-- dump date 20140619_100436 -- class Genbank::misc_feature -- table misc_feature_note -- id note 469604000001 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 469604000002 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 469604000003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604000004 Walker A/P-loop; other site 469604000005 ATP binding site [chemical binding]; other site 469604000006 Q-loop/lid; other site 469604000007 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604000008 ABC transporter signature motif; other site 469604000009 Walker B; other site 469604000010 D-loop; other site 469604000011 H-loop/switch region; other site 469604000012 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 469604000013 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 469604000014 Mg2+ binding site [ion binