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 565042000816 substrate binding site [chemical binding]; other site 565042000817 ATP binding site [chemical binding]; other site 565042000818 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 565042000819 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 565042000820 ssDNA binding site; other site 565042000821 generic binding surface II; other site 565042000822 DEAD-like helicases superfamily; Region: DEXDc; smart00487 565042000823 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 565042000824 ATP binding site [chemical binding]; other site 565042000825 putative Mg++ binding site [ion binding]; other site 565042000826 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 565042000827 nucleotide binding region [chemical binding]; other site 565042000828 ATP-binding site [chemical binding]; other site 565042000829 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 565042000830 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 565042000831 S-adenosylmethionine binding site [chemical binding]; other site 565042000832 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 565042000833 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 565042000834 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 565042000835 Peptidase family U32; Region: Peptidase_U32; pfam01136 565042000836 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 565042000837 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 565042000838 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 565042000839 substrate binding site; other site 565042000840 dimer interface; other site 565042000841 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 565042000842 putative substrate binding pocket [chemical binding]; other site 565042000843 AC domain interface; other site 565042000844 catalytic triad [active] 565042000845 AB domain interface; other site 565042000846 interchain disulfide; other site 565042000847 DivIVA protein; Region: DivIVA; pfam05103 565042000848 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 565042000849 trimer interface [polypeptide binding]; other site 565042000850 active site 565042000851 G bulge; other site 565042000852 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 565042000853 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 565042000854 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 565042000855 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 565042000856 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 565042000857 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 565042000858 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 565042000859 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 565042000860 dimer interface [polypeptide binding]; other site 565042000861 phosphorylation site [posttranslational modification] 565042000862 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 565042000863 ATP binding site [chemical binding]; other site 565042000864 Mg2+ binding site [ion binding]; other site 565042000865 G-X-G motif; other site 565042000866 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565042000867 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 565042000868 active site 565042000869 phosphorylation site [posttranslational modification] 565042000870 intermolecular recognition site; other site 565042000871 dimerization interface [polypeptide binding]; other site 565042000872 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 565042000873 DNA binding site [nucleotide binding] 565042000874 PBP superfamily domain; Region: PBP_like_2; cl17296 565042000875 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 565042000876 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 565042000877 dimer interface [polypeptide binding]; other site 565042000878 conserved gate region; other site 565042000879 putative PBP binding loops; other site 565042000880 ABC-ATPase subunit interface; other site 565042000881 sulfate transport protein; Provisional; Region: cysT; CHL00187 565042000882 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 565042000883 dimer interface [polypeptide binding]; other site 565042000884 conserved gate region; other site 565042000885 putative PBP binding loops; other site 565042000886 ABC-ATPase subunit interface; other site 565042000887 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 565042000888 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 565042000889 Walker A/P-loop; other site 565042000890 ATP binding site [chemical binding]; other site 565042000891 Q-loop/lid; other site 565042000892 ABC transporter signature motif; other site 565042000893 Walker B; other site 565042000894 D-loop; other site 565042000895 H-loop/switch region; other site 565042000896 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 565042000897 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 565042000898 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 565042000899 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 565042000900 active site 565042000901 catalytic tetrad [active] 565042000902 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 565042000903 active site 565042000904 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 565042000905 RimM N-terminal domain; Region: RimM; pfam01782 565042000906 hypothetical protein; Provisional; Region: PRK02821 565042000907 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 565042000908 G-X-X-G motif; other site 565042000909 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 565042000910 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 565042000911 putative catalytic site [active] 565042000912 putative metal binding site [ion binding]; other site 565042000913 putative phosphate binding site [ion binding]; other site 565042000914 signal recognition particle protein; Provisional; Region: PRK10867 565042000915 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 565042000916 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 565042000917 P loop; other site 565042000918 GTP binding site [chemical binding]; other site 565042000919 Signal peptide binding domain; Region: SRP_SPB; pfam02978 565042000920 Cation efflux family; Region: Cation_efflux; pfam01545 565042000921 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 565042000922 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 565042000923 active site 565042000924 HIGH motif; other site 565042000925 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 565042000926 KMSKS motif; other site 565042000927 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 565042000928 tRNA binding surface [nucleotide binding]; other site 565042000929 anticodon binding site; other site 565042000930 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 565042000931 catalytic triad [active] 565042000932 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042000933 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565042000934 ABC transporter; Region: ABC_tran_2; pfam12848 565042000935 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042000936 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565042000937 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 565042000938 oligomeric interface; other site 565042000939 putative active site [active] 565042000940 homodimer interface [polypeptide binding]; other site 565042000941 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 565042000942 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 565042000943 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 565042000944 putative valine binding site [chemical binding]; other site 565042000945 dimer interface [polypeptide binding]; other site 565042000946 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 565042000947 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 565042000948 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 565042000949 PYR/PP interface [polypeptide binding]; other site 565042000950 dimer interface [polypeptide binding]; other site 565042000951 TPP binding site [chemical binding]; other site 565042000952 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 565042000953 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 565042000954 TPP-binding site [chemical binding]; other site 565042000955 dimer interface [polypeptide binding]; other site 565042000956 ribonuclease III; Reviewed; Region: rnc; PRK00102 565042000957 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 565042000958 dimerization interface [polypeptide binding]; other site 565042000959 active site 565042000960 metal binding site [ion binding]; metal-binding site 565042000961 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 565042000962 dsRNA binding site [nucleotide binding]; other site 565042000963 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 565042000964 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 565042000965 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 565042000966 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 565042000967 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 565042000968 active site 565042000969 (T/H)XGH motif; other site 565042000970 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 565042000971 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 565042000972 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 565042000973 active site 565042000974 catalytic tetrad [active] 565042000975 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 565042000976 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 565042000977 DNA binding residues [nucleotide binding] 565042000978 putative dimer interface [polypeptide binding]; other site 565042000979 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 565042000980 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 565042000981 active site 565042000982 ribonuclease PH; Reviewed; Region: rph; PRK00173 565042000983 Ribonuclease PH; Region: RNase_PH_bact; cd11362 565042000984 hexamer interface [polypeptide binding]; other site 565042000985 active site 565042000986 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 565042000987 active site 565042000988 dimerization interface [polypeptide binding]; other site 565042000989 FemAB family; Region: FemAB; pfam02388 565042000990 FemAB family; Region: FemAB; pfam02388 565042000991 FemAB family; Region: FemAB; pfam02388 565042000992 Membrane transport protein; Region: Mem_trans; cl09117 565042000993 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 565042000994 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 565042000995 active site 565042000996 dimer interface [polypeptide binding]; other site 565042000997 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 565042000998 dimer interface [polypeptide binding]; other site 565042000999 active site 565042001000 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 565042001001 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 565042001002 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 565042001003 Catalytic site [active] 565042001004 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 565042001005 RNA/DNA hybrid binding site [nucleotide binding]; other site 565042001006 active site 565042001007 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042001008 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042001009 DNA binding site [nucleotide binding] 565042001010 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 565042001011 ligand binding site [chemical binding]; other site 565042001012 dimerization interface (open form) [polypeptide binding]; other site 565042001013 dimerization interface (closed form) [polypeptide binding]; other site 565042001014 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 565042001015 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 565042001016 putative N- and C-terminal domain interface [polypeptide binding]; other site 565042001017 putative active site [active] 565042001018 MgATP binding site [chemical binding]; other site 565042001019 catalytic site [active] 565042001020 metal binding site [ion binding]; metal-binding site 565042001021 putative carbohydrate binding site [chemical binding]; other site 565042001022 L-ribulose-5-phosphate 4-epimerase; Validated; Region: PRK06557 565042001023 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 565042001024 intersubunit interface [polypeptide binding]; other site 565042001025 active site 565042001026 Zn2+ binding site [ion binding]; other site 565042001027 L-arabinose isomerase; Provisional; Region: PRK02929 565042001028 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 565042001029 hexamer (dimer of trimers) interface [polypeptide binding]; other site 565042001030 trimer interface [polypeptide binding]; other site 565042001031 substrate binding site [chemical binding]; other site 565042001032 Mn binding site [ion binding]; other site 565042001033 Peptidase C26; Region: Peptidase_C26; pfam07722 565042001034 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 565042001035 catalytic triad [active] 565042001036 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 565042001037 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 565042001038 FtsX-like permease family; Region: FtsX; pfam02687 565042001039 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 565042001040 FtsX-like permease family; Region: FtsX; pfam02687 565042001041 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565042001042 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042001043 Walker A/P-loop; other site 565042001044 ATP binding site [chemical binding]; other site 565042001045 Q-loop/lid; other site 565042001046 ABC transporter signature motif; other site 565042001047 Walker B; other site 565042001048 D-loop; other site 565042001049 H-loop/switch region; other site 565042001050 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 565042001051 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 565042001052 acyl-activating enzyme (AAE) consensus motif; other site 565042001053 putative AMP binding site [chemical binding]; other site 565042001054 putative active site [active] 565042001055 putative CoA binding site [chemical binding]; other site 565042001056 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 565042001057 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565042001058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042001059 Walker A/P-loop; other site 565042001060 ATP binding site [chemical binding]; other site 565042001061 Q-loop/lid; other site 565042001062 ABC transporter signature motif; other site 565042001063 Walker B; other site 565042001064 D-loop; other site 565042001065 H-loop/switch region; other site 565042001066 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 565042001067 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 565042001068 Walker A/P-loop; other site 565042001069 ATP binding site [chemical binding]; other site 565042001070 Q-loop/lid; other site 565042001071 ABC transporter signature motif; other site 565042001072 Walker B; other site 565042001073 D-loop; other site 565042001074 H-loop/switch region; other site 565042001075 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 565042001076 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 565042001077 putative substrate translocation pore; other site 565042001078 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 565042001079 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 565042001080 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 565042001081 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 565042001082 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042001083 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042001084 DNA binding site [nucleotide binding] 565042001085 domain linker motif; other site 565042001086 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 565042001087 ligand binding site [chemical binding]; other site 565042001088 dimerization interface [polypeptide binding]; other site 565042001089 Helix-turn-helix domain; Region: HTH_38; pfam13936 565042001090 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042001091 Integrase core domain; Region: rve; pfam00665 565042001092 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 565042001093 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 565042001094 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 565042001095 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 565042001096 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 565042001097 active site 565042001098 catalytic tetrad [active] 565042001099 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 565042001100 AAA domain; Region: AAA_14; pfam13173 565042001101 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 565042001102 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 565042001103 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 565042001104 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 565042001105 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 565042001106 putative substrate translocation pore; other site 565042001107 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 565042001108 Helix-turn-helix domain; Region: HTH_38; pfam13936 565042001109 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042001110 Integrase core domain; Region: rve; pfam00665 565042001111 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 565042001112 Bacterial sugar transferase; Region: Bac_transf; pfam02397 565042001113 Protein of unknown function (DUF4012); Region: DUF4012; pfam13196 565042001114 Chain length determinant protein; Region: Wzz; cl15801 565042001115 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 565042001116 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 565042001117 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 565042001118 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565042001119 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 565042001120 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565042001121 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 565042001122 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 565042001123 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 565042001124 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 565042001125 O-Antigen ligase; Region: Wzy_C; pfam04932 565042001126 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 565042001127 FMN binding site [chemical binding]; other site 565042001128 dimer interface [polypeptide binding]; other site 565042001129 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 565042001130 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 565042001131 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 565042001132 AAA ATPase domain; Region: AAA_16; pfam13191 565042001133 Low molecular weight phosphatase family; Region: LMWPc; cd00115 565042001134 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 565042001135 active site 565042001136 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 565042001137 sequence-specific DNA binding site [nucleotide binding]; other site 565042001138 salt bridge; other site 565042001139 Domain of unknown function (DUF348); Region: DUF348; pfam03990 565042001140 G5 domain; Region: G5; pfam07501 565042001141 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 565042001142 N-acetyl-D-glucosamine binding site [chemical binding]; other site 565042001143 catalytic residue [active] 565042001144 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 565042001145 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 565042001146 catalytic residues [active] 565042001147 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565042001148 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 565042001149 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 565042001150 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 565042001151 putative NADH binding site [chemical binding]; other site 565042001152 putative active site [active] 565042001153 nudix motif; other site 565042001154 putative metal binding site [ion binding]; other site 565042001155 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 565042001156 lipoyl attachment site [posttranslational modification]; other site 565042001157 Uncharacterized conserved protein [Function unknown]; Region: COG4850 565042001158 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 565042001159 Prolyl oligopeptidase, N-terminal beta-propeller domain; Region: Peptidase_S9_N; pfam02897 565042001160 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 565042001161 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565042001162 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 565042001163 tartrate dehydrogenase; Region: TTC; TIGR02089 565042001164 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 565042001165 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 565042001166 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 565042001167 ligand binding site [chemical binding]; other site 565042001168 flexible hinge region; other site 565042001169 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 565042001170 putative switch regulator; other site 565042001171 non-specific DNA interactions [nucleotide binding]; other site 565042001172 DNA binding site [nucleotide binding] 565042001173 sequence specific DNA binding site [nucleotide binding]; other site 565042001174 putative cAMP binding site [chemical binding]; other site 565042001175 Transglycosylase; Region: Transgly; pfam00912 565042001176 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 565042001177 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 565042001178 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 565042001179 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 565042001180 active site 565042001181 FMN binding site [chemical binding]; other site 565042001182 substrate binding site [chemical binding]; other site 565042001183 homotetramer interface [polypeptide binding]; other site 565042001184 catalytic residue [active] 565042001185 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 565042001186 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 565042001187 quinone interaction residues [chemical binding]; other site 565042001188 active site 565042001189 catalytic residues [active] 565042001190 FMN binding site [chemical binding]; other site 565042001191 substrate binding site [chemical binding]; other site 565042001192 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 565042001193 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 565042001194 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 565042001195 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 565042001196 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 565042001197 dimer interface [polypeptide binding]; other site 565042001198 active site 565042001199 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 565042001200 galactokinase; Provisional; Region: PRK05322 565042001201 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 565042001202 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 565042001203 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 565042001204 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 565042001205 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 565042001206 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 565042001207 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 565042001208 minor groove reading motif; other site 565042001209 helix-hairpin-helix signature motif; other site 565042001210 active site 565042001211 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 565042001212 Alphaherpesvirus tegument protein US9; Region: Herpes_US9; pfam06072 565042001213 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 565042001214 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 565042001215 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 565042001216 RPB1 interaction site [polypeptide binding]; other site 565042001217 RPB10 interaction site [polypeptide binding]; other site 565042001218 RPB11 interaction site [polypeptide binding]; other site 565042001219 RPB3 interaction site [polypeptide binding]; other site 565042001220 RPB12 interaction site [polypeptide binding]; other site 565042001221 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 565042001222 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 565042001223 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 565042001224 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 565042001225 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 565042001226 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 565042001227 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 565042001228 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 565042001229 DNA binding site [nucleotide binding] 565042001230 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 565042001231 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 565042001232 phosphopeptide binding site; other site 565042001233 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 565042001234 active site 565042001235 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 565042001236 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 565042001237 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 565042001238 Protein of unknown function DUF58; Region: DUF58; pfam01882 565042001239 MoxR-like ATPases [General function prediction only]; Region: COG0714 565042001240 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 565042001241 Walker A motif; other site 565042001242 ATP binding site [chemical binding]; other site 565042001243 Walker B motif; other site 565042001244 arginine finger; other site 565042001245 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 565042001246 Interdomain contacts; other site 565042001247 Cytokine receptor motif; other site 565042001248 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 565042001249 Interdomain contacts; other site 565042001250 Cytokine receptor motif; other site 565042001251 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 565042001252 Catalytic domain of Protein Kinases; Region: PKc; cd00180 565042001253 active site 565042001254 ATP binding site [chemical binding]; other site 565042001255 substrate binding site [chemical binding]; other site 565042001256 activation loop (A-loop); other site 565042001257 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 565042001258 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 565042001259 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 565042001260 Family description; Region: UvrD_C_2; pfam13538 565042001261 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 565042001262 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042001263 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 565042001264 dihydrodipicolinate reductase; Provisional; Region: PRK00048 565042001265 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 565042001266 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 565042001267 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 565042001268 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 565042001269 dimer interface [polypeptide binding]; other site 565042001270 active site 565042001271 catalytic residue [active] 565042001272 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 565042001273 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 565042001274 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 565042001275 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 565042001276 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 565042001277 Zn binding site [ion binding]; other site 565042001278 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 565042001279 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 565042001280 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 565042001281 active site 565042001282 substrate binding site [chemical binding]; other site 565042001283 metal binding site [ion binding]; metal-binding site 565042001284 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 565042001285 active site 565042001286 catalytic residues [active] 565042001287 metal binding site [ion binding]; metal-binding site 565042001288 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 565042001289 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 565042001290 active site 565042001291 substrate binding site [chemical binding]; other site 565042001292 catalytic site [active] 565042001293 peptide chain release factor 2; Validated; Region: prfB; PRK00578 565042001294 This domain is found in peptide chain release factors; Region: PCRF; smart00937 565042001295 RF-1 domain; Region: RF-1; pfam00472 565042001296 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 565042001297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042001298 Walker A/P-loop; other site 565042001299 ATP binding site [chemical binding]; other site 565042001300 Q-loop/lid; other site 565042001301 ABC transporter signature motif; other site 565042001302 Walker B; other site 565042001303 D-loop; other site 565042001304 H-loop/switch region; other site 565042001305 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 565042001306 FtsX-like permease family; Region: FtsX; pfam02687 565042001307 CHAP domain; Region: CHAP; pfam05257 565042001308 Surface antigen [General function prediction only]; Region: COG3942 565042001309 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 565042001310 SmpB-tmRNA interface; other site 565042001311 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 565042001312 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 565042001313 substrate binding pocket [chemical binding]; other site 565042001314 membrane-bound complex binding site; other site 565042001315 hinge residues; other site 565042001316 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 565042001317 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 565042001318 substrate binding pocket [chemical binding]; other site 565042001319 membrane-bound complex binding site; other site 565042001320 hinge residues; other site 565042001321 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 565042001322 dimer interface [polypeptide binding]; other site 565042001323 conserved gate region; other site 565042001324 ABC-ATPase subunit interface; other site 565042001325 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 565042001326 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 565042001327 Walker A/P-loop; other site 565042001328 ATP binding site [chemical binding]; other site 565042001329 Q-loop/lid; other site 565042001330 ABC transporter signature motif; other site 565042001331 Walker B; other site 565042001332 D-loop; other site 565042001333 H-loop/switch region; other site 565042001334 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 565042001335 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 565042001336 glutaminase active site [active] 565042001337 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 565042001338 dimer interface [polypeptide binding]; other site 565042001339 active site 565042001340 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 565042001341 dimer interface [polypeptide binding]; other site 565042001342 active site 565042001343 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 565042001344 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 565042001345 active site 565042001346 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042001347 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042001348 DNA binding site [nucleotide binding] 565042001349 domain linker motif; other site 565042001350 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 565042001351 ligand binding site [chemical binding]; other site 565042001352 dimerization interface (open form) [polypeptide binding]; other site 565042001353 dimerization interface (closed form) [polypeptide binding]; other site 565042001354 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 565042001355 dimer interface [polypeptide binding]; other site 565042001356 conserved gate region; other site 565042001357 putative PBP binding loops; other site 565042001358 ABC-ATPase subunit interface; other site 565042001359 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 565042001360 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 565042001361 dimer interface [polypeptide binding]; other site 565042001362 conserved gate region; other site 565042001363 putative PBP binding loops; other site 565042001364 ABC-ATPase subunit interface; other site 565042001365 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 565042001366 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 565042001367 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 565042001368 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042001369 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042001370 DNA binding site [nucleotide binding] 565042001371 domain linker motif; other site 565042001372 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 565042001373 ligand binding site [chemical binding]; other site 565042001374 dimerization interface [polypeptide binding]; other site 565042001375 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 565042001376 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 565042001377 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 565042001378 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 565042001379 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 565042001380 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 565042001381 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 565042001382 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 565042001383 pantothenate kinase; Reviewed; Region: PRK13318 565042001384 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 565042001385 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 565042001386 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 565042001387 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 565042001388 putative PBP binding loops; other site 565042001389 dimer interface [polypeptide binding]; other site 565042001390 ABC-ATPase subunit interface; other site 565042001391 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 565042001392 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 565042001393 ABC-ATPase subunit interface; other site 565042001394 putative PBP binding loops; other site 565042001395 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 565042001396 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 565042001397 Walker A/P-loop; other site 565042001398 ATP binding site [chemical binding]; other site 565042001399 Q-loop/lid; other site 565042001400 ABC transporter signature motif; other site 565042001401 Walker B; other site 565042001402 D-loop; other site 565042001403 H-loop/switch region; other site 565042001404 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 565042001405 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 565042001406 Walker A/P-loop; other site 565042001407 ATP binding site [chemical binding]; other site 565042001408 Q-loop/lid; other site 565042001409 ABC transporter signature motif; other site 565042001410 Walker B; other site 565042001411 D-loop; other site 565042001412 H-loop/switch region; other site 565042001413 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 565042001414 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 565042001415 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 565042001416 dimer interface [polypeptide binding]; other site 565042001417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042001418 catalytic residue [active] 565042001419 cystathionine gamma-synthase; Provisional; Region: PRK07811 565042001420 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 565042001421 homodimer interface [polypeptide binding]; other site 565042001422 substrate-cofactor binding pocket; other site 565042001423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042001424 catalytic residue [active] 565042001425 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 565042001426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 565042001427 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 565042001428 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 565042001429 ATP binding site [chemical binding]; other site 565042001430 putative Mg++ binding site [ion binding]; other site 565042001431 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 565042001432 nucleotide binding region [chemical binding]; other site 565042001433 ATP-binding site [chemical binding]; other site 565042001434 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 565042001435 HRDC domain; Region: HRDC; pfam00570 565042001436 S-ribosylhomocysteinase; Provisional; Region: PRK02260 565042001437 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 565042001438 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 565042001439 Helix-turn-helix domain; Region: HTH_38; pfam13936 565042001440 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042001441 Integrase core domain; Region: rve; pfam00665 565042001442 amino acid transporter; Region: 2A0306; TIGR00909 565042001443 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 565042001444 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 565042001445 alanine racemase; Reviewed; Region: alr; PRK00053 565042001446 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 565042001447 active site 565042001448 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 565042001449 dimer interface [polypeptide binding]; other site 565042001450 substrate binding site [chemical binding]; other site 565042001451 catalytic residues [active] 565042001452 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 565042001453 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 565042001454 Zn2+ binding site [ion binding]; other site 565042001455 Mg2+ binding site [ion binding]; other site 565042001456 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 565042001457 DNA primase, catalytic core; Region: dnaG; TIGR01391 565042001458 CHC2 zinc finger; Region: zf-CHC2; cl17510 565042001459 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 565042001460 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 565042001461 active site 565042001462 metal binding site [ion binding]; metal-binding site 565042001463 interdomain interaction site; other site 565042001464 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 565042001465 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 565042001466 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 565042001467 active site 565042001468 multimer interface [polypeptide binding]; other site 565042001469 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 565042001470 predicted active site [active] 565042001471 catalytic triad [active] 565042001472 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 565042001473 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565042001474 DNA-binding site [nucleotide binding]; DNA binding site 565042001475 Rhoptry-associated protein 1 (RAP-1); Region: RAP1; pfam07218 565042001476 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 565042001477 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 565042001478 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042001479 homodimer interface [polypeptide binding]; other site 565042001480 catalytic residue [active] 565042001481 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 565042001482 catalytic nucleophile [active] 565042001483 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 565042001484 transmembrane helices; other site 565042001485 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 565042001486 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 565042001487 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 565042001488 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 565042001489 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 565042001490 putative active site [active] 565042001491 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 565042001492 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042001493 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565042001494 Walker A/P-loop; other site 565042001495 ATP binding site [chemical binding]; other site 565042001496 Q-loop/lid; other site 565042001497 ABC transporter signature motif; other site 565042001498 Walker B; other site 565042001499 D-loop; other site 565042001500 H-loop/switch region; other site 565042001501 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 565042001502 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 565042001503 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 565042001504 FtsX-like permease family; Region: FtsX; pfam02687 565042001505 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 565042001506 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 565042001507 TPP-binding site; other site 565042001508 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 565042001509 PYR/PP interface [polypeptide binding]; other site 565042001510 dimer interface [polypeptide binding]; other site 565042001511 TPP binding site [chemical binding]; other site 565042001512 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 565042001513 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 565042001514 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 565042001515 NAD(P) binding site [chemical binding]; other site 565042001516 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 565042001517 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 565042001518 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 565042001519 NAD binding site [chemical binding]; other site 565042001520 ATP-grasp domain; Region: ATP-grasp; pfam02222 565042001521 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 565042001522 metal binding site 2 [ion binding]; metal-binding site 565042001523 putative DNA binding helix; other site 565042001524 metal binding site 1 [ion binding]; metal-binding site 565042001525 dimer interface [polypeptide binding]; other site 565042001526 structural Zn2+ binding site [ion binding]; other site 565042001527 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 565042001528 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 565042001529 metal binding site [ion binding]; metal-binding site 565042001530 Sulfatase; Region: Sulfatase; pfam00884 565042001531 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 565042001532 NAD(P) binding site [chemical binding]; other site 565042001533 catalytic residues [active] 565042001534 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 565042001535 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 565042001536 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 565042001537 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 565042001538 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 565042001539 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 565042001540 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 565042001541 dimerization interface [polypeptide binding]; other site 565042001542 putative ATP binding site [chemical binding]; other site 565042001543 amidophosphoribosyltransferase; Provisional; Region: PRK07272 565042001544 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 565042001545 active site 565042001546 tetramer interface [polypeptide binding]; other site 565042001547 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565042001548 active site 565042001549 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 565042001550 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 565042001551 Walker A/P-loop; other site 565042001552 ATP binding site [chemical binding]; other site 565042001553 Q-loop/lid; other site 565042001554 ABC transporter signature motif; other site 565042001555 Walker B; other site 565042001556 D-loop; other site 565042001557 H-loop/switch region; other site 565042001558 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 565042001559 dimer interface [polypeptide binding]; other site 565042001560 conserved gate region; other site 565042001561 putative PBP binding loops; other site 565042001562 ABC-ATPase subunit interface; other site 565042001563 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 565042001564 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 565042001565 substrate binding pocket [chemical binding]; other site 565042001566 membrane-bound complex binding site; other site 565042001567 hinge residues; other site 565042001568 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 565042001569 guanine deaminase; Region: guan_deamin; TIGR02967 565042001570 Metallo-dependent hydrolases, subgroup D 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_D; cd01312 565042001571 active site 565042001572 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 565042001573 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 565042001574 NAD binding site [chemical binding]; other site 565042001575 DNA polymerase IV; Reviewed; Region: PRK03103 565042001576 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 565042001577 active site 565042001578 DNA binding site [nucleotide binding] 565042001579 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 565042001580 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 565042001581 active site 565042001582 catalytic tetrad [active] 565042001583 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565042001584 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565042001585 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; cd05466 565042001586 dimerization interface [polypeptide binding]; other site 565042001587 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 565042001588 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 565042001589 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 565042001590 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 565042001591 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 565042001592 dimerization interface [polypeptide binding]; other site 565042001593 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 565042001594 dimerization interface [polypeptide binding]; other site 565042001595 ATP binding site [chemical binding]; other site 565042001596 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 565042001597 dimerization interface [polypeptide binding]; other site 565042001598 ATP binding site [chemical binding]; other site 565042001599 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 565042001600 putative active site [active] 565042001601 catalytic triad [active] 565042001602 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 565042001603 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 565042001604 ATP binding site [chemical binding]; other site 565042001605 active site 565042001606 substrate binding site [chemical binding]; other site 565042001607 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 565042001608 ATP-grasp domain; Region: ATP-grasp; pfam02222 565042001609 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 565042001610 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565042001611 putative ADP-binding pocket [chemical binding]; other site 565042001612 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 565042001613 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 565042001614 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565042001615 catalytic residue [active] 565042001616 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 565042001617 Sodium Bile acid symporter family; Region: SBF; pfam01758 565042001618 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 565042001619 S17 interaction site [polypeptide binding]; other site 565042001620 S8 interaction site; other site 565042001621 16S rRNA interaction site [nucleotide binding]; other site 565042001622 streptomycin interaction site [chemical binding]; other site 565042001623 23S rRNA interaction site [nucleotide binding]; other site 565042001624 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 565042001625 30S ribosomal protein S7; Validated; Region: PRK05302 565042001626 elongation factor G; Reviewed; Region: PRK00007 565042001627 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 565042001628 G1 box; other site 565042001629 putative GEF interaction site [polypeptide binding]; other site 565042001630 GTP/Mg2+ binding site [chemical binding]; other site 565042001631 Switch I region; other site 565042001632 G2 box; other site 565042001633 G3 box; other site 565042001634 Switch II region; other site 565042001635 G4 box; other site 565042001636 G5 box; other site 565042001637 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 565042001638 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 565042001639 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 565042001640 elongation factor Tu; Reviewed; Region: PRK00049 565042001641 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 565042001642 G1 box; other site 565042001643 GEF interaction site [polypeptide binding]; other site 565042001644 GTP/Mg2+ binding site [chemical binding]; other site 565042001645 Switch I region; other site 565042001646 G2 box; other site 565042001647 G3 box; other site 565042001648 Switch II region; other site 565042001649 G4 box; other site 565042001650 G5 box; other site 565042001651 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 565042001652 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 565042001653 Antibiotic Binding Site [chemical binding]; other site 565042001654 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 565042001655 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565042001656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565042001657 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 565042001658 dimerization interface [polypeptide binding]; other site 565042001659 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 565042001660 Predicted membrane protein [Function unknown]; Region: COG2246 565042001661 GtrA-like protein; Region: GtrA; pfam04138 565042001662 CrcB-like protein; Region: CRCB; pfam02537 565042001663 CrcB-like protein; Region: CRCB; pfam02537 565042001664 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 565042001665 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 565042001666 catalytic Zn binding site [ion binding]; other site 565042001667 NAD(P) binding site [chemical binding]; other site 565042001668 structural Zn binding site [ion binding]; other site 565042001669 Predicted transcriptional regulators [Transcription]; Region: COG1725 565042001670 AAA domain; Region: AAA_14; pfam13173 565042001671 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 565042001672 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 565042001673 dimerization interface [polypeptide binding]; other site 565042001674 putative DNA binding site [nucleotide binding]; other site 565042001675 putative Zn2+ binding site [ion binding]; other site 565042001676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042001677 Walker A/P-loop; other site 565042001678 ATP binding site [chemical binding]; other site 565042001679 Q-loop/lid; other site 565042001680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042001681 ABC transporter signature motif; other site 565042001682 Walker B; other site 565042001683 D-loop; other site 565042001684 H-loop/switch region; other site 565042001685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042001686 Walker A/P-loop; other site 565042001687 ATP binding site [chemical binding]; other site 565042001688 Q-loop/lid; other site 565042001689 ABC transporter signature motif; other site 565042001690 Walker B; other site 565042001691 D-loop; other site 565042001692 H-loop/switch region; other site 565042001693 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 565042001694 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 565042001695 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 565042001696 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 565042001697 minor groove reading motif; other site 565042001698 helix-hairpin-helix signature motif; other site 565042001699 active site 565042001700 maltose O-acetyltransferase; Provisional; Region: PRK10092 565042001701 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 565042001702 active site 565042001703 substrate binding site [chemical binding]; other site 565042001704 trimer interface [polypeptide binding]; other site 565042001705 CoA binding site [chemical binding]; other site 565042001706 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 565042001707 putative CoA binding site [chemical binding]; other site 565042001708 putative trimer interface [polypeptide binding]; other site 565042001709 Predicted permeases [General function prediction only]; Region: COG0679 565042001710 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 565042001711 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 565042001712 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 565042001713 active site 565042001714 DNA binding site [nucleotide binding] 565042001715 Int/Topo IB signature motif; other site 565042001716 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042001717 Integrase core domain; Region: rve; pfam00665 565042001718 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 565042001719 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 565042001720 GIY-YIG motif/motif A; other site 565042001721 putative active site [active] 565042001722 putative metal binding site [ion binding]; other site 565042001723 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 565042001724 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565042001725 Helix-turn-helix domain; Region: HTH_17; pfam12728 565042001726 glutamine synthetase, type I; Region: GlnA; TIGR00653 565042001727 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 565042001728 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 565042001729 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 565042001730 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 565042001731 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 565042001732 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565042001733 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 565042001734 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 565042001735 hypothetical protein; Provisional; Region: PRK07907 565042001736 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 565042001737 active site 565042001738 metal binding site [ion binding]; metal-binding site 565042001739 dimer interface [polypeptide binding]; other site 565042001740 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 565042001741 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 565042001742 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 565042001743 Walker A/P-loop; other site 565042001744 ATP binding site [chemical binding]; other site 565042001745 Q-loop/lid; other site 565042001746 ABC transporter signature motif; other site 565042001747 Walker B; other site 565042001748 D-loop; other site 565042001749 H-loop/switch region; other site 565042001750 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 565042001751 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 565042001752 Walker A/P-loop; other site 565042001753 ATP binding site [chemical binding]; other site 565042001754 Q-loop/lid; other site 565042001755 ABC transporter signature motif; other site 565042001756 Walker B; other site 565042001757 D-loop; other site 565042001758 H-loop/switch region; other site 565042001759 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 565042001760 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 565042001761 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 565042001762 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 565042001763 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 565042001764 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 565042001765 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 565042001766 dimer interface [polypeptide binding]; other site 565042001767 motif 1; other site 565042001768 active site 565042001769 motif 2; other site 565042001770 motif 3; other site 565042001771 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 565042001772 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 565042001773 putative tRNA-binding site [nucleotide binding]; other site 565042001774 B3/4 domain; Region: B3_4; pfam03483 565042001775 tRNA synthetase B5 domain; Region: B5; pfam03484 565042001776 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 565042001777 dimer interface [polypeptide binding]; other site 565042001778 motif 1; other site 565042001779 motif 3; other site 565042001780 motif 2; other site 565042001781 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 565042001782 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 565042001783 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 565042001784 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 565042001785 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 565042001786 heterotetramer interface [polypeptide binding]; other site 565042001787 active site pocket [active] 565042001788 cleavage site 565042001789 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 565042001790 feedback inhibition sensing region; other site 565042001791 homohexameric interface [polypeptide binding]; other site 565042001792 nucleotide binding site [chemical binding]; other site 565042001793 N-acetyl-L-glutamate binding site [chemical binding]; other site 565042001794 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 565042001795 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 565042001796 inhibitor-cofactor binding pocket; inhibition site 565042001797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042001798 catalytic residue [active] 565042001799 ornithine carbamoyltransferase; Provisional; Region: PRK00779 565042001800 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 565042001801 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 565042001802 arginine repressor; Provisional; Region: PRK03341 565042001803 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 565042001804 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 565042001805 argininosuccinate synthase; Provisional; Region: PRK13820 565042001806 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 565042001807 ANP binding site [chemical binding]; other site 565042001808 Substrate Binding Site II [chemical binding]; other site 565042001809 Substrate Binding Site I [chemical binding]; other site 565042001810 argininosuccinate lyase; Provisional; Region: PRK00855 565042001811 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 565042001812 active sites [active] 565042001813 tetramer interface [polypeptide binding]; other site 565042001814 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 565042001815 thiS-thiF/thiG interaction site; other site 565042001816 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 565042001817 ThiS interaction site; other site 565042001818 putative active site [active] 565042001819 tetramer interface [polypeptide binding]; other site 565042001820 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 565042001821 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 565042001822 ATP binding site [chemical binding]; other site 565042001823 substrate interface [chemical binding]; other site 565042001824 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; cd00158 565042001825 active site residue [active] 565042001826 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 565042001827 Zn2+ binding site [ion binding]; other site 565042001828 Mg2+ binding site [ion binding]; other site 565042001829 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 565042001830 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 565042001831 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 565042001832 active site 565042001833 HIGH motif; other site 565042001834 dimer interface [polypeptide binding]; other site 565042001835 KMSKS motif; other site 565042001836 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 565042001837 RNA binding surface [nucleotide binding]; other site 565042001838 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 565042001839 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 565042001840 active site 565042001841 motif I; other site 565042001842 motif II; other site 565042001843 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 565042001844 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 565042001845 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 565042001846 RNA binding surface [nucleotide binding]; other site 565042001847 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 565042001848 S-adenosylmethionine binding site [chemical binding]; other site 565042001849 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 565042001850 TrkA-N domain; Region: TrkA_N; pfam02254 565042001851 TrkA-C domain; Region: TrkA_C; pfam02080 565042001852 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 565042001853 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 565042001854 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 565042001855 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 565042001856 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 565042001857 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 565042001858 Walker A/P-loop; other site 565042001859 ATP binding site [chemical binding]; other site 565042001860 Q-loop/lid; other site 565042001861 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 565042001862 ABC transporter signature motif; other site 565042001863 Walker B; other site 565042001864 D-loop; other site 565042001865 H-loop/switch region; other site 565042001866 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 565042001867 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 565042001868 motif II; other site 565042001869 Predicted transcriptional regulators [Transcription]; Region: COG1725 565042001870 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 565042001871 DNA-binding site [nucleotide binding]; DNA binding site 565042001872 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 565042001873 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 565042001874 Walker A/P-loop; other site 565042001875 ATP binding site [chemical binding]; other site 565042001876 Q-loop/lid; other site 565042001877 ABC transporter signature motif; other site 565042001878 Walker B; other site 565042001879 D-loop; other site 565042001880 H-loop/switch region; other site 565042001881 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 565042001882 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 565042001883 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 565042001884 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 565042001885 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 565042001886 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 565042001887 Soluble P-type ATPase [General function prediction only]; Region: COG4087 565042001888 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 565042001889 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 565042001890 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 565042001891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042001892 catalytic residue [active] 565042001893 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 565042001894 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 565042001895 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 565042001896 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 565042001897 putative catalytic cysteine [active] 565042001898 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 565042001899 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 565042001900 active site 565042001901 (T/H)XGH motif; other site 565042001902 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 565042001903 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 565042001904 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 565042001905 Uncharacterized conserved protein [Function unknown]; Region: COG1615 565042001906 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565042001907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565042001908 Coenzyme A binding pocket [chemical binding]; other site 565042001909 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 565042001910 putative active site [active] 565042001911 catalytic residue [active] 565042001912 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 565042001913 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 565042001914 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 565042001915 ATP binding site [chemical binding]; other site 565042001916 putative Mg++ binding site [ion binding]; other site 565042001917 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 565042001918 nucleotide binding region [chemical binding]; other site 565042001919 ATP-binding site [chemical binding]; other site 565042001920 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 565042001921 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 565042001922 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 565042001923 active site 565042001924 catalytic tetrad [active] 565042001925 enolase; Provisional; Region: eno; PRK00077 565042001926 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 565042001927 dimer interface [polypeptide binding]; other site 565042001928 metal binding site [ion binding]; metal-binding site 565042001929 substrate binding pocket [chemical binding]; other site 565042001930 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 565042001931 Septum formation initiator; Region: DivIC; pfam04977 565042001932 Protein of unknown function (DUF501); Region: DUF501; pfam04417 565042001933 exopolyphosphatase; Region: exo_poly_only; TIGR03706 565042001934 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 565042001935 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 565042001936 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 565042001937 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 565042001938 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 565042001939 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 565042001940 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 565042001941 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 565042001942 Haemolysin-III related; Region: HlyIII; pfam03006 565042001943 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 565042001944 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 565042001945 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 565042001946 PAS fold; Region: PAS_4; pfam08448 565042001947 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 565042001948 Histidine kinase; Region: HisKA_2; pfam07568 565042001949 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 565042001950 ATP binding site [chemical binding]; other site 565042001951 Mg2+ binding site [ion binding]; other site 565042001952 G-X-G motif; other site 565042001953 Transcription factor WhiB; Region: Whib; pfam02467 565042001954 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 565042001955 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042001956 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565042001957 Walker A/P-loop; other site 565042001958 ATP binding site [chemical binding]; other site 565042001959 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 565042001960 Transcription factor WhiB; Region: Whib; pfam02467 565042001961 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 565042001962 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 565042001963 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 565042001964 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 565042001965 Eukaryotic phosphomannomutase; Region: PMM; cl17107 565042001966 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 565042001967 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565042001968 active site 565042001969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565042001970 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 565042001971 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 565042001972 dimerization interface [polypeptide binding]; other site 565042001973 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 565042001974 dimer interface [polypeptide binding]; other site 565042001975 phosphorylation site [posttranslational modification] 565042001976 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 565042001977 ATP binding site [chemical binding]; other site 565042001978 Mg2+ binding site [ion binding]; other site 565042001979 G-X-G motif; other site 565042001980 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565042001981 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 565042001982 active site 565042001983 phosphorylation site [posttranslational modification] 565042001984 intermolecular recognition site; other site 565042001985 dimerization interface [polypeptide binding]; other site 565042001986 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 565042001987 DNA binding site [nucleotide binding] 565042001988 glycogen branching enzyme; Provisional; Region: PRK05402 565042001989 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 565042001990 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 565042001991 active site 565042001992 catalytic site [active] 565042001993 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 565042001994 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 565042001995 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 565042001996 homotrimer interaction site [polypeptide binding]; other site 565042001997 zinc binding site [ion binding]; other site 565042001998 CDP-binding sites; other site 565042001999 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 565042002000 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 565042002001 ABC-ATPase subunit interface; other site 565042002002 dimer interface [polypeptide binding]; other site 565042002003 putative PBP binding regions; other site 565042002004 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 565042002005 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 565042002006 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 565042002007 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 565042002008 metal binding site [ion binding]; metal-binding site 565042002009 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 565042002010 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 565042002011 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 565042002012 homodimer interface [polypeptide binding]; other site 565042002013 NADP binding site [chemical binding]; other site 565042002014 substrate binding site [chemical binding]; other site 565042002015 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 565042002016 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 565042002017 RNA binding site [nucleotide binding]; other site 565042002018 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 565042002019 RNA binding site [nucleotide binding]; other site 565042002020 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 565042002021 RNA binding site [nucleotide binding]; other site 565042002022 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 565042002023 RNA binding site [nucleotide binding]; other site 565042002024 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 565042002025 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 565042002026 CoA-binding site [chemical binding]; other site 565042002027 ATP-binding [chemical binding]; other site 565042002028 excinuclease ABC subunit B; Provisional; Region: PRK05298 565042002029 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 565042002030 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 565042002031 nucleotide binding region [chemical binding]; other site 565042002032 ATP-binding site [chemical binding]; other site 565042002033 Ultra-violet resistance protein B; Region: UvrB; pfam12344 565042002034 UvrB/uvrC motif; Region: UVR; pfam02151 565042002035 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 565042002036 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 565042002037 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 565042002038 domain interfaces; other site 565042002039 active site 565042002040 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 565042002041 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 565042002042 dimer interface [polypeptide binding]; other site 565042002043 ADP-ribose binding site [chemical binding]; other site 565042002044 active site 565042002045 nudix motif; other site 565042002046 metal binding site [ion binding]; metal-binding site 565042002047 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 565042002048 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 565042002049 active site 565042002050 phosphorylation site [posttranslational modification] 565042002051 intermolecular recognition site; other site 565042002052 dimerization interface [polypeptide binding]; other site 565042002053 ANTAR domain; Region: ANTAR; pfam03861 565042002054 DNA polymerase I; Provisional; Region: PRK05755 565042002055 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 565042002056 active site 565042002057 metal binding site 1 [ion binding]; metal-binding site 565042002058 putative 5' ssDNA interaction site; other site 565042002059 metal binding site 3; metal-binding site 565042002060 metal binding site 2 [ion binding]; metal-binding site 565042002061 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 565042002062 putative DNA binding site [nucleotide binding]; other site 565042002063 putative metal binding site [ion binding]; other site 565042002064 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 565042002065 active site 565042002066 substrate binding site [chemical binding]; other site 565042002067 catalytic site [active] 565042002068 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 565042002069 active site 565042002070 DNA binding site [nucleotide binding] 565042002071 catalytic site [active] 565042002072 Uncharacterized conserved protein [Function unknown]; Region: COG0327 565042002073 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 565042002074 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 565042002075 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 565042002076 dimer interface [polypeptide binding]; other site 565042002077 ADP-ribose binding site [chemical binding]; other site 565042002078 active site 565042002079 nudix motif; other site 565042002080 metal binding site [ion binding]; metal-binding site 565042002081 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 565042002082 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 565042002083 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 565042002084 active site 565042002085 catalytic site [active] 565042002086 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 565042002087 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 565042002088 hinge; other site 565042002089 active site 565042002090 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 565042002091 propionate/acetate kinase; Provisional; Region: PRK12379 565042002092 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 565042002093 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 565042002094 catalytic core [active] 565042002095 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 565042002096 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 565042002097 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 565042002098 Substrate binding site; other site 565042002099 Mg++ binding site; other site 565042002100 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 565042002101 active site 565042002102 substrate binding site [chemical binding]; other site 565042002103 CoA binding site [chemical binding]; other site 565042002104 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 565042002105 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 565042002106 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565042002107 active site 565042002108 Acyltransferase family; Region: Acyl_transf_3; pfam01757 565042002109 yrhL-like subfamily of SGNH-hydrolases, 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_yrhL_like; cd01840 565042002110 catalytic triad [active] 565042002111 catalytic triad [active] 565042002112 oxyanion hole [active] 565042002113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 565042002114 hypothetical protein; Provisional; Region: PRK13663 565042002115 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 565042002116 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042002117 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 565042002118 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 565042002119 Low molecular weight phosphatase family; Region: LMWPc; cl00105 565042002120 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 565042002121 Sodium Bile acid symporter family; Region: SBF; cl17470 565042002122 GMP synthase; Reviewed; Region: guaA; PRK00074 565042002123 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 565042002124 AMP/PPi binding site [chemical binding]; other site 565042002125 candidate oxyanion hole; other site 565042002126 catalytic triad [active] 565042002127 potential glutamine specificity residues [chemical binding]; other site 565042002128 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 565042002129 ATP Binding subdomain [chemical binding]; other site 565042002130 Ligand Binding sites [chemical binding]; other site 565042002131 Dimerization subdomain; other site 565042002132 putative phosphoketolase; Provisional; Region: PRK05261 565042002133 XFP N-terminal domain; Region: XFP_N; pfam09364 565042002134 XFP C-terminal domain; Region: XFP_C; pfam09363 565042002135 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 565042002136 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 565042002137 active site 565042002138 motif I; other site 565042002139 motif II; other site 565042002140 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; cl17915 565042002141 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 565042002142 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 565042002143 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 565042002144 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 565042002145 Walker A/P-loop; other site 565042002146 ATP binding site [chemical binding]; other site 565042002147 Q-loop/lid; other site 565042002148 ABC transporter signature motif; other site 565042002149 Walker B; other site 565042002150 D-loop; other site 565042002151 H-loop/switch region; other site 565042002152 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 565042002153 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 565042002154 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 565042002155 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 565042002156 metal binding site [ion binding]; metal-binding site 565042002157 NAD synthetase; Provisional; Region: PRK13981 565042002158 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 565042002159 multimer interface [polypeptide binding]; other site 565042002160 active site 565042002161 catalytic triad [active] 565042002162 protein interface 1 [polypeptide binding]; other site 565042002163 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 565042002164 homodimer interface [polypeptide binding]; other site 565042002165 NAD binding pocket [chemical binding]; other site 565042002166 ATP binding pocket [chemical binding]; other site 565042002167 Mg binding site [ion binding]; other site 565042002168 active-site loop [active] 565042002169 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 565042002170 Pyruvate formate lyase 1; Region: PFL1; cd01678 565042002171 coenzyme A binding site [chemical binding]; other site 565042002172 active site 565042002173 catalytic residues [active] 565042002174 glycine loop; other site 565042002175 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 565042002176 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 565042002177 FeS/SAM binding site; other site 565042002178 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 565042002179 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 565042002180 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 565042002181 active site 565042002182 catalytic site [active] 565042002183 substrate binding site [chemical binding]; other site 565042002184 HRDC domain; Region: HRDC; pfam00570 565042002185 trigger factor; Provisional; Region: tig; PRK01490 565042002186 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 565042002187 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 565042002188 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 565042002189 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 565042002190 putative ion selectivity filter; other site 565042002191 putative pore gating glutamate residue; other site 565042002192 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 565042002193 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 565042002194 dimer interface [polypeptide binding]; other site 565042002195 Clp protease; Region: CLP_protease; pfam00574 565042002196 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 565042002197 oligomer interface [polypeptide binding]; other site 565042002198 active site residues [active] 565042002199 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 565042002200 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 565042002201 oligomer interface [polypeptide binding]; other site 565042002202 active site residues [active] 565042002203 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 565042002204 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 565042002205 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 565042002206 Walker A motif; other site 565042002207 ATP binding site [chemical binding]; other site 565042002208 Walker B motif; other site 565042002209 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 565042002210 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 565042002211 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 565042002212 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 565042002213 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 565042002214 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 565042002215 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 565042002216 L-aspartate oxidase; Provisional; Region: PRK06175 565042002217 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 565042002218 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 565042002219 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 565042002220 DNA protecting protein DprA; Region: dprA; TIGR00732 565042002221 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 565042002222 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 565042002223 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 565042002224 Walker A motif; other site 565042002225 ATP binding site [chemical binding]; other site 565042002226 Walker B motif; other site 565042002227 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 565042002228 hypothetical protein; Provisional; Region: PRK14681 565042002229 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 565042002230 dimer interface [polypeptide binding]; other site 565042002231 pyridoxal binding site [chemical binding]; other site 565042002232 ATP binding site [chemical binding]; other site 565042002233 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 565042002234 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 565042002235 homodimer interface [polypeptide binding]; other site 565042002236 substrate-cofactor binding pocket; other site 565042002237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042002238 catalytic residue [active] 565042002239 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042002240 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565042002241 Walker A/P-loop; other site 565042002242 ATP binding site [chemical binding]; other site 565042002243 Q-loop/lid; other site 565042002244 ABC transporter signature motif; other site 565042002245 Walker B; other site 565042002246 D-loop; other site 565042002247 H-loop/switch region; other site 565042002248 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 565042002249 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 565042002250 FtsX-like permease family; Region: FtsX; pfam02687 565042002251 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 565042002252 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 565042002253 active site 565042002254 phosphorylation site [posttranslational modification] 565042002255 intermolecular recognition site; other site 565042002256 dimerization interface [polypeptide binding]; other site 565042002257 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 565042002258 DNA binding residues [nucleotide binding] 565042002259 dimerization interface [polypeptide binding]; other site 565042002260 Histidine kinase; Region: HisKA_3; pfam07730 565042002261 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 565042002262 ATP binding site [chemical binding]; other site 565042002263 Mg2+ binding site [ion binding]; other site 565042002264 G-X-G motif; other site 565042002265 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 565042002266 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 565042002267 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 565042002268 GTP-binding protein YchF; Reviewed; Region: PRK09601 565042002269 YchF GTPase; Region: YchF; cd01900 565042002270 G1 box; other site 565042002271 GTP/Mg2+ binding site [chemical binding]; other site 565042002272 Switch I region; other site 565042002273 G2 box; other site 565042002274 Switch II region; other site 565042002275 G3 box; other site 565042002276 G4 box; other site 565042002277 G5 box; other site 565042002278 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 565042002279 hypothetical protein; Provisional; Region: PRK11770 565042002280 Domain of unknown function (DUF307); Region: DUF307; pfam03733 565042002281 Domain of unknown function (DUF307); Region: DUF307; pfam03733 565042002282 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042002283 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 565042002284 putative substrate translocation pore; other site 565042002285 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 565042002286 putative substrate translocation pore; other site 565042002287 FOG: CBS domain [General function prediction only]; Region: COG0517 565042002288 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_23; cd04636 565042002289 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 565042002290 H+ Antiporter protein; Region: 2A0121; TIGR00900 565042002291 putative substrate translocation pore; other site 565042002292 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 565042002293 Catalytic domain of Protein Kinases; Region: PKc; cd00180 565042002294 active site 565042002295 ATP binding site [chemical binding]; other site 565042002296 substrate binding site [chemical binding]; other site 565042002297 activation loop (A-loop); other site 565042002298 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 565042002299 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 565042002300 Short C-terminal domain; Region: SHOCT; pfam09851 565042002301 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565042002302 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 565042002303 non-specific DNA binding site [nucleotide binding]; other site 565042002304 salt bridge; other site 565042002305 sequence-specific DNA binding site [nucleotide binding]; other site 565042002306 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 565042002307 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 565042002308 catalytic core [active] 565042002309 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 565042002310 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 565042002311 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 565042002312 ATP binding site [chemical binding]; other site 565042002313 putative Mg++ binding site [ion binding]; other site 565042002314 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 565042002315 nucleotide binding region [chemical binding]; other site 565042002316 ATP-binding site [chemical binding]; other site 565042002317 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565042002318 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565042002319 WHG domain; Region: WHG; pfam13305 565042002320 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like; cd11354 565042002321 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 565042002322 active site 565042002323 catalytic site [active] 565042002324 carbon starvation protein A; Provisional; Region: PRK15015 565042002325 Carbon starvation protein CstA; Region: CstA; pfam02554 565042002326 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 565042002327 Protein of unknown function (DUF466); Region: DUF466; cl01082 565042002328 Phosphate transporter family; Region: PHO4; pfam01384 565042002329 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 565042002330 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 565042002331 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 565042002332 active site 565042002333 phosphorylation site [posttranslational modification] 565042002334 intermolecular recognition site; other site 565042002335 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 565042002336 DNA binding residues [nucleotide binding] 565042002337 dimerization interface [polypeptide binding]; other site 565042002338 Histidine kinase; Region: HisKA_3; pfam07730 565042002339 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 565042002340 ATP binding site [chemical binding]; other site 565042002341 Mg2+ binding site [ion binding]; other site 565042002342 G-X-G motif; other site 565042002343 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 565042002344 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 565042002345 Walker A/P-loop; other site 565042002346 ATP binding site [chemical binding]; other site 565042002347 Q-loop/lid; other site 565042002348 ABC transporter signature motif; other site 565042002349 Walker B; other site 565042002350 D-loop; other site 565042002351 H-loop/switch region; other site 565042002352 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 565042002353 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 565042002354 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 565042002355 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 565042002356 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 565042002357 Divergent AAA domain; Region: AAA_4; pfam04326 565042002358 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 565042002359 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 565042002360 Isochorismatase family; Region: Isochorismatase; pfam00857 565042002361 catalytic triad [active] 565042002362 metal binding site [ion binding]; metal-binding site 565042002363 conserved cis-peptide bond; other site 565042002364 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_19; cd07262 565042002365 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 565042002366 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 565042002367 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 565042002368 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 565042002369 salt bridge; other site 565042002370 non-specific DNA binding site [nucleotide binding]; other site 565042002371 sequence-specific DNA binding site [nucleotide binding]; other site 565042002372 xanthine permease; Region: pbuX; TIGR03173 565042002373 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565042002374 active site 565042002375 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 565042002376 Part of AAA domain; Region: AAA_19; pfam13245 565042002377 Family description; Region: UvrD_C_2; pfam13538 565042002378 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 565042002379 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 565042002380 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 565042002381 FtsX-like permease family; Region: FtsX; pfam02687 565042002382 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 565042002383 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565042002384 Walker A/P-loop; other site 565042002385 ATP binding site [chemical binding]; other site 565042002386 Q-loop/lid; other site 565042002387 ABC transporter signature motif; other site 565042002388 Walker B; other site 565042002389 D-loop; other site 565042002390 H-loop/switch region; other site 565042002391 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 565042002392 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 565042002393 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 565042002394 RNA binding surface [nucleotide binding]; other site 565042002395 Acyltransferase family; Region: Acyl_transf_3; pfam01757 565042002396 yrhL-like subfamily of SGNH-hydrolases, 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_yrhL_like; cd01840 565042002397 catalytic triad [active] 565042002398 catalytic triad [active] 565042002399 oxyanion hole [active] 565042002400 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 565042002401 catalytic core [active] 565042002402 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 565042002403 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 565042002404 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 565042002405 motif 1; other site 565042002406 active site 565042002407 motif 2; other site 565042002408 motif 3; other site 565042002409 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 565042002410 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 565042002411 YceG-like family; Region: YceG; pfam02618 565042002412 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 565042002413 dimerization interface [polypeptide binding]; other site 565042002414 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 565042002415 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 565042002416 Tetramer interface [polypeptide binding]; other site 565042002417 active site 565042002418 FMN-binding site [chemical binding]; other site 565042002419 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 565042002420 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 565042002421 ADP binding site [chemical binding]; other site 565042002422 magnesium binding site [ion binding]; other site 565042002423 putative shikimate binding site; other site 565042002424 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 565042002425 active site 565042002426 dimer interface [polypeptide binding]; other site 565042002427 metal binding site [ion binding]; metal-binding site 565042002428 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 565042002429 Dehydroquinase class II; Region: DHquinase_II; pfam01220 565042002430 trimer interface [polypeptide binding]; other site 565042002431 active site 565042002432 dimer interface [polypeptide binding]; other site 565042002433 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 565042002434 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 565042002435 metal binding site [ion binding]; metal-binding site 565042002436 CTP synthetase; Validated; Region: pyrG; PRK05380 565042002437 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 565042002438 Catalytic site [active] 565042002439 active site 565042002440 UTP binding site [chemical binding]; other site 565042002441 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 565042002442 active site 565042002443 putative oxyanion hole; other site 565042002444 catalytic triad [active] 565042002445 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 565042002446 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 565042002447 FeS assembly protein SufB; Region: sufB; TIGR01980 565042002448 FeS assembly protein SufD; Region: sufD; TIGR01981 565042002449 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 565042002450 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 565042002451 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 565042002452 Walker A/P-loop; other site 565042002453 ATP binding site [chemical binding]; other site 565042002454 Q-loop/lid; other site 565042002455 ABC transporter signature motif; other site 565042002456 Walker B; other site 565042002457 D-loop; other site 565042002458 H-loop/switch region; other site 565042002459 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 565042002460 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 565042002461 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565042002462 catalytic residue [active] 565042002463 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 565042002464 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 565042002465 trimerization site [polypeptide binding]; other site 565042002466 active site 565042002467 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 565042002468 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 565042002469 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 565042002470 ligand binding site; other site 565042002471 oligomer interface; other site 565042002472 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 565042002473 dimer interface [polypeptide binding]; other site 565042002474 N-terminal domain interface [polypeptide binding]; other site 565042002475 sulfate 1 binding site; other site 565042002476 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 565042002477 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 565042002478 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 565042002479 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 565042002480 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 565042002481 nucleotide binding site/active site [active] 565042002482 HIT family signature motif; other site 565042002483 catalytic residue [active] 565042002484 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 565042002485 PhoH-like protein; Region: PhoH; pfam02562 565042002486 metal-binding heat shock protein; Provisional; Region: PRK00016 565042002487 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 565042002488 Domain of unknown function DUF21; Region: DUF21; pfam01595 565042002489 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 565042002490 Transporter associated domain; Region: CorC_HlyC; smart01091 565042002491 GTPase Era; Reviewed; Region: era; PRK00089 565042002492 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 565042002493 G1 box; other site 565042002494 GTP/Mg2+ binding site [chemical binding]; other site 565042002495 Switch I region; other site 565042002496 G2 box; other site 565042002497 Switch II region; other site 565042002498 G3 box; other site 565042002499 G4 box; other site 565042002500 G5 box; other site 565042002501 KH domain; Region: KH_2; pfam07650 565042002502 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 565042002503 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 565042002504 acyl-activating enzyme (AAE) consensus motif; other site 565042002505 putative AMP binding site [chemical binding]; other site 565042002506 putative active site [active] 565042002507 putative CoA binding site [chemical binding]; other site 565042002508 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 565042002509 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 565042002510 ligand binding site [chemical binding]; other site 565042002511 homodimer interface [polypeptide binding]; other site 565042002512 NAD(P) binding site [chemical binding]; other site 565042002513 trimer interface B [polypeptide binding]; other site 565042002514 trimer interface A [polypeptide binding]; other site 565042002515 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 565042002516 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 565042002517 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 565042002518 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 565042002519 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 565042002520 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 565042002521 5S rRNA interface [nucleotide binding]; other site 565042002522 CTC domain interface [polypeptide binding]; other site 565042002523 L16 interface [polypeptide binding]; other site 565042002524 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 565042002525 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 565042002526 homodimer interface [polypeptide binding]; other site 565042002527 substrate-cofactor binding pocket; other site 565042002528 catalytic residue [active] 565042002529 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 565042002530 homodimer interface [polypeptide binding]; other site 565042002531 MazG family protein; Region: mazG; TIGR00444 565042002532 metal binding site [ion binding]; metal-binding site 565042002533 UPF0126 domain; Region: UPF0126; pfam03458 565042002534 Predicted membrane protein [Function unknown]; Region: COG2860 565042002535 UPF0126 domain; Region: UPF0126; pfam03458 565042002536 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 565042002537 GTP-binding protein LepA; Provisional; Region: PRK05433 565042002538 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 565042002539 G1 box; other site 565042002540 putative GEF interaction site [polypeptide binding]; other site 565042002541 GTP/Mg2+ binding site [chemical binding]; other site 565042002542 Switch I region; other site 565042002543 G2 box; other site 565042002544 G3 box; other site 565042002545 Switch II region; other site 565042002546 G4 box; other site 565042002547 G5 box; other site 565042002548 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 565042002549 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 565042002550 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 565042002551 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 565042002552 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 565042002553 FeS/SAM binding site; other site 565042002554 HemN C-terminal domain; Region: HemN_C; pfam06969 565042002555 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042002556 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042002557 DNA binding site [nucleotide binding] 565042002558 domain linker motif; other site 565042002559 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 565042002560 dimerization interface [polypeptide binding]; other site 565042002561 ligand binding site [chemical binding]; other site 565042002562 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 565042002563 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 565042002564 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 565042002565 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 565042002566 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 565042002567 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042002568 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042002569 DNA binding site [nucleotide binding] 565042002570 domain linker motif; other site 565042002571 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 565042002572 ligand binding site [chemical binding]; other site 565042002573 dimerization interface (open form) [polypeptide binding]; other site 565042002574 dimerization interface (closed form) [polypeptide binding]; other site 565042002575 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 565042002576 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 565042002577 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 565042002578 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042002579 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 565042002580 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 565042002581 active site 565042002582 dimer interface [polypeptide binding]; other site 565042002583 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 565042002584 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 565042002585 active site 565042002586 FMN binding site [chemical binding]; other site 565042002587 substrate binding site [chemical binding]; other site 565042002588 3Fe-4S cluster binding site [ion binding]; other site 565042002589 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 565042002590 domain interface; other site 565042002591 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 565042002592 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 565042002593 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 565042002594 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; cd00995 565042002595 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 565042002596 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 565042002597 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 565042002598 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 565042002599 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 565042002600 Walker A/P-loop; other site 565042002601 ATP binding site [chemical binding]; other site 565042002602 Q-loop/lid; other site 565042002603 ABC transporter signature motif; other site 565042002604 Walker B; other site 565042002605 D-loop; other site 565042002606 H-loop/switch region; other site 565042002607 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 565042002608 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 565042002609 active site 565042002610 motif I; other site 565042002611 motif II; other site 565042002612 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 565042002613 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 565042002614 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 565042002615 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 565042002616 catalytic triad [active] 565042002617 HTH-like domain; Region: HTH_21; pfam13276 565042002618 Integrase core domain; Region: rve; pfam00665 565042002619 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 565042002620 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 565042002621 active site 565042002622 DNA binding site [nucleotide binding] 565042002623 Int/Topo IB signature motif; other site 565042002624 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 565042002625 Int/Topo IB signature motif; other site 565042002626 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 565042002627 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 565042002628 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 565042002629 Int/Topo IB signature motif; other site 565042002630 Integrase core domain; Region: rve_2; pfam13333 565042002631 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 565042002632 tellurium resistance terB-like protein; Region: terB_like; cl11965 565042002633 metal binding site [ion binding]; metal-binding site 565042002634 Domain of unknown function (DUF955); Region: DUF955; cl01076 565042002635 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 565042002636 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 565042002637 putative NAD(P) binding site [chemical binding]; other site 565042002638 catalytic Zn binding site [ion binding]; other site 565042002639 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 565042002640 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565042002641 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 565042002642 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 565042002643 active site 565042002644 catalytic tetrad [active] 565042002645 Predicted esterase [General function prediction only]; Region: COG0400 565042002646 putative hydrolase; Provisional; Region: PRK11460 565042002647 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 565042002648 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 565042002649 S-adenosylmethionine binding site [chemical binding]; other site 565042002650 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 565042002651 catalytic core [active] 565042002652 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 565042002653 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 565042002654 THF binding site; other site 565042002655 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 565042002656 substrate binding site [chemical binding]; other site 565042002657 THF binding site; other site 565042002658 zinc-binding site [ion binding]; other site 565042002659 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 565042002660 FAD binding site [chemical binding]; other site 565042002661 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 565042002662 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 565042002663 active site 565042002664 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 565042002665 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 565042002666 metal binding triad; other site 565042002667 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 565042002668 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 565042002669 metal binding triad; other site 565042002670 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 565042002671 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 565042002672 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 565042002673 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 565042002674 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 565042002675 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 565042002676 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 565042002677 dihydroorotase; Validated; Region: pyrC; PRK09357 565042002678 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 565042002679 active site 565042002680 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 565042002681 active site 565042002682 dimer interface [polypeptide binding]; other site 565042002683 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 565042002684 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 565042002685 FAD binding pocket [chemical binding]; other site 565042002686 FAD binding motif [chemical binding]; other site 565042002687 phosphate binding motif [ion binding]; other site 565042002688 beta-alpha-beta structure motif; other site 565042002689 NAD binding pocket [chemical binding]; other site 565042002690 Iron coordination center [ion binding]; other site 565042002691 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 565042002692 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 565042002693 heterodimer interface [polypeptide binding]; other site 565042002694 active site 565042002695 FMN binding site [chemical binding]; other site 565042002696 homodimer interface [polypeptide binding]; other site 565042002697 substrate binding site [chemical binding]; other site 565042002698 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565042002699 active site 565042002700 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 565042002701 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565042002702 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565042002703 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; cd05466 565042002704 dimerization interface [polypeptide binding]; other site 565042002705 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 565042002706 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 565042002707 motif II; other site 565042002708 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 565042002709 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 565042002710 aspartate aminotransferase; Provisional; Region: PRK06836 565042002711 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 565042002712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042002713 homodimer interface [polypeptide binding]; other site 565042002714 catalytic residue [active] 565042002715 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 565042002716 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042002717 ABC transporter signature motif; other site 565042002718 Walker B; other site 565042002719 D-loop; other site 565042002720 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 565042002721 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 565042002722 Catalytic site [active] 565042002723 S-methylmethionine transporter; Provisional; Region: PRK11387 565042002724 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 565042002725 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 565042002726 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042002727 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 565042002728 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 565042002729 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 565042002730 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 565042002731 nudix motif; other site 565042002732 Predicted amidohydrolase [General function prediction only]; Region: COG0388 565042002733 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 565042002734 Abi-like protein; Region: Abi_2; pfam07751 565042002735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 565042002736 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 565042002737 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 565042002738 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 565042002739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565042002740 Coenzyme A binding pocket [chemical binding]; other site 565042002741 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 565042002742 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 565042002743 VanZ like family; Region: VanZ; pfam04892 565042002744 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042002745 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 565042002746 S-methylmethionine transporter; Provisional; Region: PRK11387 565042002747 endonuclease IV; Provisional; Region: PRK01060 565042002748 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 565042002749 AP (apurinic/apyrimidinic) site pocket; other site 565042002750 DNA interaction; other site 565042002751 Metal-binding active site; metal-binding site 565042002752 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 565042002753 bifunctional indole-3-glycerol phosphate synthase/tryptophan synthase subunit beta; Provisional; Region: PRK13802 565042002754 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 565042002755 active site 565042002756 ribulose/triose binding site [chemical binding]; other site 565042002757 phosphate binding site [ion binding]; other site 565042002758 substrate (anthranilate) binding pocket [chemical binding]; other site 565042002759 product (indole) binding pocket [chemical binding]; other site 565042002760 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 565042002761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042002762 catalytic residue [active] 565042002763 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 565042002764 substrate binding site [chemical binding]; other site 565042002765 active site 565042002766 catalytic residues [active] 565042002767 heterodimer interface [polypeptide binding]; other site 565042002768 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 565042002769 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 565042002770 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 565042002771 substrate binding site [chemical binding]; other site 565042002772 hexamer interface [polypeptide binding]; other site 565042002773 metal binding site [ion binding]; metal-binding site 565042002774 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 565042002775 homodimer interface [polypeptide binding]; other site 565042002776 putative metal binding site [ion binding]; other site 565042002777 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 565042002778 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 565042002779 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 565042002780 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 565042002781 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 565042002782 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 565042002783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 565042002784 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 565042002785 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 565042002786 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 565042002787 phosphopeptide binding site; other site 565042002788 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 565042002789 DNA binding residues [nucleotide binding] 565042002790 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 565042002791 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 565042002792 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 565042002793 active site 565042002794 DNA binding site [nucleotide binding] 565042002795 Int/Topo IB signature motif; other site 565042002796 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 565042002797 DNA methylase; Region: N6_N4_Mtase; cl17433 565042002798 DNA methylase; Region: N6_N4_Mtase; pfam01555 565042002799 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 565042002800 DNA polymerase II large subunit; Provisional; Region: PRK14714 565042002801 Tandem repeat subunit of reelin and related proteins; Region: Reelin_subrepeat_like; cl15240 565042002802 HipA N-terminal domain; Region: Couple_hipA; pfam13657 565042002803 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 565042002804 HipA-like N-terminal domain; Region: HipA_N; pfam07805 565042002805 HipA-like C-terminal domain; Region: HipA_C; pfam07804 565042002806 Methyltransferase domain; Region: Methyltransf_26; pfam13659 565042002807 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 565042002808 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 565042002809 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 565042002810 AAA domain; Region: AAA_21; pfam13304 565042002811 Helix-turn-helix domain; Region: HTH_38; pfam13936 565042002812 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042002813 Integrase core domain; Region: rve; pfam00665 565042002814 FemAB family; Region: FemAB; pfam02388 565042002815 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 565042002816 DivIVA domain; Region: DivI1A_domain; TIGR03544 565042002817 putative RNA ligase; Region: PHA02142 565042002818 RNA ligase; Region: RNA_ligase; pfam09414 565042002819 Probable transposase; Region: OrfB_IS605; pfam01385 565042002820 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 565042002821 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 565042002822 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 565042002823 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 565042002824 active site 565042002825 metal binding site [ion binding]; metal-binding site 565042002826 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd05830 565042002827 active site 565042002828 catalytic site [active] 565042002829 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 565042002830 Repair protein; Region: Repair_PSII; pfam04536 565042002831 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 565042002832 Repair protein; Region: Repair_PSII; pfam04536 565042002833 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 565042002834 Probable transposase; Region: OrfB_IS605; pfam01385 565042002835 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 565042002836 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 565042002837 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565042002838 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 565042002839 Walker A motif; other site 565042002840 ATP binding site [chemical binding]; other site 565042002841 Walker B motif; other site 565042002842 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 565042002843 Integrase core domain; Region: rve; pfam00665 565042002844 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 565042002845 AAA domain; Region: AAA_17; pfam13207 565042002846 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 565042002847 polymerase nucleotide-binding site; other site 565042002848 DNA-binding residues [nucleotide binding]; DNA binding site 565042002849 nucleotide binding site [chemical binding]; other site 565042002850 primase nucleotide-binding site [nucleotide binding]; other site 565042002851 Cna protein B-type domain; Region: Cna_B; pfam05738 565042002852 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 565042002853 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 565042002854 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 565042002855 active site 565042002856 catalytic site [active] 565042002857 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 565042002858 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 565042002859 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 565042002860 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 565042002861 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 565042002862 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; cl17512 565042002863 putative DNA binding surface [nucleotide binding]; other site 565042002864 dimer interface [polypeptide binding]; other site 565042002865 beta-clamp/clamp loader binding surface; other site 565042002866 beta-clamp/translesion DNA polymerase binding surface; other site 565042002867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 565042002868 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 565042002869 Probable transposase; Region: OrfB_IS605; pfam01385 565042002870 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 565042002871 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 565042002872 catalytic residues [active] 565042002873 Protein of unknown function (DUF2637); Region: DUF2637; pfam10935 565042002874 CHAP domain; Region: CHAP; pfam05257 565042002875 Hint (Hedgehog/Intein) domain N-terminal region; Region: HintN; smart00306 565042002876 thioester formation/cholesterol transfer; other site 565042002877 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 565042002878 Homing endonuclease; Region: Hom_end; pfam05204 565042002879 AAA-like domain; Region: AAA_10; pfam12846 565042002880 AAA domain; Region: AAA_30; pfam13604 565042002881 Family description; Region: UvrD_C_2; pfam13538 565042002882 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 565042002883 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565042002884 Walker A motif; other site 565042002885 ATP binding site [chemical binding]; other site 565042002886 Walker B motif; other site 565042002887 arginine finger; other site 565042002888 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 565042002889 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 565042002890 DNA-binding interface [nucleotide binding]; DNA binding site 565042002891 Integrase core domain; Region: rve; pfam00665 565042002892 AAA domain; Region: AAA_30; pfam13604 565042002893 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 565042002894 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 565042002895 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 565042002896 Methyltransferase domain; Region: Methyltransf_26; pfam13659 565042002897 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 565042002898 active site 565042002899 catalytic site [active] 565042002900 substrate binding site [chemical binding]; other site 565042002901 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 565042002902 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 565042002903 cofactor binding site; other site 565042002904 DNA binding site [nucleotide binding] 565042002905 substrate interaction site [chemical binding]; other site 565042002906 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 565042002907 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 565042002908 DNA methylase; Region: N6_N4_Mtase; cl17433 565042002909 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 565042002910 DNA methylase; Region: N6_N4_Mtase; pfam01555 565042002911 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 565042002912 active site 565042002913 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 565042002914 CHAP domain; Region: CHAP; pfam05257 565042002915 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 565042002916 NlpC/P60 family; Region: NLPC_P60; pfam00877 565042002917 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 565042002918 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 565042002919 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 565042002920 Protein of unknown function DUF262; Region: DUF262; pfam03235 565042002921 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 565042002922 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 565042002923 active site 565042002924 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 565042002925 Fic/DOC family; Region: Fic; pfam02661 565042002926 Fic/DOC family; Region: Fic; cl00960 565042002927 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 565042002928 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 565042002929 active site 565042002930 NTP binding site [chemical binding]; other site 565042002931 metal binding triad [ion binding]; metal-binding site 565042002932 antibiotic binding site [chemical binding]; other site 565042002933 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565042002934 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 565042002935 Walker A motif; other site 565042002936 ATP binding site [chemical binding]; other site 565042002937 Walker B motif; other site 565042002938 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 565042002939 Integrase core domain; Region: rve; pfam00665 565042002940 VRR-NUC domain; Region: VRR_NUC; pfam08774 565042002941 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 565042002942 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 565042002943 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 565042002944 nucleotide binding region [chemical binding]; other site 565042002945 ATP-binding site [chemical binding]; other site 565042002946 Helix-turn-helix domain; Region: HTH_17; pfam12728 565042002947 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 565042002948 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 565042002949 motif II; other site 565042002950 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 565042002951 DEAD-like helicases superfamily; Region: DEXDc; smart00487 565042002952 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 565042002953 ATP binding site [chemical binding]; other site 565042002954 putative Mg++ binding site [ion binding]; other site 565042002955 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 565042002956 nucleotide binding region [chemical binding]; other site 565042002957 ATP-binding site [chemical binding]; other site 565042002958 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 565042002959 Predicted transcriptional regulator [Transcription]; Region: COG2378 565042002960 WYL domain; Region: WYL; pfam13280 565042002961 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 565042002962 active site 565042002963 bifunctional cytidylate kinase/GTPase Der; Reviewed; Region: PRK09518 565042002964 AAA domain; Region: AAA_17; pfam13207 565042002965 Cytidylate kinase; Region: Cytidylate_kin; pfam02224 565042002966 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 565042002967 G1 box; other site 565042002968 GTP/Mg2+ binding site [chemical binding]; other site 565042002969 Switch I region; other site 565042002970 G2 box; other site 565042002971 Switch II region; other site 565042002972 G3 box; other site 565042002973 G4 box; other site 565042002974 G5 box; other site 565042002975 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 565042002976 G1 box; other site 565042002977 GTP/Mg2+ binding site [chemical binding]; other site 565042002978 Switch I region; other site 565042002979 G2 box; other site 565042002980 G3 box; other site 565042002981 Switch II region; other site 565042002982 G4 box; other site 565042002983 G5 box; other site 565042002984 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 565042002985 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 565042002986 RNA binding surface [nucleotide binding]; other site 565042002987 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 565042002988 active site 565042002989 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 565042002990 amphipathic channel; other site 565042002991 Asn-Pro-Ala signature motifs; other site 565042002992 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 565042002993 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 565042002994 purine monophosphate binding site [chemical binding]; other site 565042002995 dimer interface [polypeptide binding]; other site 565042002996 putative catalytic residues [active] 565042002997 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 565042002998 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 565042002999 CoA binding domain; Region: CoA_binding; smart00881 565042003000 CoA-ligase; Region: Ligase_CoA; pfam00549 565042003001 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 565042003002 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 565042003003 CoA-ligase; Region: Ligase_CoA; pfam00549 565042003004 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565042003005 active site 565042003006 Preprotein translocase subunit; Region: YajC; pfam02699 565042003007 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 565042003008 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 565042003009 Walker A motif; other site 565042003010 ATP binding site [chemical binding]; other site 565042003011 Walker B motif; other site 565042003012 arginine finger; other site 565042003013 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 565042003014 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 565042003015 RuvA N terminal domain; Region: RuvA_N; pfam01330 565042003016 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 565042003017 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 565042003018 active site 565042003019 putative DNA-binding cleft [nucleotide binding]; other site 565042003020 dimer interface [polypeptide binding]; other site 565042003021 hypothetical protein; Validated; Region: PRK00110 565042003022 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 565042003023 nucleotide binding site/active site [active] 565042003024 HIT family signature motif; other site 565042003025 catalytic residue [active] 565042003026 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 565042003027 thiS-thiF/thiG interaction site; other site 565042003028 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 565042003029 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 565042003030 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 565042003031 active site 565042003032 dimer interface [polypeptide binding]; other site 565042003033 motif 1; other site 565042003034 motif 2; other site 565042003035 motif 3; other site 565042003036 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 565042003037 anticodon binding site; other site 565042003038 PAC2 family; Region: PAC2; pfam09754 565042003039 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 565042003040 Phosphotransferase enzyme family; Region: APH; pfam01636 565042003041 Fructosamine kinase; Region: Fructosamin_kin; cl17579 565042003042 chaperone protein DnaJ; Provisional; Region: PRK14278 565042003043 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 565042003044 HSP70 interaction site [polypeptide binding]; other site 565042003045 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 565042003046 Zn binding sites [ion binding]; other site 565042003047 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 565042003048 dimer interface [polypeptide binding]; other site 565042003049 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 565042003050 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 565042003051 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 565042003052 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 565042003053 TPP-binding site [chemical binding]; other site 565042003054 dimer interface [polypeptide binding]; other site 565042003055 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 565042003056 PYR/PP interface [polypeptide binding]; other site 565042003057 dimer interface [polypeptide binding]; other site 565042003058 TPP binding site [chemical binding]; other site 565042003059 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 565042003060 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 565042003061 putative active site [active] 565042003062 transaldolase; Provisional; Region: PRK03903 565042003063 catalytic residue [active] 565042003064 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 565042003065 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 565042003066 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 565042003067 non-specific DNA binding site [nucleotide binding]; other site 565042003068 salt bridge; other site 565042003069 sequence-specific DNA binding site [nucleotide binding]; other site 565042003070 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 565042003071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042003072 homodimer interface [polypeptide binding]; other site 565042003073 catalytic residue [active] 565042003074 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 565042003075 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 565042003076 active site 565042003077 motif I; other site 565042003078 motif II; other site 565042003079 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 565042003080 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 565042003081 tetramer (dimer of dimers) interface [polypeptide binding]; other site 565042003082 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 565042003083 NAD binding site [chemical binding]; other site 565042003084 dimer interface [polypeptide binding]; other site 565042003085 substrate binding site [chemical binding]; other site 565042003086 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 565042003087 triosephosphate isomerase; Provisional; Region: PRK14567 565042003088 substrate binding site [chemical binding]; other site 565042003089 dimer interface [polypeptide binding]; other site 565042003090 catalytic triad [active] 565042003091 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 565042003092 Phosphoglycerate kinase; Region: PGK; pfam00162 565042003093 substrate binding site [chemical binding]; other site 565042003094 hinge regions; other site 565042003095 ADP binding site [chemical binding]; other site 565042003096 catalytic site [active] 565042003097 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 565042003098 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 565042003099 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 565042003100 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 565042003101 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 565042003102 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 565042003103 shikimate binding site; other site 565042003104 NAD(P) binding site [chemical binding]; other site 565042003105 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 565042003106 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 565042003107 GIY-YIG motif/motif A; other site 565042003108 active site 565042003109 catalytic site [active] 565042003110 putative DNA binding site [nucleotide binding]; other site 565042003111 metal binding site [ion binding]; metal-binding site 565042003112 UvrB/uvrC motif; Region: UVR; pfam02151 565042003113 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 565042003114 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 565042003115 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 565042003116 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 565042003117 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 565042003118 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 565042003119 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 565042003120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 565042003121 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 565042003122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 565042003123 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 565042003124 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 565042003125 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 565042003126 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 565042003127 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 565042003128 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 565042003129 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 565042003130 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 565042003131 Walker A/P-loop; other site 565042003132 ATP binding site [chemical binding]; other site 565042003133 Q-loop/lid; other site 565042003134 ABC transporter signature motif; other site 565042003135 Walker B; other site 565042003136 D-loop; other site 565042003137 H-loop/switch region; other site 565042003138 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 565042003139 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042003140 Walker A/P-loop; other site 565042003141 ATP binding site [chemical binding]; other site 565042003142 Q-loop/lid; other site 565042003143 ABC transporter signature motif; other site 565042003144 Walker B; other site 565042003145 D-loop; other site 565042003146 H-loop/switch region; other site 565042003147 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 565042003148 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 565042003149 classical (c) SDRs; Region: SDR_c; cd05233 565042003150 NAD(P) binding site [chemical binding]; other site 565042003151 active site 565042003152 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 565042003153 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042003154 Walker A/P-loop; other site 565042003155 ATP binding site [chemical binding]; other site 565042003156 Q-loop/lid; other site 565042003157 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565042003158 ABC transporter signature motif; other site 565042003159 Walker B; other site 565042003160 D-loop; other site 565042003161 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565042003162 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 565042003163 anthranilate synthase component I; Provisional; Region: PRK13571 565042003164 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 565042003165 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 565042003166 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 565042003167 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 565042003168 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 565042003169 substrate binding site [chemical binding]; other site 565042003170 glutamase interaction surface [polypeptide binding]; other site 565042003171 intracellular protease, PfpI family; Region: PfpI; TIGR01382 565042003172 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 565042003173 proposed catalytic triad [active] 565042003174 conserved cys residue [active] 565042003175 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 565042003176 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 565042003177 FeS/SAM binding site; other site 565042003178 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 565042003179 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 565042003180 ribosome recycling factor; Reviewed; Region: frr; PRK00083 565042003181 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 565042003182 hinge region; other site 565042003183 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 565042003184 putative nucleotide binding site [chemical binding]; other site 565042003185 uridine monophosphate binding site [chemical binding]; other site 565042003186 homohexameric interface [polypeptide binding]; other site 565042003187 elongation factor Ts; Provisional; Region: tsf; PRK09377 565042003188 Elongation factor TS; Region: EF_TS; pfam00889 565042003189 Elongation factor TS; Region: EF_TS; pfam00889 565042003190 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 565042003191 rRNA interaction site [nucleotide binding]; other site 565042003192 S8 interaction site; other site 565042003193 putative laminin-1 binding site; other site 565042003194 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 565042003195 active site 565042003196 catalytic residues [active] 565042003197 metal binding site [ion binding]; metal-binding site 565042003198 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 565042003199 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 565042003200 acyl-activating enzyme (AAE) consensus motif; other site 565042003201 putative AMP binding site [chemical binding]; other site 565042003202 putative active site [active] 565042003203 putative CoA binding site [chemical binding]; other site 565042003204 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 565042003205 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 565042003206 active site 565042003207 isocitrate dehydrogenase; Validated; Region: PRK08299 565042003208 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 565042003209 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 565042003210 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 565042003211 Peptidase family M23; Region: Peptidase_M23; pfam01551 565042003212 UGMP family protein; Validated; Region: PRK09604 565042003213 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 565042003214 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 565042003215 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565042003216 Coenzyme A binding pocket [chemical binding]; other site 565042003217 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 565042003218 Glycoprotease family; Region: Peptidase_M22; pfam00814 565042003219 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 565042003220 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 565042003221 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 565042003222 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 565042003223 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 565042003224 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 565042003225 active site 565042003226 Competence protein; Region: Competence; pfam03772 565042003227 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 565042003228 Helix-hairpin-helix motif; Region: HHH; pfam00633 565042003229 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 565042003230 Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: LeuS; COG0495 565042003231 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565042003232 active site 565042003233 HIGH motif; other site 565042003234 nucleotide binding site [chemical binding]; other site 565042003235 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565042003236 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 565042003237 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565042003238 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565042003239 active site 565042003240 KMSKS motif; other site 565042003241 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 565042003242 tRNA binding surface [nucleotide binding]; other site 565042003243 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 565042003244 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 565042003245 substrate binding pocket [chemical binding]; other site 565042003246 membrane-bound complex binding site; other site 565042003247 hinge residues; other site 565042003248 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 565042003249 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 565042003250 Cl binding site [ion binding]; other site 565042003251 oligomer interface [polypeptide binding]; other site 565042003252 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 565042003253 catalytic core [active] 565042003254 Methyltransferase domain; Region: Methyltransf_26; pfam13659 565042003255 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 565042003256 EamA-like transporter family; Region: EamA; pfam00892 565042003257 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 565042003258 EamA-like transporter family; Region: EamA; pfam00892 565042003259 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 565042003260 active site 565042003261 HTH-like domain; Region: HTH_21; pfam13276 565042003262 Integrase core domain; Region: rve; pfam00665 565042003263 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 565042003264 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 565042003265 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 565042003266 Int/Topo IB signature motif; other site 565042003267 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 565042003268 Int/Topo IB signature motif; other site 565042003269 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 565042003270 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 565042003271 active site 565042003272 DNA binding site [nucleotide binding] 565042003273 Int/Topo IB signature motif; other site 565042003274 Integrase core domain; Region: rve; pfam00665 565042003275 Integrase core domain; Region: rve_2; pfam13333 565042003276 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 565042003277 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 565042003278 Zn2+ binding site [ion binding]; other site 565042003279 Mg2+ binding site [ion binding]; other site 565042003280 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 565042003281 synthetase active site [active] 565042003282 NTP binding site [chemical binding]; other site 565042003283 metal binding site [ion binding]; metal-binding site 565042003284 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 565042003285 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 565042003286 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 565042003287 trimer interface [polypeptide binding]; other site 565042003288 active site 565042003289 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 565042003290 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 565042003291 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 565042003292 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 565042003293 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 565042003294 CAP-like domain; other site 565042003295 active site 565042003296 primary dimer interface [polypeptide binding]; other site 565042003297 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 565042003298 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565042003299 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; cl17736 565042003300 phosphorylation site [posttranslational modification] 565042003301 intermolecular recognition site; other site 565042003302 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 565042003303 DNA binding site [nucleotide binding] 565042003304 DEAD-like helicases superfamily; Region: DEXDc; smart00487 565042003305 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 565042003306 ATP binding site [chemical binding]; other site 565042003307 putative Mg++ binding site [ion binding]; other site 565042003308 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 565042003309 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 565042003310 nucleotide binding region [chemical binding]; other site 565042003311 ATP-binding site [chemical binding]; other site 565042003312 DEAD/H associated; Region: DEAD_assoc; pfam08494 565042003313 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 565042003314 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 565042003315 substrate binding site [chemical binding]; other site 565042003316 dimer interface [polypeptide binding]; other site 565042003317 ATP binding site [chemical binding]; other site 565042003318 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 565042003319 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042003320 putative substrate translocation pore; other site 565042003321 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 565042003322 Mg2+ binding site [ion binding]; other site 565042003323 G-X-G motif; other site 565042003324 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 565042003325 anchoring element; other site 565042003326 dimer interface [polypeptide binding]; other site 565042003327 ATP binding site [chemical binding]; other site 565042003328 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 565042003329 active site 565042003330 metal binding site [ion binding]; metal-binding site 565042003331 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 565042003332 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 565042003333 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 565042003334 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565042003335 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 565042003336 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 565042003337 DNA binding residues [nucleotide binding] 565042003338 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 565042003339 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 565042003340 substrate binding pocket [chemical binding]; other site 565042003341 chain length determination region; other site 565042003342 substrate-Mg2+ binding site; other site 565042003343 catalytic residues [active] 565042003344 aspartate-rich region 1; other site 565042003345 active site lid residues [active] 565042003346 aspartate-rich region 2; other site 565042003347 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 565042003348 Catalytic domain of Protein Kinases; Region: PKc; cd00180 565042003349 active site 565042003350 ATP binding site [chemical binding]; other site 565042003351 substrate binding site [chemical binding]; other site 565042003352 activation loop (A-loop); other site 565042003353 PASTA domain; Region: PASTA; pfam03793 565042003354 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 565042003355 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 565042003356 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 565042003357 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 565042003358 putative acyl-acceptor binding pocket; other site 565042003359 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 565042003360 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 565042003361 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 565042003362 Transposase; Region: DDE_Tnp_ISL3; pfam01610 565042003363 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 565042003364 DEAD/DEAH box helicase; Region: DEAD; pfam00270 565042003365 ATP binding site [chemical binding]; other site 565042003366 putative Mg++ binding site [ion binding]; other site 565042003367 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 565042003368 SEC-C motif; Region: SEC-C; pfam02810 565042003369 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 565042003370 30S subunit binding site; other site 565042003371 RecX family; Region: RecX; pfam02631 565042003372 recombinase A; Provisional; Region: recA; PRK09354 565042003373 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 565042003374 hexamer interface [polypeptide binding]; other site 565042003375 Walker A motif; other site 565042003376 ATP binding site [chemical binding]; other site 565042003377 Walker B motif; other site 565042003378 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 565042003379 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 565042003380 sequence-specific DNA binding site [nucleotide binding]; other site 565042003381 salt bridge; other site 565042003382 Competence-damaged protein; Region: CinA; pfam02464 565042003383 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 565042003384 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 565042003385 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 565042003386 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 565042003387 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 565042003388 Fic/DOC family; Region: Fic; cl00960 565042003389 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 565042003390 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 565042003391 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 565042003392 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 565042003393 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 565042003394 FeS/SAM binding site; other site 565042003395 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 565042003396 synthetase active site [active] 565042003397 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 565042003398 NTP binding site [chemical binding]; other site 565042003399 metal binding site [ion binding]; metal-binding site 565042003400 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 565042003401 EamA-like transporter family; Region: EamA; pfam00892 565042003402 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 565042003403 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 565042003404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 565042003405 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 565042003406 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 565042003407 active site 565042003408 phosphorylation site [posttranslational modification] 565042003409 intermolecular recognition site; other site 565042003410 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 565042003411 DNA binding residues [nucleotide binding] 565042003412 dimerization interface [polypeptide binding]; other site 565042003413 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565042003414 Coenzyme A binding pocket [chemical binding]; other site 565042003415 Protein of unknown function DUF262; Region: DUF262; pfam03235 565042003416 Uncharacterized conserved protein [Function unknown]; Region: COG1479 565042003417 Protein of unknown function DUF262; Region: DUF262; pfam03235 565042003418 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 565042003419 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1848 565042003420 putative active site [active] 565042003421 RelB antitoxin; Region: RelB; cl01171 565042003422 aconitate hydratase; Validated; Region: PRK09277 565042003423 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 565042003424 substrate binding site [chemical binding]; other site 565042003425 ligand binding site [chemical binding]; other site 565042003426 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 565042003427 substrate binding site [chemical binding]; other site 565042003428 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 565042003429 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 565042003430 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 565042003431 motif II; other site 565042003432 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 565042003433 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 565042003434 TRAM domain; Region: TRAM; cl01282 565042003435 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 565042003436 S-adenosylmethionine binding site [chemical binding]; other site 565042003437 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 565042003438 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 565042003439 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 565042003440 putative active site [active] 565042003441 putative catalytic site [active] 565042003442 putative DNA binding site [nucleotide binding]; other site 565042003443 putative phosphate binding site [ion binding]; other site 565042003444 metal binding site A [ion binding]; metal-binding site 565042003445 putative AP binding site [nucleotide binding]; other site 565042003446 putative metal binding site B [ion binding]; other site 565042003447 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 565042003448 AAA domain; Region: AAA_21; pfam13304 565042003449 Walker A/P-loop; other site 565042003450 ATP binding site [chemical binding]; other site 565042003451 Q-loop/lid; other site 565042003452 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 565042003453 ABC transporter signature motif; other site 565042003454 Walker B; other site 565042003455 D-loop; other site 565042003456 H-loop/switch region; other site 565042003457 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 565042003458 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 565042003459 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 565042003460 Walker A/P-loop; other site 565042003461 ATP binding site [chemical binding]; other site 565042003462 Q-loop/lid; other site 565042003463 ABC transporter signature motif; other site 565042003464 Walker B; other site 565042003465 D-loop; other site 565042003466 H-loop/switch region; other site 565042003467 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 565042003468 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 565042003469 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 565042003470 dimer interface [polypeptide binding]; other site 565042003471 conserved gate region; other site 565042003472 putative PBP binding loops; other site 565042003473 ABC-ATPase subunit interface; other site 565042003474 potential frameshift: common BLAST hit: gi|189439116|ref|YP_001954197.1| dipeptide/oligopeptide/nickel ABC transporter permease 565042003475 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 565042003476 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 565042003477 putative PBP binding loops; other site 565042003478 dimer interface [polypeptide binding]; other site 565042003479 ABC-ATPase subunit interface; other site 565042003480 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 565042003481 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 565042003482 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; cd00995 565042003483 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 565042003484 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 565042003485 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 565042003486 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 565042003487 active site 565042003488 DNA binding site [nucleotide binding] 565042003489 Int/Topo IB signature motif; other site 565042003490 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 565042003491 prephenate dehydrogenase; Validated; Region: PRK08507 565042003492 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 565042003493 Prephenate dehydratase; Region: PDT; pfam00800 565042003494 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 565042003495 putative L-Phe binding site [chemical binding]; other site 565042003496 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 565042003497 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 565042003498 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 565042003499 G1 box; other site 565042003500 putative GEF interaction site [polypeptide binding]; other site 565042003501 GTP/Mg2+ binding site [chemical binding]; other site 565042003502 Switch I region; other site 565042003503 G2 box; other site 565042003504 G3 box; other site 565042003505 Switch II region; other site 565042003506 G4 box; other site 565042003507 G5 box; other site 565042003508 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 565042003509 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 565042003510 benzoate transport; Region: 2A0115; TIGR00895 565042003511 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 565042003512 putative substrate translocation pore; other site 565042003513 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 565042003514 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 565042003515 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565042003516 catalytic residue [active] 565042003517 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06543 565042003518 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 565042003519 dimerization interface [polypeptide binding]; other site 565042003520 active site 565042003521 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 565042003522 L-aspartate oxidase; Provisional; Region: PRK06175 565042003523 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 565042003524 quinolinate synthetase; Provisional; Region: PRK09375 565042003525 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 565042003526 nudix motif; other site 565042003527 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 565042003528 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 565042003529 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 565042003530 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 565042003531 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 565042003532 P-loop; other site 565042003533 Magnesium ion binding site [ion binding]; other site 565042003534 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 565042003535 Magnesium ion binding site [ion binding]; other site 565042003536 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042003537 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565042003538 Walker A/P-loop; other site 565042003539 ATP binding site [chemical binding]; other site 565042003540 Q-loop/lid; other site 565042003541 ABC transporter signature motif; other site 565042003542 Walker B; other site 565042003543 D-loop; other site 565042003544 H-loop/switch region; other site 565042003545 FtsX-like permease family; Region: FtsX; pfam02687 565042003546 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 565042003547 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 565042003548 active site 565042003549 Int/Topo IB signature motif; other site 565042003550 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 565042003551 23S rRNA binding site [nucleotide binding]; other site 565042003552 L21 binding site [polypeptide binding]; other site 565042003553 L13 binding site [polypeptide binding]; other site 565042003554 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 565042003555 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 565042003556 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 565042003557 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 565042003558 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 565042003559 S-adenosylmethionine binding site [chemical binding]; other site 565042003560 Thiamine pyrophosphokinase; Region: TPK; cd07995 565042003561 active site 565042003562 dimerization interface [polypeptide binding]; other site 565042003563 thiamine binding site [chemical binding]; other site 565042003564 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 565042003565 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 565042003566 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 565042003567 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 565042003568 putative deacylase active site [active] 565042003569 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 565042003570 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 565042003571 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 565042003572 active site 565042003573 catalytic residues [active] 565042003574 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 565042003575 active site 565042003576 catalytic residues [active] 565042003577 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 565042003578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 565042003579 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 565042003580 DNA binding residues [nucleotide binding] 565042003581 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 565042003582 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 565042003583 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565042003584 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 565042003585 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 565042003586 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 565042003587 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 565042003588 Walker A/P-loop; other site 565042003589 ATP binding site [chemical binding]; other site 565042003590 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 565042003591 ABC transporter signature motif; other site 565042003592 Walker B; other site 565042003593 D-loop; other site 565042003594 H-loop/switch region; other site 565042003595 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 565042003596 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565042003597 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 565042003598 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 565042003599 proline aminopeptidase P II; Provisional; Region: PRK10879 565042003600 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 565042003601 active site 565042003602 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_17; cd04676 565042003603 nudix motif; other site 565042003604 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 565042003605 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 565042003606 Walker A/P-loop; other site 565042003607 ATP binding site [chemical binding]; other site 565042003608 Q-loop/lid; other site 565042003609 ABC transporter signature motif; other site 565042003610 Walker B; other site 565042003611 D-loop; other site 565042003612 H-loop/switch region; other site 565042003613 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 565042003614 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 565042003615 Walker A/P-loop; other site 565042003616 ATP binding site [chemical binding]; other site 565042003617 Q-loop/lid; other site 565042003618 ABC transporter signature motif; other site 565042003619 Walker B; other site 565042003620 D-loop; other site 565042003621 H-loop/switch region; other site 565042003622 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 565042003623 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 565042003624 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 565042003625 dimer interface [polypeptide binding]; other site 565042003626 conserved gate region; other site 565042003627 ABC-ATPase subunit interface; other site 565042003628 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 565042003629 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 565042003630 dimer interface [polypeptide binding]; other site 565042003631 conserved gate region; other site 565042003632 putative PBP binding loops; other site 565042003633 ABC-ATPase subunit interface; other site 565042003634 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 565042003635 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_20; cd08519 565042003636 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 565042003637 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 565042003638 active site 565042003639 dimer interface [polypeptide binding]; other site 565042003640 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 565042003641 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 565042003642 active site 565042003643 trimer interface [polypeptide binding]; other site 565042003644 allosteric site; other site 565042003645 active site lid [active] 565042003646 hexamer (dimer of trimers) interface [polypeptide binding]; other site 565042003647 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 565042003648 non-specific DNA interactions [nucleotide binding]; other site 565042003649 DNA binding site [nucleotide binding] 565042003650 sequence specific DNA binding site [nucleotide binding]; other site 565042003651 putative cAMP binding site [chemical binding]; other site 565042003652 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565042003653 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565042003654 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565042003655 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565042003656 nucleotide binding site [chemical binding]; other site 565042003657 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 565042003658 putative DNA binding site [nucleotide binding]; other site 565042003659 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565042003660 putative Zn2+ binding site [ion binding]; other site 565042003661 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565042003662 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 565042003663 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 565042003664 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 565042003665 putative substrate binding site [chemical binding]; other site 565042003666 putative ATP binding site [chemical binding]; other site 565042003667 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 565042003668 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 565042003669 active site 565042003670 metal binding site [ion binding]; metal-binding site 565042003671 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 565042003672 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 565042003673 putative substrate translocation pore; other site 565042003674 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 565042003675 putative active site [active] 565042003676 dimerization interface [polypeptide binding]; other site 565042003677 putative tRNAtyr binding site [nucleotide binding]; other site 565042003678 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 565042003679 metal ion-dependent adhesion site (MIDAS); other site 565042003680 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 565042003681 putative active site [active] 565042003682 putative ADP-ribose binding site [chemical binding]; other site 565042003683 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 565042003684 Cell division protein FtsQ; Region: FtsQ; pfam03799 565042003685 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 565042003686 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 565042003687 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565042003688 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 565042003689 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 565042003690 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 565042003691 active site 565042003692 homodimer interface [polypeptide binding]; other site 565042003693 cell division protein FtsW; Region: ftsW; TIGR02614 565042003694 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 565042003695 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01438 565042003696 NAD binding site [chemical binding]; other site 565042003697 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565042003698 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 565042003699 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 565042003700 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 565042003701 Mg++ binding site [ion binding]; other site 565042003702 putative catalytic motif [active] 565042003703 putative substrate binding site [chemical binding]; other site 565042003704 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 565042003705 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 565042003706 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 565042003707 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 565042003708 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 565042003709 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 565042003710 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 565042003711 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 565042003712 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 565042003713 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 565042003714 S-adenosylmethionine binding site [chemical binding]; other site 565042003715 cell division protein MraZ; Reviewed; Region: PRK00326 565042003716 MraZ protein; Region: MraZ; pfam02381 565042003717 MraZ protein; Region: MraZ; pfam02381 565042003718 Part of AAA domain; Region: AAA_19; pfam13245 565042003719 Family description; Region: UvrD_C_2; pfam13538 565042003720 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 565042003721 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 565042003722 ligand binding site [chemical binding]; other site 565042003723 NAD binding site [chemical binding]; other site 565042003724 tetramer interface [polypeptide binding]; other site 565042003725 catalytic site [active] 565042003726 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 565042003727 L-serine binding site [chemical binding]; other site 565042003728 ACT domain interface; other site 565042003729 ATP cone domain; Region: ATP-cone; pfam03477 565042003730 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 565042003731 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 565042003732 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565042003733 Walker A motif; other site 565042003734 ATP binding site [chemical binding]; other site 565042003735 Walker B motif; other site 565042003736 arginine finger; other site 565042003737 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 565042003738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 565042003739 DNA-binding interface [nucleotide binding]; DNA binding site 565042003740 Integrase core domain; Region: rve; pfam00665 565042003741 LexA repressor; Validated; Region: PRK00215 565042003742 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 565042003743 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 565042003744 Catalytic site [active] 565042003745 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 565042003746 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 565042003747 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 565042003748 NAD binding site [chemical binding]; other site 565042003749 dimer interface [polypeptide binding]; other site 565042003750 substrate binding site [chemical binding]; other site 565042003751 tetramer (dimer of dimers) interface [polypeptide binding]; other site 565042003752 GTPases [General function prediction only]; Region: HflX; COG2262 565042003753 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 565042003754 HflX GTPase family; Region: HflX; cd01878 565042003755 G1 box; other site 565042003756 GTP/Mg2+ binding site [chemical binding]; other site 565042003757 Switch I region; other site 565042003758 G2 box; other site 565042003759 G3 box; other site 565042003760 Switch II region; other site 565042003761 G4 box; other site 565042003762 G5 box; other site 565042003763 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 565042003764 S-adenosylmethionine binding site [chemical binding]; other site 565042003765 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 565042003766 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 565042003767 ATP binding site [chemical binding]; other site 565042003768 putative Mg++ binding site [ion binding]; other site 565042003769 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 565042003770 nucleotide binding region [chemical binding]; other site 565042003771 ATP-binding site [chemical binding]; other site 565042003772 Helicase associated domain (HA2); Region: HA2; pfam04408 565042003773 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 565042003774 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 565042003775 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 565042003776 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 565042003777 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 565042003778 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 565042003779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 565042003780 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 565042003781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 565042003782 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 565042003783 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 565042003784 catalytic residues [active] 565042003785 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 565042003786 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 565042003787 putative active site [active] 565042003788 oxyanion strand; other site 565042003789 catalytic triad [active] 565042003790 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 565042003791 putative active site pocket [active] 565042003792 4-fold oligomerization interface [polypeptide binding]; other site 565042003793 metal binding residues [ion binding]; metal-binding site 565042003794 3-fold/trimer interface [polypeptide binding]; other site 565042003795 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 565042003796 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 565042003797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042003798 homodimer interface [polypeptide binding]; other site 565042003799 catalytic residue [active] 565042003800 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 565042003801 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 565042003802 NAD binding site [chemical binding]; other site 565042003803 dimerization interface [polypeptide binding]; other site 565042003804 product binding site; other site 565042003805 substrate binding site [chemical binding]; other site 565042003806 zinc binding site [ion binding]; other site 565042003807 catalytic residues [active] 565042003808 Acylphosphatase; Region: Acylphosphatase; cl00551 565042003809 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 565042003810 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 565042003811 nucleotide binding site [chemical binding]; other site 565042003812 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 565042003813 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 565042003814 active site 565042003815 catalytic tetrad [active] 565042003816 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 565042003817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565042003818 Coenzyme A binding pocket [chemical binding]; other site 565042003819 myosin-cross-reactive antigen; Provisional; Region: PRK13977 565042003820 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 565042003821 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 565042003822 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 565042003823 active site 565042003824 PHP Thumb interface [polypeptide binding]; other site 565042003825 metal binding site [ion binding]; metal-binding site 565042003826 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 565042003827 generic binding surface II; other site 565042003828 generic binding surface I; other site 565042003829 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 565042003830 Transposase; Region: DDE_Tnp_ISL3; pfam01610 565042003831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 565042003832 Uncharacterized conserved protein [Function unknown]; Region: COG1479 565042003833 Protein of unknown function DUF262; Region: DUF262; pfam03235 565042003834 Protein of unknown function DUF262; Region: DUF262; pfam03235 565042003835 Uncharacterized conserved protein [Function unknown]; Region: COG1479 565042003836 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 565042003837 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 565042003838 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 565042003839 Family description; Region: UvrD_C_2; pfam13538 565042003840 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 565042003841 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 565042003842 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 565042003843 PHP domain; Region: PHP; pfam02811 565042003844 active site 565042003845 PHP Thumb interface [polypeptide binding]; other site 565042003846 metal binding site [ion binding]; metal-binding site 565042003847 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 565042003848 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 565042003849 Predicted transcriptional regulator [Transcription]; Region: COG2378 565042003850 putative DNA binding site [nucleotide binding]; other site 565042003851 putative Zn2+ binding site [ion binding]; other site 565042003852 WYL domain; Region: WYL; pfam13280 565042003853 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 565042003854 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 565042003855 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 565042003856 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 565042003857 active site 565042003858 lipoprotein signal peptidase; Provisional; Region: PRK14771 565042003859 DivIVA protein; Region: DivIVA; pfam05103 565042003860 DivIVA domain; Region: DivI1A_domain; TIGR03544 565042003861 YGGT family; Region: YGGT; pfam02325 565042003862 Protein of unknown function (DUF552); Region: DUF552; pfam04472 565042003863 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 565042003864 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 565042003865 nucleotide binding site [chemical binding]; other site 565042003866 SulA interaction site; other site 565042003867 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 565042003868 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 565042003869 FMN binding site [chemical binding]; other site 565042003870 active site 565042003871 catalytic residues [active] 565042003872 substrate binding site [chemical binding]; other site 565042003873 glycyl-tRNA synthetase; Provisional; Region: PRK04173 565042003874 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 565042003875 motif 1; other site 565042003876 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 565042003877 active site 565042003878 motif 2; other site 565042003879 motif 3; other site 565042003880 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 565042003881 anticodon binding site; other site 565042003882 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 565042003883 substrate binding site [chemical binding]; other site 565042003884 multimerization interface [polypeptide binding]; other site 565042003885 ATP binding site [chemical binding]; other site 565042003886 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 565042003887 thiamine phosphate binding site [chemical binding]; other site 565042003888 active site 565042003889 pyrophosphate binding site [ion binding]; other site 565042003890 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 565042003891 ThiC-associated domain; Region: ThiC-associated; pfam13667 565042003892 ThiC family; Region: ThiC; pfam01964 565042003893 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 565042003894 substrate binding site [chemical binding]; other site 565042003895 dimer interface [polypeptide binding]; other site 565042003896 ATP binding site [chemical binding]; other site 565042003897 Domain of unknown function DUF77; Region: DUF77; pfam01910 565042003898 benzoate transport; Region: 2A0115; TIGR00895 565042003899 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 565042003900 putative substrate translocation pore; other site 565042003901 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 565042003902 putative substrate translocation pore; other site 565042003903 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cd00172 565042003904 serpin-like protein; Provisional; Region: PHA02660 565042003905 reactive center loop; other site 565042003906 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042003907 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042003908 DNA binding site [nucleotide binding] 565042003909 domain linker motif; other site 565042003910 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 565042003911 putative dimerization interface [polypeptide binding]; other site 565042003912 putative ligand binding site [chemical binding]; other site 565042003913 galactoside permease; Reviewed; Region: lacY; PRK09528 565042003914 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 565042003915 putative substrate translocation pore; other site 565042003916 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 565042003917 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 565042003918 substrate binding [chemical binding]; other site 565042003919 active site 565042003920 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 565042003921 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 565042003922 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 565042003923 dimer interface [polypeptide binding]; other site 565042003924 conserved gate region; other site 565042003925 putative PBP binding loops; other site 565042003926 ABC-ATPase subunit interface; other site 565042003927 NMT1/THI5 like; Region: NMT1; pfam09084 565042003928 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 565042003929 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 565042003930 active site 565042003931 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14829 565042003932 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 565042003933 catalytic residue [active] 565042003934 putative FPP diphosphate binding site; other site 565042003935 putative FPP binding hydrophobic cleft; other site 565042003936 dimer interface [polypeptide binding]; other site 565042003937 putative IPP diphosphate binding site; other site 565042003938 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 565042003939 Recombination protein O N terminal; Region: RecO_N; pfam11967 565042003940 Recombination protein O C terminal; Region: RecO_C; pfam02565 565042003941 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 565042003942 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 565042003943 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 565042003944 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 565042003945 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 565042003946 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 565042003947 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 565042003948 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 565042003949 DivIVA domain repeat protein; Region: divI1A_rptt_fam; TIGR03543 565042003950 DivIVA domain; Region: DivI1A_domain; TIGR03544 565042003951 DivIVA domain; Region: DivI1A_domain; TIGR03544 565042003952 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 565042003953 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 565042003954 Uncharacterized conserved protein (DUF2342); Region: DUF2342; cl02183 565042003955 Uncharacterized conserved protein (DUF2342); Region: DUF2342; cl02183 565042003956 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 565042003957 Part of AAA domain; Region: AAA_19; pfam13245 565042003958 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 565042003959 Family description; Region: UvrD_C_2; pfam13538 565042003960 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 565042003961 substrate binding site [chemical binding]; other site 565042003962 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 565042003963 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 565042003964 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 565042003965 active site 565042003966 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 565042003967 Vitamin K epoxide reductase family in bacteria; Region: VKOR_5; cd12922 565042003968 putative active site [active] 565042003969 redox center [active] 565042003970 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 565042003971 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 565042003972 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 565042003973 glutamate racemase; Provisional; Region: PRK00865 565042003974 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 565042003975 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 565042003976 active site 565042003977 nucleophile elbow; other site 565042003978 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 565042003979 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 565042003980 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 565042003981 NIL domain; Region: NIL; pfam09383 565042003982 Zinc-binding dehydrogenase; Region: ADH_zinc_N_2; pfam13602 565042003983 Predicted transcriptional regulator [Transcription]; Region: COG1959 565042003984 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 565042003985 catalytic residues [active] 565042003986 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 565042003987 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 565042003988 homodimer interface [polypeptide binding]; other site 565042003989 substrate-cofactor binding pocket; other site 565042003990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042003991 catalytic residue [active] 565042003992 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 565042003993 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 565042003994 substrate binding pocket [chemical binding]; other site 565042003995 membrane-bound complex binding site; other site 565042003996 hinge residues; other site 565042003997 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 565042003998 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 565042003999 Walker A/P-loop; other site 565042004000 ATP binding site [chemical binding]; other site 565042004001 Q-loop/lid; other site 565042004002 ABC transporter signature motif; other site 565042004003 Walker B; other site 565042004004 D-loop; other site 565042004005 H-loop/switch region; other site 565042004006 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 565042004007 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 565042004008 dimer interface [polypeptide binding]; other site 565042004009 conserved gate region; other site 565042004010 putative PBP binding loops; other site 565042004011 ABC-ATPase subunit interface; other site 565042004012 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 565042004013 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 565042004014 dimer interface [polypeptide binding]; other site 565042004015 conserved gate region; other site 565042004016 putative PBP binding loops; other site 565042004017 ABC-ATPase subunit interface; other site 565042004018 Predicted esterase [General function prediction only]; Region: COG0400 565042004019 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 565042004020 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 565042004021 translation elongation factor EF-G; Region: EF-G; TIGR00484 565042004022 G1 box; other site 565042004023 putative GEF interaction site [polypeptide binding]; other site 565042004024 GTP/Mg2+ binding site [chemical binding]; other site 565042004025 Switch I region; other site 565042004026 G2 box; other site 565042004027 G3 box; other site 565042004028 Switch II region; other site 565042004029 G4 box; other site 565042004030 G5 box; other site 565042004031 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 565042004032 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 565042004033 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 565042004034 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 565042004035 active site 565042004036 catalytic site [active] 565042004037 substrate binding site [chemical binding]; other site 565042004038 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 565042004039 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 565042004040 catalytic site [active] 565042004041 G-X2-G-X-G-K; other site 565042004042 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 565042004043 active site 565042004044 dimer interface [polypeptide binding]; other site 565042004045 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 565042004046 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565042004047 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565042004048 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 565042004049 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565042004050 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565042004051 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 565042004052 IMP binding site; other site 565042004053 dimer interface [polypeptide binding]; other site 565042004054 interdomain contacts; other site 565042004055 partial ornithine binding site; other site 565042004056 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 565042004057 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 565042004058 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 565042004059 catalytic site [active] 565042004060 subunit interface [polypeptide binding]; other site 565042004061 transcription antitermination factor NusB; Region: nusB; TIGR01951 565042004062 putative RNA binding site [nucleotide binding]; other site 565042004063 elongation factor P; Validated; Region: PRK00529 565042004064 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 565042004065 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 565042004066 RNA binding site [nucleotide binding]; other site 565042004067 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 565042004068 RNA binding site [nucleotide binding]; other site 565042004069 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042004070 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042004071 Walker A/P-loop; other site 565042004072 ATP binding site [chemical binding]; other site 565042004073 Q-loop/lid; other site 565042004074 ABC transporter signature motif; other site 565042004075 Walker B; other site 565042004076 D-loop; other site 565042004077 H-loop/switch region; other site 565042004078 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 565042004079 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 565042004080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 565042004081 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 565042004082 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 565042004083 S-adenosylmethionine binding site [chemical binding]; other site 565042004084 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 565042004085 catalytic residues [active] 565042004086 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 565042004087 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 565042004088 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 565042004089 putative alpha-glucosidase; Provisional; Region: PRK10658 565042004090 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 565042004091 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 565042004092 active site 565042004093 catalytic site [active] 565042004094 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 565042004095 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 565042004096 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 565042004097 Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine...; Region: GH20_GcnA-like; cd06565 565042004098 putative active site [active] 565042004099 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 565042004100 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 565042004101 dimer interface [polypeptide binding]; other site 565042004102 conserved gate region; other site 565042004103 putative PBP binding loops; other site 565042004104 ABC-ATPase subunit interface; other site 565042004105 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 565042004106 Domain of unknown function DUF59; Region: DUF59; cl00941 565042004107 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 565042004108 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 565042004109 Walker A motif; other site 565042004110 Ligase N family; Region: LIGANc; smart00532 565042004111 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 565042004112 nucleotide binding pocket [chemical binding]; other site 565042004113 K-X-D-G motif; other site 565042004114 catalytic site [active] 565042004115 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 565042004116 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 565042004117 Helix-hairpin-helix motif; Region: HHH; pfam00633 565042004118 helix-hairpin-helix signature motif; other site 565042004119 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 565042004120 Dimer interface [polypeptide binding]; other site 565042004121 TPR repeat; Region: TPR_11; pfam13414 565042004122 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 565042004123 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042004124 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 565042004125 Walker A/P-loop; other site 565042004126 ATP binding site [chemical binding]; other site 565042004127 ABC transporter signature motif; other site 565042004128 Walker B; other site 565042004129 D-loop; other site 565042004130 H-loop/switch region; other site 565042004131 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 565042004132 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 565042004133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042004134 homodimer interface [polypeptide binding]; other site 565042004135 catalytic residue [active] 565042004136 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565042004137 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565042004138 nucleotide binding site [chemical binding]; other site 565042004139 Nitroreductase family; Region: Nitroreductase; pfam00881 565042004140 FMN binding site [chemical binding]; other site 565042004141 dimer interface [polypeptide binding]; other site 565042004142 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 565042004143 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 565042004144 Probable Catalytic site; other site 565042004145 Predicted membrane protein [Function unknown]; Region: COG3601 565042004146 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 565042004147 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 565042004148 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 565042004149 Walker A/P-loop; other site 565042004150 ATP binding site [chemical binding]; other site 565042004151 Q-loop/lid; other site 565042004152 ABC transporter signature motif; other site 565042004153 Walker B; other site 565042004154 D-loop; other site 565042004155 H-loop/switch region; other site 565042004156 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 565042004157 Walker A/P-loop; other site 565042004158 ATP binding site [chemical binding]; other site 565042004159 Q-loop/lid; other site 565042004160 ABC transporter signature motif; other site 565042004161 Walker B; other site 565042004162 D-loop; other site 565042004163 H-loop/switch region; other site 565042004164 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 565042004165 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 565042004166 Membrane protein of unknown function; Region: DUF360; pfam04020 565042004167 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 565042004168 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 565042004169 NAD binding site [chemical binding]; other site 565042004170 ligand binding site [chemical binding]; other site 565042004171 catalytic site [active] 565042004172 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 565042004173 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 565042004174 putative substrate translocation pore; other site 565042004175 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 565042004176 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 565042004177 TM-ABC transporter signature motif; other site 565042004178 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 565042004179 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 565042004180 TM-ABC transporter signature motif; other site 565042004181 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 565042004182 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 565042004183 Walker A/P-loop; other site 565042004184 ATP binding site [chemical binding]; other site 565042004185 Q-loop/lid; other site 565042004186 ABC transporter signature motif; other site 565042004187 Walker B; other site 565042004188 D-loop; other site 565042004189 H-loop/switch region; other site 565042004190 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 565042004191 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 565042004192 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 565042004193 lipoprotein LpqB; Provisional; Region: PRK13613 565042004194 Sporulation and spore germination; Region: Germane; pfam10646 565042004195 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 565042004196 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 565042004197 dimerization interface [polypeptide binding]; other site 565042004198 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 565042004199 dimer interface [polypeptide binding]; other site 565042004200 phosphorylation site [posttranslational modification] 565042004201 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 565042004202 ATP binding site [chemical binding]; other site 565042004203 Mg2+ binding site [ion binding]; other site 565042004204 G-X-G motif; other site 565042004205 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565042004206 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 565042004207 active site 565042004208 phosphorylation site [posttranslational modification] 565042004209 intermolecular recognition site; other site 565042004210 dimerization interface [polypeptide binding]; other site 565042004211 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 565042004212 DNA binding site [nucleotide binding] 565042004213 recombination factor protein RarA; Reviewed; Region: PRK13342 565042004214 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 565042004215 Walker A motif; other site 565042004216 ATP binding site [chemical binding]; other site 565042004217 Walker B motif; other site 565042004218 arginine finger; other site 565042004219 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 565042004220 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 565042004221 ATP binding site [chemical binding]; other site 565042004222 putative Mg++ binding site [ion binding]; other site 565042004223 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 565042004224 nucleotide binding region [chemical binding]; other site 565042004225 ATP-binding site [chemical binding]; other site 565042004226 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 565042004227 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 565042004228 Lamin Tail Domain; Region: LTD; pfam00932 565042004229 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 565042004230 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 565042004231 putative active site [active] 565042004232 putative metal binding site [ion binding]; other site 565042004233 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 565042004234 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 565042004235 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 565042004236 active site 565042004237 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 565042004238 dimer interface [polypeptide binding]; other site 565042004239 conserved gate region; other site 565042004240 putative PBP binding loops; other site 565042004241 ABC-ATPase subunit interface; other site 565042004242 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 565042004243 dimer interface [polypeptide binding]; other site 565042004244 conserved gate region; other site 565042004245 ABC-ATPase subunit interface; other site 565042004246 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 565042004247 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 565042004248 substrate binding pocket [chemical binding]; other site 565042004249 membrane-bound complex binding site; other site 565042004250 hinge residues; other site 565042004251 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 565042004252 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 565042004253 Walker A/P-loop; other site 565042004254 ATP binding site [chemical binding]; other site 565042004255 Q-loop/lid; other site 565042004256 ABC transporter signature motif; other site 565042004257 Walker B; other site 565042004258 D-loop; other site 565042004259 H-loop/switch region; other site 565042004260 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 565042004261 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 565042004262 dimer interface [polypeptide binding]; other site 565042004263 anticodon binding site; other site 565042004264 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 565042004265 motif 1; other site 565042004266 dimer interface [polypeptide binding]; other site 565042004267 active site 565042004268 motif 2; other site 565042004269 GAD domain; Region: GAD; pfam02938 565042004270 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 565042004271 active site 565042004272 motif 3; other site 565042004273 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 565042004274 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 565042004275 dimer interface [polypeptide binding]; other site 565042004276 motif 1; other site 565042004277 active site 565042004278 motif 2; other site 565042004279 motif 3; other site 565042004280 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 565042004281 anticodon binding site; other site 565042004282 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 565042004283 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 565042004284 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 565042004285 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 565042004286 active site 565042004287 metal binding site [ion binding]; metal-binding site 565042004288 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 565042004289 Creatinine amidohydrolase; Region: Creatininase; pfam02633 565042004290 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 565042004291 metabolite-proton symporter; Region: 2A0106; TIGR00883 565042004292 putative substrate translocation pore; other site 565042004293 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 565042004294 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 565042004295 cytosine deaminase; Provisional; Region: PRK09230 565042004296 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 565042004297 active site 565042004298 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 565042004299 Clp amino terminal domain; Region: Clp_N; pfam02861 565042004300 Clp amino terminal domain; Region: Clp_N; pfam02861 565042004301 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 565042004302 Walker A motif; other site 565042004303 ATP binding site [chemical binding]; other site 565042004304 Walker B motif; other site 565042004305 arginine finger; other site 565042004306 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 565042004307 Walker A motif; other site 565042004308 ATP binding site [chemical binding]; other site 565042004309 Walker B motif; other site 565042004310 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 565042004311 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 565042004312 Ligand Binding Site [chemical binding]; other site 565042004313 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 565042004314 Ligand Binding Site [chemical binding]; other site 565042004315 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 565042004316 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 565042004317 DNA-binding site [nucleotide binding]; DNA binding site 565042004318 RNA-binding motif; other site 565042004319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 565042004320 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 565042004321 dimerization interface [polypeptide binding]; other site 565042004322 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 565042004323 dimer interface [polypeptide binding]; other site 565042004324 phosphorylation site [posttranslational modification] 565042004325 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 565042004326 ATP binding site [chemical binding]; other site 565042004327 Mg2+ binding site [ion binding]; other site 565042004328 G-X-G motif; other site 565042004329 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 565042004330 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 565042004331 active site 565042004332 phosphorylation site [posttranslational modification] 565042004333 intermolecular recognition site; other site 565042004334 dimerization interface [polypeptide binding]; other site 565042004335 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 565042004336 DNA binding site [nucleotide binding] 565042004337 Repair protein; Region: Repair_PSII; cl01535 565042004338 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 565042004339 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 565042004340 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 565042004341 ring oligomerisation interface [polypeptide binding]; other site 565042004342 ATP/Mg binding site [chemical binding]; other site 565042004343 stacking interactions; other site 565042004344 hinge regions; other site 565042004345 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 565042004346 DNA-binding site [nucleotide binding]; DNA binding site 565042004347 RNA-binding motif; other site 565042004348 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 565042004349 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 565042004350 ligand binding site [chemical binding]; other site 565042004351 active site 565042004352 UGI interface [polypeptide binding]; other site 565042004353 catalytic site [active] 565042004354 MoxR-like ATPases [General function prediction only]; Region: COG0714 565042004355 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; cl17189 565042004356 Protein of unknown function DUF58; Region: DUF58; pfam01882 565042004357 von Willebrand factor type A domain; Region: VWA_2; pfam13519 565042004358 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 565042004359 metal ion-dependent adhesion site (MIDAS); other site 565042004360 PGAP1-like protein; Region: PGAP1; pfam07819 565042004361 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 565042004362 adenylosuccinate lyase; Provisional; Region: PRK09285 565042004363 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 565042004364 tetramer interface [polypeptide binding]; other site 565042004365 active site 565042004366 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 565042004367 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 565042004368 IHF dimer interface [polypeptide binding]; other site 565042004369 IHF - DNA interface [nucleotide binding]; other site 565042004370 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 565042004371 ubiquitin-like protein Pup; Region: pupylate_cterm; TIGR03687 565042004372 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 565042004373 active site 565042004374 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 565042004375 Pup-ligase protein; Region: Pup_ligase; cl15463 565042004376 potential frameshift: common BLAST hit: gi|312132297|ref|YP_003999636.1| rpt1 565042004377 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 565042004378 Walker B motif; other site 565042004379 arginine finger; other site 565042004380 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 565042004381 Walker A motif; other site 565042004382 ATP binding site [chemical binding]; other site 565042004383 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 565042004384 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 565042004385 phosphoserine phosphatase SerB; Region: serB; TIGR00338 565042004386 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 565042004387 motif II; other site 565042004388 primosome assembly protein PriA; Provisional; Region: PRK14873 565042004389 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 565042004390 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 565042004391 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 565042004392 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 565042004393 putative active site [active] 565042004394 substrate binding site [chemical binding]; other site 565042004395 putative cosubstrate binding site; other site 565042004396 catalytic site [active] 565042004397 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 565042004398 substrate binding site [chemical binding]; other site 565042004399 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 565042004400 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 565042004401 S-adenosylmethionine synthetase; Validated; Region: PRK05250 565042004402 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 565042004403 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 565042004404 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 565042004405 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 565042004406 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 565042004407 active site 565042004408 DNA binding site [nucleotide binding] 565042004409 Int/Topo IB signature motif; other site 565042004410 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 565042004411 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 565042004412 HsdM N-terminal domain; Region: HsdM_N; pfam12161 565042004413 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 565042004414 Methyltransferase domain; Region: Methyltransf_26; pfam13659 565042004415 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 565042004416 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 565042004417 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 565042004418 ATP binding site [chemical binding]; other site 565042004419 putative Mg++ binding site [ion binding]; other site 565042004420 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 565042004421 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 565042004422 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 565042004423 HIGH motif; other site 565042004424 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 565042004425 active site 565042004426 KMSKS motif; other site 565042004427 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 565042004428 tRNA binding surface [nucleotide binding]; other site 565042004429 anticodon binding site; other site 565042004430 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 565042004431 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 565042004432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042004433 homodimer interface [polypeptide binding]; other site 565042004434 catalytic residue [active] 565042004435 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 565042004436 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 565042004437 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 565042004438 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 565042004439 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 565042004440 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 565042004441 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 565042004442 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042004443 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042004444 DNA binding site [nucleotide binding] 565042004445 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 565042004446 putative dimerization interface [polypeptide binding]; other site 565042004447 putative ligand binding site [chemical binding]; other site 565042004448 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 565042004449 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 565042004450 substrate binding site [chemical binding]; other site 565042004451 dimer interface [polypeptide binding]; other site 565042004452 ATP binding site [chemical binding]; other site 565042004453 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 565042004454 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 565042004455 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 565042004456 active site 565042004457 tetramer interface [polypeptide binding]; other site 565042004458 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 565042004459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565042004460 Coenzyme A binding pocket [chemical binding]; other site 565042004461 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042004462 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042004463 DNA binding site [nucleotide binding] 565042004464 domain linker motif; other site 565042004465 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia; Region: PBP1_LacI_like_13; cd06299 565042004466 dimerization interface [polypeptide binding]; other site 565042004467 putative ligand binding site [chemical binding]; other site 565042004468 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 565042004469 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565042004470 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 565042004471 Walker A/P-loop; other site 565042004472 ATP binding site [chemical binding]; other site 565042004473 Q-loop/lid; other site 565042004474 ABC transporter signature motif; other site 565042004475 Walker B; other site 565042004476 D-loop; other site 565042004477 H-loop/switch region; other site 565042004478 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 565042004479 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565042004480 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042004481 Walker A/P-loop; other site 565042004482 ATP binding site [chemical binding]; other site 565042004483 Q-loop/lid; other site 565042004484 ABC transporter signature motif; other site 565042004485 Walker B; other site 565042004486 D-loop; other site 565042004487 H-loop/switch region; other site 565042004488 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565042004489 MarR family; Region: MarR_2; pfam12802 565042004490 MarR family; Region: MarR_2; cl17246 565042004491 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 565042004492 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 565042004493 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 565042004494 nucleotidyltransferase substrate binding protein, HI0074 family; Region: HI0074; TIGR01987 565042004495 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 565042004496 active site 565042004497 NTP binding site [chemical binding]; other site 565042004498 metal binding triad [ion binding]; metal-binding site 565042004499 antibiotic binding site [chemical binding]; other site 565042004500 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 565042004501 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 565042004502 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 565042004503 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 565042004504 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 565042004505 Right handed beta helix region; Region: Beta_helix; pfam13229 565042004506 Right handed beta helix region; Region: Beta_helix; pfam13229 565042004507 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 565042004508 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 565042004509 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 565042004510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 565042004511 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 565042004512 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 565042004513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 565042004514 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 565042004515 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 565042004516 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 565042004517 ATP cone domain; Region: ATP-cone; pfam03477 565042004518 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 565042004519 Class III ribonucleotide reductase; Region: RNR_III; cd01675 565042004520 active site 565042004521 Zn binding site [ion binding]; other site 565042004522 glycine loop; other site 565042004523 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 565042004524 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 565042004525 generic binding surface II; other site 565042004526 generic binding surface I; other site 565042004527 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 565042004528 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 565042004529 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 565042004530 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 565042004531 acyl-activating enzyme (AAE) consensus motif; other site 565042004532 putative AMP binding site [chemical binding]; other site 565042004533 putative active site [active] 565042004534 putative CoA binding site [chemical binding]; other site 565042004535 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 565042004536 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 565042004537 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 565042004538 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 565042004539 putative catalytic site [active] 565042004540 putative metal binding site [ion binding]; other site 565042004541 putative phosphate binding site [ion binding]; other site 565042004542 exopolyphosphatase; Region: exo_poly_only; TIGR03706 565042004543 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565042004544 nucleotide binding site [chemical binding]; other site 565042004545 aminotransferase; Validated; Region: PRK07337 565042004546 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 565042004547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042004548 homodimer interface [polypeptide binding]; other site 565042004549 catalytic residue [active] 565042004550 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 565042004551 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 565042004552 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 565042004553 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 565042004554 additional DNA contacts [nucleotide binding]; other site 565042004555 mismatch recognition site; other site 565042004556 active site 565042004557 zinc binding site [ion binding]; other site 565042004558 DNA intercalation site [nucleotide binding]; other site 565042004559 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 565042004560 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 565042004561 Coenzyme A binding pocket [chemical binding]; other site 565042004562 SWIM zinc finger; Region: SWIM; pfam04434 565042004563 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 565042004564 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 565042004565 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 565042004566 ATP binding site [chemical binding]; other site 565042004567 putative Mg++ binding site [ion binding]; other site 565042004568 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 565042004569 nucleotide binding region [chemical binding]; other site 565042004570 ATP-binding site [chemical binding]; other site 565042004571 Penicillinase repressor; Region: Pencillinase_R; cl17580 565042004572 WYL domain; Region: WYL; pfam13280 565042004573 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 565042004574 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 565042004575 putative trimer interface [polypeptide binding]; other site 565042004576 putative CoA binding site [chemical binding]; other site 565042004577 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 565042004578 Citrate synthase; Region: Citrate_synt; pfam00285 565042004579 oxalacetate binding site [chemical binding]; other site 565042004580 citrylCoA binding site [chemical binding]; other site 565042004581 coenzyme A binding site [chemical binding]; other site 565042004582 catalytic triad [active] 565042004583 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 565042004584 active site 565042004585 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 565042004586 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 565042004587 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 565042004588 active site 565042004589 Zn binding site [ion binding]; other site 565042004590 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 565042004591 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 565042004592 dimer interface [polypeptide binding]; other site 565042004593 ssDNA binding site [nucleotide binding]; other site 565042004594 tetramer (dimer of dimers) interface [polypeptide binding]; other site 565042004595 prolyl-tRNA synthetase; Provisional; Region: PRK09194 565042004596 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 565042004597 dimer interface [polypeptide binding]; other site 565042004598 motif 1; other site 565042004599 active site 565042004600 motif 2; other site 565042004601 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 565042004602 putative deacylase active site [active] 565042004603 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 565042004604 active site 565042004605 motif 3; other site 565042004606 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 565042004607 anticodon binding site; other site 565042004608 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 565042004609 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 565042004610 FeS/SAM binding site; other site 565042004611 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 565042004612 putative ligand binding pocket/active site [active] 565042004613 putative metal binding site [ion binding]; other site 565042004614 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 565042004615 AMMECR1; Region: AMMECR1; pfam01871 565042004616 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 565042004617 PIF1-like helicase; Region: PIF1; pfam05970 565042004618 Walker A motif; other site 565042004619 ATP binding site [chemical binding]; other site 565042004620 Walker B motif; other site 565042004621 arginine finger; other site 565042004622 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 565042004623 catalytic site [active] 565042004624 putative active site [active] 565042004625 putative substrate binding site [chemical binding]; other site 565042004626 dimer interface [polypeptide binding]; other site 565042004627 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 565042004628 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 565042004629 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 565042004630 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 565042004631 active site 565042004632 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 565042004633 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 565042004634 Mg++ binding site [ion binding]; other site 565042004635 putative catalytic motif [active] 565042004636 substrate binding site [chemical binding]; other site 565042004637 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 565042004638 maltose O-acetyltransferase; Provisional; Region: PRK10092 565042004639 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 565042004640 active site 565042004641 substrate binding site [chemical binding]; other site 565042004642 trimer interface [polypeptide binding]; other site 565042004643 CoA binding site [chemical binding]; other site 565042004644 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 565042004645 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 565042004646 Walker A/P-loop; other site 565042004647 ATP binding site [chemical binding]; other site 565042004648 Q-loop/lid; other site 565042004649 ABC transporter signature motif; other site 565042004650 Walker B; other site 565042004651 D-loop; other site 565042004652 H-loop/switch region; other site 565042004653 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 565042004654 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 565042004655 Walker A/P-loop; other site 565042004656 ATP binding site [chemical binding]; other site 565042004657 Q-loop/lid; other site 565042004658 ABC transporter signature motif; other site 565042004659 Walker B; other site 565042004660 D-loop; other site 565042004661 H-loop/switch region; other site 565042004662 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 565042004663 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 565042004664 TM-ABC transporter signature motif; other site 565042004665 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 565042004666 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 565042004667 TM-ABC transporter signature motif; other site 565042004668 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 565042004669 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 565042004670 putative ligand binding site [chemical binding]; other site 565042004671 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 565042004672 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 565042004673 S-adenosylmethionine binding site [chemical binding]; other site 565042004674 peptide chain release factor 1; Validated; Region: prfA; PRK00591 565042004675 This domain is found in peptide chain release factors; Region: PCRF; smart00937 565042004676 RF-1 domain; Region: RF-1; pfam00472 565042004677 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 565042004678 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 565042004679 non-specific DNA interactions [nucleotide binding]; other site 565042004680 DNA binding site [nucleotide binding] 565042004681 sequence specific DNA binding site [nucleotide binding]; other site 565042004682 putative cAMP binding site [chemical binding]; other site 565042004683 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 565042004684 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565042004685 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 565042004686 N- and C-terminal domain interface [polypeptide binding]; other site 565042004687 D-xylulose kinase; Region: XylB; TIGR01312 565042004688 active site 565042004689 MgATP binding site [chemical binding]; other site 565042004690 catalytic site [active] 565042004691 metal binding site [ion binding]; metal-binding site 565042004692 xylulose binding site [chemical binding]; other site 565042004693 putative homodimer interface [polypeptide binding]; other site 565042004694 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 565042004695 Transposase, Mutator family; Region: Transposase_mut; pfam00872 565042004696 MULE transposase domain; Region: MULE; pfam10551 565042004697 xylose isomerase; Provisional; Region: PRK05474 565042004698 xylose isomerase; Region: xylose_isom_A; TIGR02630 565042004699 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 565042004700 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 565042004701 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 565042004702 active site 565042004703 catalytic residues [active] 565042004704 metal binding site [ion binding]; metal-binding site 565042004705 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 565042004706 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 565042004707 active site 565042004708 catalytic tetrad [active] 565042004709 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 565042004710 putative substrate translocation pore; other site 565042004711 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 565042004712 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565042004713 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 565042004714 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 565042004715 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 565042004716 TM-ABC transporter signature motif; other site 565042004717 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 565042004718 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 565042004719 Walker A/P-loop; other site 565042004720 ATP binding site [chemical binding]; other site 565042004721 Q-loop/lid; other site 565042004722 ABC transporter signature motif; other site 565042004723 Walker B; other site 565042004724 D-loop; other site 565042004725 H-loop/switch region; other site 565042004726 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 565042004727 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 565042004728 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 565042004729 putative ligand binding site [chemical binding]; other site 565042004730 MarR family; Region: MarR_2; pfam12802 565042004731 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565042004732 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565042004733 nucleotide binding site [chemical binding]; other site 565042004734 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 565042004735 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 565042004736 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 565042004737 Walker A/P-loop; other site 565042004738 ATP binding site [chemical binding]; other site 565042004739 Q-loop/lid; other site 565042004740 ABC transporter signature motif; other site 565042004741 Walker B; other site 565042004742 D-loop; other site 565042004743 H-loop/switch region; other site 565042004744 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 565042004745 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 565042004746 nucleotide binding site [chemical binding]; other site 565042004747 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 565042004748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042004749 Walker A/P-loop; other site 565042004750 ATP binding site [chemical binding]; other site 565042004751 Q-loop/lid; other site 565042004752 ABC transporter signature motif; other site 565042004753 Walker B; other site 565042004754 D-loop; other site 565042004755 H-loop/switch region; other site 565042004756 ABC transporter; Region: ABC_tran_2; pfam12848 565042004757 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 565042004758 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 565042004759 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 565042004760 active site 565042004761 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 565042004762 catalytic triad [active] 565042004763 dimer interface [polypeptide binding]; other site 565042004764 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 565042004765 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 565042004766 homooctamer interface [polypeptide binding]; other site 565042004767 active site 565042004768 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 565042004769 catalytic center binding site [active] 565042004770 ATP binding site [chemical binding]; other site 565042004771 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cl00233 565042004772 catalytic center binding site [active] 565042004773 ATP binding site [chemical binding]; other site 565042004774 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 565042004775 dihydropteroate synthase; Region: DHPS; TIGR01496 565042004776 substrate binding pocket [chemical binding]; other site 565042004777 dimer interface [polypeptide binding]; other site 565042004778 inhibitor binding site; inhibition site 565042004779 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 565042004780 GTP cyclohydrolase I; Provisional; Region: PLN03044 565042004781 active site 565042004782 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 565042004783 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 565042004784 Walker A motif; other site 565042004785 ATP binding site [chemical binding]; other site 565042004786 Walker B motif; other site 565042004787 arginine finger; other site 565042004788 Peptidase family M41; Region: Peptidase_M41; pfam01434 565042004789 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565042004790 active site 565042004791 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 565042004792 Ligand Binding Site [chemical binding]; other site 565042004793 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 565042004794 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 565042004795 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 565042004796 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 565042004797 Walker A/P-loop; other site 565042004798 ATP binding site [chemical binding]; other site 565042004799 Q-loop/lid; other site 565042004800 ABC transporter signature motif; other site 565042004801 Walker B; other site 565042004802 D-loop; other site 565042004803 H-loop/switch region; other site 565042004804 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 565042004805 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 565042004806 DXD motif; other site 565042004807 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 565042004808 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 565042004809 Domain of unknown function DUF20; Region: UPF0118; pfam01594 565042004810 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 565042004811 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 565042004812 active site 565042004813 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 565042004814 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 565042004815 dimer interface [polypeptide binding]; other site 565042004816 active site 565042004817 metal binding site [ion binding]; metal-binding site 565042004818 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 565042004819 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 565042004820 S-adenosylmethionine binding site [chemical binding]; other site 565042004821 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 565042004822 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042004823 putative substrate translocation pore; other site 565042004824 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 565042004825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 565042004826 NAD(P) binding site [chemical binding]; other site 565042004827 active site 565042004828 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 565042004829 AzlC protein; Region: AzlC; cl00570 565042004830 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 565042004831 Low molecular weight phosphatase family; Region: LMWPc; cd00115 565042004832 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 565042004833 active site 565042004834 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 565042004835 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 565042004836 folate binding site [chemical binding]; other site 565042004837 NADP+ binding site [chemical binding]; other site 565042004838 thymidylate synthase; Reviewed; Region: thyA; PRK01827 565042004839 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 565042004840 dimerization interface [polypeptide binding]; other site 565042004841 active site 565042004842 OsmC-like protein; Region: OsmC; pfam02566 565042004843 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 565042004844 Ligand Binding Site [chemical binding]; other site 565042004845 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 565042004846 Ligand Binding Site [chemical binding]; other site 565042004847 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 565042004848 NlpC/P60 family; Region: NLPC_P60; pfam00877 565042004849 NlpC/P60 family; Region: NLPC_P60; cl17555 565042004850 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 565042004851 CHAP domain; Region: CHAP; pfam05257 565042004852 phosphoserine aminotransferase; Provisional; Region: PRK03080 565042004853 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 565042004854 catalytic residue [active] 565042004855 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 565042004856 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 565042004857 ATP binding site [chemical binding]; other site 565042004858 Mg2+ binding site [ion binding]; other site 565042004859 G-X-G motif; other site 565042004860 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 565042004861 PhoU domain; Region: PhoU; pfam01895 565042004862 PhoU domain; Region: PhoU; pfam01895 565042004863 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 565042004864 catalytic core [active] 565042004865 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 565042004866 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 565042004867 UbiA prenyltransferase family; Region: UbiA; pfam01040 565042004868 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 565042004869 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 565042004870 dimer interface [polypeptide binding]; other site 565042004871 putative anticodon binding site; other site 565042004872 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 565042004873 motif 1; other site 565042004874 dimer interface [polypeptide binding]; other site 565042004875 active site 565042004876 motif 2; other site 565042004877 motif 3; other site 565042004878 potential frameshift: common BLAST hit: gi|296454792|ref|YP_003661936.1| major facilitator superfamily protein 565042004879 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 565042004880 MFS transport protein AraJ; Provisional; Region: PRK10091 565042004881 Tetratricopeptide repeat; Region: TPR_12; pfam13424 565042004882 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 565042004883 binding surface 565042004884 TPR motif; other site 565042004885 Tetratricopeptide repeat; Region: TPR_12; pfam13424 565042004886 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 565042004887 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 565042004888 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 565042004889 PspC domain; Region: PspC; pfam04024 565042004890 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 565042004891 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 565042004892 ATP binding site [chemical binding]; other site 565042004893 Mg2+ binding site [ion binding]; other site 565042004894 G-X-G motif; other site 565042004895 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 565042004896 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 565042004897 active site 565042004898 phosphorylation site [posttranslational modification] 565042004899 intermolecular recognition site; other site 565042004900 dimerization interface [polypeptide binding]; other site 565042004901 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 565042004902 DNA binding residues [nucleotide binding] 565042004903 dimerization interface [polypeptide binding]; other site 565042004904 UDP-glucose 4-epimerase; Region: PLN02240 565042004905 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 565042004906 NAD binding site [chemical binding]; other site 565042004907 homodimer interface [polypeptide binding]; other site 565042004908 active site 565042004909 substrate binding site [chemical binding]; other site 565042004910 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 565042004911 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 565042004912 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 565042004913 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 565042004914 Phosphotransferase enzyme family; Region: APH; pfam01636 565042004915 active site 565042004916 substrate binding site [chemical binding]; other site 565042004917 ATP binding site [chemical binding]; other site 565042004918 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 565042004919 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 565042004920 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 565042004921 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 565042004922 dimer interface [polypeptide binding]; other site 565042004923 conserved gate region; other site 565042004924 putative PBP binding loops; other site 565042004925 ABC-ATPase subunit interface; other site 565042004926 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 565042004927 dimer interface [polypeptide binding]; other site 565042004928 conserved gate region; other site 565042004929 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 565042004930 ABC-ATPase subunit interface; other site 565042004931 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 565042004932 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 565042004933 seryl-tRNA synthetase; Provisional; Region: PRK05431 565042004934 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 565042004935 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 565042004936 dimer interface [polypeptide binding]; other site 565042004937 active site 565042004938 motif 1; other site 565042004939 motif 2; other site 565042004940 motif 3; other site 565042004941 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 565042004942 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 565042004943 transcriptional antiterminator BglG; Provisional; Region: PRK09772 565042004944 CAT RNA binding domain; Region: CAT_RBD; smart01061 565042004945 PRD domain; Region: PRD; pfam00874 565042004946 PRD domain; Region: PRD; pfam00874 565042004947 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 565042004948 active site turn [active] 565042004949 phosphorylation site [posttranslational modification] 565042004950 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 565042004951 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 565042004952 HPr interaction site; other site 565042004953 glycerol kinase (GK) interaction site [polypeptide binding]; other site 565042004954 active site 565042004955 phosphorylation site [posttranslational modification] 565042004956 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 565042004957 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 565042004958 putative substrate translocation pore; other site 565042004959 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 565042004960 phosphoglucomutase; Validated; Region: PRK07564 565042004961 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 565042004962 active site 565042004963 substrate binding site [chemical binding]; other site 565042004964 metal binding site [ion binding]; metal-binding site 565042004965 Helix-turn-helix domain; Region: HTH_38; pfam13936 565042004966 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042004967 Integrase core domain; Region: rve; pfam00665 565042004968 Transcriptional regulator; Region: Rrf2; pfam02082 565042004969 Rrf2 family protein; Region: rrf2_super; TIGR00738 565042004970 dihydrolipoamide dehydrogenase; Validated; Region: acoL; PRK06912 565042004971 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565042004972 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 565042004973 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 565042004974 RNA/DNA hybrid binding site [nucleotide binding]; other site 565042004975 active site 565042004976 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 565042004977 tetramer (dimer of dimers) interface [polypeptide binding]; other site 565042004978 active site 565042004979 dimer interface [polypeptide binding]; other site 565042004980 DNA repair protein RadA; Provisional; Region: PRK11823 565042004981 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 565042004982 Walker A motif; other site 565042004983 ATP binding site [chemical binding]; other site 565042004984 Walker B motif; other site 565042004985 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 565042004986 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 565042004987 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 565042004988 active site 565042004989 Riboflavin kinase; Region: Flavokinase; pfam01687 565042004990 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 565042004991 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 565042004992 RNA binding site [nucleotide binding]; other site 565042004993 active site 565042004994 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 565042004995 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 565042004996 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 565042004997 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 565042004998 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 565042004999 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 565042005000 G1 box; other site 565042005001 putative GEF interaction site [polypeptide binding]; other site 565042005002 GTP/Mg2+ binding site [chemical binding]; other site 565042005003 Switch I region; other site 565042005004 G2 box; other site 565042005005 G3 box; other site 565042005006 Switch II region; other site 565042005007 G4 box; other site 565042005008 G5 box; other site 565042005009 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 565042005010 Translation-initiation factor 2; Region: IF-2; pfam11987 565042005011 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 565042005012 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 565042005013 NusA N-terminal domain; Region: NusA_N; pfam08529 565042005014 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 565042005015 RNA binding site [nucleotide binding]; other site 565042005016 homodimer interface [polypeptide binding]; other site 565042005017 NusA-like KH domain; Region: KH_5; pfam13184 565042005018 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 565042005019 G-X-X-G motif; other site 565042005020 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042005021 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042005022 DNA binding site [nucleotide binding] 565042005023 domain linker motif; other site 565042005024 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 565042005025 dimerization interface [polypeptide binding]; other site 565042005026 ligand binding site [chemical binding]; other site 565042005027 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 565042005028 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 565042005029 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 565042005030 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 565042005031 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 565042005032 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 565042005033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 565042005034 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 565042005035 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 565042005036 dimerization interface 3.5A [polypeptide binding]; other site 565042005037 active site 565042005038 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 565042005039 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 565042005040 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 565042005041 alphaNTD homodimer interface [polypeptide binding]; other site 565042005042 alphaNTD - beta interaction site [polypeptide binding]; other site 565042005043 alphaNTD - beta' interaction site [polypeptide binding]; other site 565042005044 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 565042005045 30S ribosomal protein S11; Validated; Region: PRK05309 565042005046 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 565042005047 30S ribosomal protein S13; Region: bact_S13; TIGR03631 565042005048 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 565042005049 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 565042005050 rRNA binding site [nucleotide binding]; other site 565042005051 predicted 30S ribosome binding site; other site 565042005052 adenylate kinase; Reviewed; Region: adk; PRK00279 565042005053 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 565042005054 AMP-binding site [chemical binding]; other site 565042005055 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 565042005056 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 565042005057 SecY translocase; Region: SecY; pfam00344 565042005058 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 565042005059 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 565042005060 23S rRNA binding site [nucleotide binding]; other site 565042005061 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 565042005062 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 565042005063 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 565042005064 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 565042005065 23S rRNA interface [nucleotide binding]; other site 565042005066 L21e interface [polypeptide binding]; other site 565042005067 5S rRNA interface [nucleotide binding]; other site 565042005068 L27 interface [polypeptide binding]; other site 565042005069 L5 interface [polypeptide binding]; other site 565042005070 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 565042005071 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 565042005072 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 565042005073 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 565042005074 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 565042005075 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 565042005076 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 565042005077 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 565042005078 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 565042005079 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 565042005080 RNA binding site [nucleotide binding]; other site 565042005081 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 565042005082 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 565042005083 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 565042005084 23S rRNA interface [nucleotide binding]; other site 565042005085 putative translocon interaction site; other site 565042005086 signal recognition particle (SRP54) interaction site; other site 565042005087 L23 interface [polypeptide binding]; other site 565042005088 trigger factor interaction site; other site 565042005089 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 565042005090 23S rRNA interface [nucleotide binding]; other site 565042005091 5S rRNA interface [nucleotide binding]; other site 565042005092 putative antibiotic binding site [chemical binding]; other site 565042005093 L25 interface [polypeptide binding]; other site 565042005094 L27 interface [polypeptide binding]; other site 565042005095 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 565042005096 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 565042005097 G-X-X-G motif; other site 565042005098 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 565042005099 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 565042005100 putative translocon binding site; other site 565042005101 protein-rRNA interface [nucleotide binding]; other site 565042005102 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 565042005103 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 565042005104 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 565042005105 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 565042005106 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 565042005107 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 565042005108 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 565042005109 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 565042005110 YwiC-like protein; Region: YwiC; pfam14256 565042005111 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 565042005112 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 565042005113 putative catalytic cysteine [active] 565042005114 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 565042005115 putative active site [active] 565042005116 metal binding site [ion binding]; metal-binding site 565042005117 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 565042005118 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565042005119 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 565042005120 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 565042005121 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 565042005122 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 565042005123 active site 565042005124 catalytic site [active] 565042005125 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 565042005126 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 565042005127 23S rRNA interface [nucleotide binding]; other site 565042005128 L3 interface [polypeptide binding]; other site 565042005129 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 565042005130 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 565042005131 Uncharacterized conserved protein [Function unknown]; Region: COG1739 565042005132 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 565042005133 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 565042005134 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 565042005135 dimerization interface [polypeptide binding]; other site 565042005136 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 565042005137 NAD binding site [chemical binding]; other site 565042005138 ligand binding site [chemical binding]; other site 565042005139 catalytic site [active] 565042005140 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 565042005141 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 565042005142 putative active site [active] 565042005143 putative metal binding site [ion binding]; other site 565042005144 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 565042005145 DNA polymerase IV; Validated; Region: PRK03858 565042005146 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 565042005147 active site 565042005148 DNA binding site [nucleotide binding] 565042005149 N-succinyldiaminopimelate aminotransferase; Reviewed; Region: PRK07865 565042005150 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 565042005151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042005152 homodimer interface [polypeptide binding]; other site 565042005153 catalytic residue [active] 565042005154 Ferredoxin [Energy production and conversion]; Region: COG1146 565042005155 4Fe-4S binding domain; Region: Fer4; pfam00037 565042005156 amino acid transporter; Region: 2A0306; TIGR00909 565042005157 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 565042005158 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 565042005159 FAD binding domain; Region: FAD_binding_4; pfam01565 565042005160 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 565042005161 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 565042005162 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 565042005163 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 565042005164 oligomerisation interface [polypeptide binding]; other site 565042005165 mobile loop; other site 565042005166 roof hairpin; other site 565042005167 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 565042005168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 565042005169 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 565042005170 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 565042005171 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 565042005172 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 565042005173 Part of AAA domain; Region: AAA_19; pfam13245 565042005174 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 565042005175 phosphopeptide binding site; other site 565042005176 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 565042005177 peripheral dimer interface [polypeptide binding]; other site 565042005178 core dimer interface [polypeptide binding]; other site 565042005179 L10 interface [polypeptide binding]; other site 565042005180 L11 interface [polypeptide binding]; other site 565042005181 putative EF-Tu interaction site [polypeptide binding]; other site 565042005182 putative EF-G interaction site [polypeptide binding]; other site 565042005183 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 565042005184 23S rRNA interface [nucleotide binding]; other site 565042005185 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 565042005186 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 565042005187 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 565042005188 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 565042005189 oligomer interface [polypeptide binding]; other site 565042005190 RNA binding site [nucleotide binding]; other site 565042005191 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 565042005192 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 565042005193 RNase E interface [polypeptide binding]; other site 565042005194 trimer interface [polypeptide binding]; other site 565042005195 active site 565042005196 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 565042005197 putative nucleic acid binding region [nucleotide binding]; other site 565042005198 G-X-X-G motif; other site 565042005199 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 565042005200 RNA binding site [nucleotide binding]; other site 565042005201 domain interface; other site 565042005202 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 565042005203 16S/18S rRNA binding site [nucleotide binding]; other site 565042005204 S13e-L30e interaction site [polypeptide binding]; other site 565042005205 25S rRNA binding site [nucleotide binding]; other site 565042005206 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 565042005207 active site 565042005208 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 565042005209 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 565042005210 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 565042005211 substrate binding site [chemical binding]; other site 565042005212 active site 565042005213 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 565042005214 ligand binding site [chemical binding]; other site 565042005215 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042005216 Helix-turn-helix domain; Region: HTH_38; pfam13936 565042005217 Integrase core domain; Region: rve; pfam00665 565042005218 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565042005219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042005220 Walker A/P-loop; other site 565042005221 ATP binding site [chemical binding]; other site 565042005222 ABC transporter; Region: ABC_tran; pfam00005 565042005223 Q-loop/lid; other site 565042005224 Walker B; other site 565042005225 D-loop; other site 565042005226 H-loop/switch region; other site 565042005227 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042005228 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 565042005229 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 565042005230 metal ion-dependent adhesion site (MIDAS); other site 565042005231 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 565042005232 domain interaction interfaces [polypeptide binding]; other site 565042005233 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 565042005234 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 565042005235 active site 565042005236 catalytic site [active] 565042005237 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 565042005238 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042005239 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042005240 DNA binding site [nucleotide binding] 565042005241 domain linker motif; other site 565042005242 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 565042005243 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 565042005244 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042005245 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 565042005246 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 565042005247 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 565042005248 phosphate binding site [ion binding]; other site 565042005249 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 565042005250 FAS_MaoC, the MaoC-like hot dog fold of the fatty acid synthase, beta subunit. Other enzymes with this fold include MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and 17-beta-hydroxysteriod dehydrogenase (HSD); Region: FAS_MaoC; cd03447 565042005251 putative active site [active] 565042005252 putative catalytic site [active] 565042005253 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 565042005254 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 565042005255 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 565042005256 putative NAD(P) binding site [chemical binding]; other site 565042005257 active site 565042005258 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 565042005259 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 565042005260 active site 565042005261 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 565042005262 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 565042005263 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 565042005264 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 565042005265 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 565042005266 ATP-grasp domain; Region: ATP-grasp_4; cl17255 565042005267 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 565042005268 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 565042005269 carboxyltransferase (CT) interaction site; other site 565042005270 biotinylation site [posttranslational modification]; other site 565042005271 BioY family; Region: BioY; pfam02632 565042005272 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 565042005273 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 565042005274 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 565042005275 Transcriptional regulator [Transcription]; Region: IclR; COG1414 565042005276 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 565042005277 Bacterial transcriptional regulator; Region: IclR; pfam01614 565042005278 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 565042005279 Transcriptional regulator [Transcription]; Region: IclR; COG1414 565042005280 Bacterial transcriptional regulator; Region: IclR; pfam01614 565042005281 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 565042005282 mRNA/rRNA interface [nucleotide binding]; other site 565042005283 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 565042005284 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 565042005285 23S rRNA interface [nucleotide binding]; other site 565042005286 L7/L12 interface [polypeptide binding]; other site 565042005287 putative thiostrepton binding site; other site 565042005288 L25 interface [polypeptide binding]; other site 565042005289 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 565042005290 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 565042005291 putative homodimer interface [polypeptide binding]; other site 565042005292 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 565042005293 heterodimer interface [polypeptide binding]; other site 565042005294 homodimer interface [polypeptide binding]; other site 565042005295 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 565042005296 aspartate aminotransferase; Provisional; Region: PRK05764 565042005297 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 565042005298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042005299 homodimer interface [polypeptide binding]; other site 565042005300 catalytic residue [active] 565042005301 gamma-glutamyl kinase; Provisional; Region: PRK05429 565042005302 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 565042005303 nucleotide binding site [chemical binding]; other site 565042005304 homotetrameric interface [polypeptide binding]; other site 565042005305 putative phosphate binding site [ion binding]; other site 565042005306 putative allosteric binding site; other site 565042005307 PUA domain; Region: PUA; pfam01472 565042005308 GTPase CgtA; Reviewed; Region: obgE; PRK12296 565042005309 GTP1/OBG; Region: GTP1_OBG; pfam01018 565042005310 Obg GTPase; Region: Obg; cd01898 565042005311 G1 box; other site 565042005312 GTP/Mg2+ binding site [chemical binding]; other site 565042005313 Switch I region; other site 565042005314 G2 box; other site 565042005315 G3 box; other site 565042005316 Switch II region; other site 565042005317 G4 box; other site 565042005318 G5 box; other site 565042005319 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 565042005320 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 565042005321 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 565042005322 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 565042005323 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 565042005324 homodimer interface [polypeptide binding]; other site 565042005325 oligonucleotide binding site [chemical binding]; other site 565042005326 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 565042005327 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 565042005328 metal binding site [ion binding]; metal-binding site 565042005329 putative dimer interface [polypeptide binding]; other site 565042005330 Predicted permeases [General function prediction only]; Region: COG0679 565042005331 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565042005332 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042005333 Walker A/P-loop; other site 565042005334 ATP binding site [chemical binding]; other site 565042005335 Q-loop/lid; other site 565042005336 ABC transporter signature motif; other site 565042005337 Walker B; other site 565042005338 D-loop; other site 565042005339 H-loop/switch region; other site 565042005340 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 565042005341 putative active site [active] 565042005342 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 565042005343 dimer interface [polypeptide binding]; other site 565042005344 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 565042005345 nudix motif; other site 565042005346 homoserine kinase; Provisional; Region: PRK01212 565042005347 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 565042005348 homoserine dehydrogenase; Provisional; Region: PRK06349 565042005349 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 565042005350 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 565042005351 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 565042005352 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 565042005353 catalytic residue [active] 565042005354 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 565042005355 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 565042005356 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 565042005357 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 565042005358 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 565042005359 active site 565042005360 HIGH motif; other site 565042005361 nucleotide binding site [chemical binding]; other site 565042005362 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 565042005363 KMSK motif region; other site 565042005364 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 565042005365 tRNA binding surface [nucleotide binding]; other site 565042005366 anticodon binding site; other site 565042005367 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565042005368 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565042005369 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 565042005370 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042005371 putative substrate translocation pore; other site 565042005372 Transcriptional regulator [Transcription]; Region: LysR; COG0583 565042005373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 565042005374 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 565042005375 putative dimerization interface [polypeptide binding]; other site 565042005376 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 565042005377 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 565042005378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042005379 homodimer interface [polypeptide binding]; other site 565042005380 catalytic residue [active] 565042005381 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 565042005382 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 565042005383 hinge; other site 565042005384 active site 565042005385 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 565042005386 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565042005387 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 565042005388 Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the...; Region: DHOD_DHPD_FMN; cd02810 565042005389 active site 565042005390 FMN binding site [chemical binding]; other site 565042005391 substrate binding site [chemical binding]; other site 565042005392 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 565042005393 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 565042005394 substrate binding site [chemical binding]; other site 565042005395 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 565042005396 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 565042005397 substrate binding site [chemical binding]; other site 565042005398 ligand binding site [chemical binding]; other site 565042005399 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 565042005400 Transcriptional regulator [Transcription]; Region: IclR; COG1414 565042005401 Bacterial transcriptional regulator; Region: IclR; pfam01614 565042005402 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 565042005403 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 565042005404 putative active site [active] 565042005405 putative metal binding site [ion binding]; other site 565042005406 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 565042005407 polyphosphate kinase; Provisional; Region: PRK05443 565042005408 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 565042005409 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 565042005410 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 565042005411 putative domain interface [polypeptide binding]; other site 565042005412 putative active site [active] 565042005413 catalytic site [active] 565042005414 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 565042005415 putative domain interface [polypeptide binding]; other site 565042005416 putative active site [active] 565042005417 catalytic site [active] 565042005418 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 565042005419 active site 565042005420 Ap6A binding site [chemical binding]; other site 565042005421 nudix motif; other site 565042005422 metal binding site [ion binding]; metal-binding site 565042005423 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 565042005424 catalytic core [active] 565042005425 AAA domain; Region: AAA_14; pfam13173 565042005426 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 565042005427 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 565042005428 active site 565042005429 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 565042005430 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 565042005431 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 565042005432 active site 565042005433 catalytic site [active] 565042005434 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 565042005435 active site 565042005436 HIGH motif; other site 565042005437 nucleotide binding site [chemical binding]; other site 565042005438 active site 565042005439 KMSKS motif; other site 565042005440 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 565042005441 Clp amino terminal domain; Region: Clp_N; pfam02861 565042005442 Clp amino terminal domain; Region: Clp_N; pfam02861 565042005443 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 565042005444 Walker A motif; other site 565042005445 ATP binding site [chemical binding]; other site 565042005446 Walker B motif; other site 565042005447 arginine finger; other site 565042005448 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 565042005449 Walker A motif; other site 565042005450 ATP binding site [chemical binding]; other site 565042005451 Walker B motif; other site 565042005452 arginine finger; other site 565042005453 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 565042005454 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 565042005455 active sites [active] 565042005456 tetramer interface [polypeptide binding]; other site 565042005457 Transcriptional regulator [Transcription]; Region: IclR; COG1414 565042005458 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 565042005459 Bacterial transcriptional regulator; Region: IclR; pfam01614 565042005460 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 565042005461 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 565042005462 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 565042005463 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 565042005464 Divergent AAA domain; Region: AAA_4; pfam04326 565042005465 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 565042005466 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 565042005467 putative Zn2+ binding site [ion binding]; other site 565042005468 putative DNA binding site [nucleotide binding]; other site 565042005469 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 565042005470 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 565042005471 UDP-galactopyranose mutase; Region: GLF; pfam03275 565042005472 putative glycosyl transferase; Provisional; Region: PRK10073 565042005473 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 565042005474 active site 565042005475 conserved hypothetical integral membrane protein; Region: TIGR03766 565042005476 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 565042005477 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 565042005478 active site 565042005479 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 565042005480 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 565042005481 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 565042005482 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 565042005483 active site 565042005484 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 565042005485 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 565042005486 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 565042005487 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 565042005488 Walker A/P-loop; other site 565042005489 ATP binding site [chemical binding]; other site 565042005490 Q-loop/lid; other site 565042005491 ABC transporter signature motif; other site 565042005492 Walker B; other site 565042005493 D-loop; other site 565042005494 H-loop/switch region; other site 565042005495 LicD family; Region: LicD; cl01378 565042005496 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 565042005497 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 565042005498 DNA-binding interface [nucleotide binding]; DNA binding site 565042005499 Integrase core domain; Region: rve; pfam00665 565042005500 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 565042005501 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565042005502 Walker A motif; other site 565042005503 ATP binding site [chemical binding]; other site 565042005504 Walker B motif; other site 565042005505 arginine finger; other site 565042005506 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042005507 Integrase core domain; Region: rve; pfam00665 565042005508 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 565042005509 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 565042005510 substrate binding site; other site 565042005511 tetramer interface; other site 565042005512 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 565042005513 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 565042005514 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 565042005515 NADP binding site [chemical binding]; other site 565042005516 active site 565042005517 putative substrate binding site [chemical binding]; other site 565042005518 Abi-like protein; Region: Abi_2; pfam07751 565042005519 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 565042005520 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 565042005521 NAD binding site [chemical binding]; other site 565042005522 substrate binding site [chemical binding]; other site 565042005523 homodimer interface [polypeptide binding]; other site 565042005524 active site 565042005525 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 565042005526 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 565042005527 active site 565042005528 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 565042005529 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 565042005530 Divergent AAA domain; Region: AAA_4; pfam04326 565042005531 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 565042005532 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 565042005533 MarR family; Region: MarR_2; pfam12802 565042005534 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 565042005535 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 565042005536 Ligand binding site; other site 565042005537 Putative Catalytic site; other site 565042005538 DXD motif; other site 565042005539 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 565042005540 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 565042005541 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 565042005542 Acyltransferase family; Region: Acyl_transf_3; pfam01757 565042005543 Protein of unknown function (DUF4012); Region: DUF4012; pfam13196 565042005544 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 565042005545 FtsX-like permease family; Region: FtsX; pfam02687 565042005546 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042005547 ABC transporter; Region: ABC_tran; pfam00005 565042005548 Q-loop/lid; other site 565042005549 ABC transporter signature motif; other site 565042005550 Walker B; other site 565042005551 D-loop; other site 565042005552 H-loop/switch region; other site 565042005553 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 565042005554 Zn2+ binding site [ion binding]; other site 565042005555 Mg2+ binding site [ion binding]; other site 565042005556 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 565042005557 putative active site [active] 565042005558 putative dimer interface [polypeptide binding]; other site 565042005559 K+ potassium transporter; Region: K_trans; pfam02705 565042005560 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 565042005561 active site 565042005562 Fic family protein [Function unknown]; Region: COG3177 565042005563 Fic/DOC family; Region: Fic; pfam02661 565042005564 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 565042005565 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565042005566 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 565042005567 Walker A/P-loop; other site 565042005568 ATP binding site [chemical binding]; other site 565042005569 Q-loop/lid; other site 565042005570 ABC transporter signature motif; other site 565042005571 Walker B; other site 565042005572 D-loop; other site 565042005573 H-loop/switch region; other site 565042005574 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 565042005575 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565042005576 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042005577 Walker A/P-loop; other site 565042005578 ATP binding site [chemical binding]; other site 565042005579 Q-loop/lid; other site 565042005580 ABC transporter signature motif; other site 565042005581 Walker B; other site 565042005582 D-loop; other site 565042005583 H-loop/switch region; other site 565042005584 alpha-galactosidase; Region: PLN02808; cl17638 565042005585 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042005586 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042005587 DNA binding site [nucleotide binding] 565042005588 domain linker motif; other site 565042005589 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 565042005590 dimerization interface [polypeptide binding]; other site 565042005591 ligand binding site [chemical binding]; other site 565042005592 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 565042005593 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 565042005594 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 565042005595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 565042005596 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 565042005597 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 565042005598 trimer interface [polypeptide binding]; other site 565042005599 active site 565042005600 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 565042005601 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 565042005602 active site 565042005603 HIGH motif; other site 565042005604 KMSKS motif; other site 565042005605 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 565042005606 tRNA binding surface [nucleotide binding]; other site 565042005607 anticodon binding site; other site 565042005608 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 565042005609 Predicted methyltransferases [General function prediction only]; Region: COG0313 565042005610 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 565042005611 putative SAM binding site [chemical binding]; other site 565042005612 putative homodimer interface [polypeptide binding]; other site 565042005613 MFS/sugar transport protein; Region: MFS_2; pfam13347 565042005614 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 565042005615 ApbE family; Region: ApbE; pfam02424 565042005616 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 565042005617 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565042005618 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 565042005619 Walker A/P-loop; other site 565042005620 ATP binding site [chemical binding]; other site 565042005621 Q-loop/lid; other site 565042005622 ABC transporter signature motif; other site 565042005623 Walker B; other site 565042005624 D-loop; other site 565042005625 H-loop/switch region; other site 565042005626 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 565042005627 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 565042005628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 565042005629 Walker A/P-loop; other site 565042005630 ATP binding site [chemical binding]; other site 565042005631 Q-loop/lid; other site 565042005632 ABC transporter signature motif; other site 565042005633 Walker B; other site 565042005634 D-loop; other site 565042005635 H-loop/switch region; other site 565042005636 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 565042005637 BRO family, N-terminal domain; Region: Bro-N; pfam02498 565042005638 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 565042005639 active site 565042005640 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 565042005641 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 565042005642 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 565042005643 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 565042005644 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 565042005645 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 565042005646 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 565042005647 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 565042005648 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 565042005649 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 565042005650 Divergent AAA domain; Region: AAA_4; pfam04326 565042005651 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 565042005652 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 565042005653 Mechanosensitive ion channel porin domain; Region: MscS_porin; pfam12795 565042005654 FtsX-like permease family; Region: FtsX; pfam02687 565042005655 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 565042005656 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 565042005657 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 565042005658 Walker A/P-loop; other site 565042005659 ATP binding site [chemical binding]; other site 565042005660 Q-loop/lid; other site 565042005661 ABC transporter signature motif; other site 565042005662 Walker B; other site 565042005663 D-loop; other site 565042005664 H-loop/switch region; other site 565042005665 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 565042005666 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 565042005667 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 565042005668 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 565042005669 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565042005670 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 565042005671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 565042005672 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 565042005673 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565042005674 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 565042005675 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 565042005676 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 565042005677 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 565042005678 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565042005679 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 565042005680 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 565042005681 active site 565042005682 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565042005683 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 565042005684 active site 565042005685 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565042005686 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 565042005687 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 565042005688 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 565042005689 active site 565042005690 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 565042005691 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565042005692 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 565042005693 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 565042005694 active site 565042005695 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 565042005696 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565042005697 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 565042005698 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 565042005699 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 565042005700 active site 565042005701 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565042005702 Glycosyl hydrolase family 43; Region: GH43_4; cd08983 565042005703 active site 565042005704 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 565042005705 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 565042005706 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 565042005707 Glycosyl hydrolase family 43; Region: GH43_4; cd08983 565042005708 active site 565042005709 Protein of unknown function, DUF624; Region: DUF624; pfam04854 565042005710 Protein of unknown function, DUF624; Region: DUF624; cl02369 565042005711 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 565042005712 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 565042005713 dimer interface [polypeptide binding]; other site 565042005714 conserved gate region; other site 565042005715 putative PBP binding loops; other site 565042005716 ABC-ATPase subunit interface; other site 565042005717 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 565042005718 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 565042005719 putative PBP binding loops; other site 565042005720 dimer interface [polypeptide binding]; other site 565042005721 ABC-ATPase subunit interface; other site 565042005722 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042005723 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042005724 DNA binding site [nucleotide binding] 565042005725 domain linker motif; other site 565042005726 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 565042005727 ligand binding site [chemical binding]; other site 565042005728 dimerization interface [polypeptide binding]; other site 565042005729 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 565042005730 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 565042005731 catalytic core [active] 565042005732 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 565042005733 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 565042005734 dimer interface [polypeptide binding]; other site 565042005735 FMN binding site [chemical binding]; other site 565042005736 NADPH bind site [chemical binding]; other site 565042005737 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 565042005738 Predicted membrane protein [Function unknown]; Region: COG1511 565042005739 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 565042005740 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 565042005741 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 565042005742 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 565042005743 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042005744 Integrase core domain; Region: rve; pfam00665 565042005745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 565042005746 Integrase core domain; Region: rve; pfam00665 565042005747 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 565042005748 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 565042005749 Walker A motif; other site 565042005750 ATP binding site [chemical binding]; other site 565042005751 Walker B motif; other site 565042005752 Helix-turn-helix domain; Region: HTH_38; pfam13936 565042005753 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 565042005754 Integrase core domain; Region: rve; pfam00665 565042005755 NAD-dependent deacetylase; Provisional; Region: PRK00481 565042005756 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent...; Region: SIRT7; cd01410 565042005757 NAD+ binding site [chemical binding]; other site 565042005758 substrate binding site [chemical binding]; other site 565042005759 Zn binding site [ion binding]; other site 565042005760 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 565042005761 tetramer interface [polypeptide binding]; other site 565042005762 threonine dehydratase; Provisional; Region: PRK08198 565042005763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 565042005764 catalytic residue [active] 565042005765 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 565042005766 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 565042005767 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 565042005768 Ca binding site [ion binding]; other site 565042005769 active site 565042005770 catalytic site [active] 565042005771 probable galactinol--sucrose galactosyltransferase 1; Region: PLN02355 565042005772 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), trehalose synthase (also called maltose alpha-D-glucosyltransferase), and related proteins; Region: AmyAc_OligoGlu_TS; cd11332 565042005773 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 565042005774 active site 565042005775 catalytic site [active] 565042005776 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 565042005777 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 565042005778 dimer interface [polypeptide binding]; other site 565042005779 conserved gate region; other site 565042005780 putative PBP binding loops; other site 565042005781 ABC-ATPase subunit interface; other site 565042005782 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 565042005783 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 565042005784 dimer interface [polypeptide binding]; other site 565042005785 conserved gate region; other site 565042005786 putative PBP binding loops; other site 565042005787 ABC-ATPase subunit interface; other site 565042005788 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 565042005789 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 565042005790 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 565042005791 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 565042005792 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 565042005793 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042005794 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 565042005795 DNA binding site [nucleotide binding] 565042005796 domain linker motif; other site 565042005797 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 565042005798 ligand binding site [chemical binding]; other site 565042005799 dimerization interface [polypeptide binding]; other site 565042005800 Transcriptional regulators [Transcription]; Region: PurR; COG1609 565042005801 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 565042005802 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 565042005803 ligand binding site [chemical binding]; other site 565042005804 dimerization interface [polypeptide binding]; other site 565042005805 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 565042005806 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 565042005807 dimer interface [polypeptide binding]; other site 565042005808 conserved gate region; other site 565042005809 putative PBP binding loops; other site 565042005810 ABC-ATPase subunit interface; other site 565042005811 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 565042005812 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 565042005813 dimer interface [polypeptide binding]; other site 565042005814 conserved gate region; other site 565042005815 putative PBP binding loops; other site 565042005816 ABC-ATPase subunit interface; other site 565042005817 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 565042005818 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 565042005819 MarR family; Region: MarR_2; pfam12802 565042005820 Transcriptional regulators [Transcription]; Region: MarR; COG1846 565042005821 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 565042005822 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 565042005823 Melibiase; Region: Melibiase; pfam02065 565042005824 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 565042005825 nucleoside/Zn binding site; other site 565042005826 dimer interface [polypeptide binding]; other site 565042005827 catalytic motif [active] 565042005828 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 565042005829 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 565042005830 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 565042005831 Serine hydrolase (FSH1); Region: FSH1; pfam03959 565042005832 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 565042005833 trimer interface [polypeptide binding]; other site 565042005834 active site 565042005835 cell division protein ZipA; Provisional; Region: PRK03427 565042005836 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 565042005837 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 565042005838 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 565042005839 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 565042005840 Soluble P-type ATPase [General function prediction only]; Region: COG4087 565042005841 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 565042005842 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 565042005843 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 565042005844 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 565042005845 Major Facilitator Superfamily; Region: MFS_1; pfam07690 565042005846 putative substrate translocation pore; other site 565042005847 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 565042005848 putative substrate translocation pore; other site 565042005849 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 565042005850 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 565042005851 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 565042005852 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 565042005853 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 565042005854 active site 565042005855 catalytic site [active] 565042005856 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 565042005857 Cna protein B-type domain; Region: Cna_B; pfam05738 565042005858 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 565042005859 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 565042005860 domain interaction interfaces [polypeptide binding]; other site 565042005861 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 565042005862 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 565042005863 Walker A/P-loop; other site 565042005864 ATP binding site [chemical binding]; other site 565042005865 Q-loop/lid; other site 565042005866 ABC transporter signature motif; other site 565042005867 Walker B; other site 565042005868 D-loop; other site 565042005869 H-loop/switch region; other site 565042005870 TOBE domain; Region: TOBE_2; pfam08402 565042005871 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 565042005872 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 565042005873 active site 565042005874 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 565042005875 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 565042005876 dimer interface [polypeptide binding]; other site 565042005877 putative radical transfer pathway; other site 565042005878 diiron center [ion binding]; other site 565042005879 tyrosyl radical; other site 565042005880 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 565042005881 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 565042005882 Class I ribonucleotide reductase; Region: RNR_I; cd01679 565042005883 active site 565042005884 dimer interface [polypeptide binding]; other site 565042005885 catalytic residues [active] 565042005886 effector binding site; other site 565042005887 R2 peptide binding site; other site 565042005888 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 565042005889 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 565042005890 catalytic residues [active] 565042005891 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 565042005892 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 565042005893 non-specific DNA binding site [nucleotide binding]; other site 565042005894 salt bridge; other site 565042005895 sequence-specific DNA binding site [nucleotide binding]; other site 565042005896 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 565042005897 Ion channel; Region: Ion_trans_2; pfam07885 565042005898 AAA ATPase domain; Region: AAA_16; pfam13191 565042005899 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 565042005900 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 565042005901 Catalytic domain of Protein Kinases; Region: PKc; cd00180 565042005902 active site 565042005903 ATP binding site [chemical binding]; other site 565042005904 substrate binding site [chemical binding]; other site 565042005905 activation loop (A-loop); other site 565042005906 Gamma interferon inducible lysosomal thiol reductase (GILT); Region: GILT; pfam03227 565042005907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 565042005908 Domain of unknown function (DUF348); Region: DUF348; pfam03990 565042005909 G5 domain; Region: G5; pfam07501 565042005910 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 565042005911 N-acetyl-D-glucosamine binding site [chemical binding]; other site 565042005912 catalytic residue [active] 565042005913 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 565042005914 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 565042005915 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 565042005916 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 565042005917 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 565042005918 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 565042005919 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 565042005920 active site 565042005921 NTP binding site [chemical binding]; other site 565042005922 metal binding triad [ion binding]; metal-binding site 565042005923 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 565042005924 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 565042005925 Zn2+ binding site [ion binding]; other site 565042005926 Mg2+ binding site [ion binding]; other site 565042005927 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 565042005928 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 565042005929 active site 565042005930 Ap6A binding site [chemical binding]; other site 565042005931 nudix motif; other site 565042005932 metal binding site [ion binding]; metal-binding site 565042005933 integral membrane protein MviN; Region: mviN; TIGR01695 565042005934 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 565042005935 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 565042005936 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 565042005937 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 565042005938 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 565042005939 ParB-like nuclease domain; Region: ParBc; pfam02195 565042005940 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 565042005941 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 565042005942 P-loop; other site 565042005943 Magnesium ion binding site [ion binding]; other site 565042005944 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 565042005945 Magnesium ion binding site [ion binding]; other site 565042005946 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 565042005947 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 565042005948 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 565042005949 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 565042005950 G-X-X-G motif; other site 565042005951 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 565042005952 RxxxH motif; other site 565042005953 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 565042005954 Ribonuclease P; Region: Ribonuclease_P; pfam00825 565042005955 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399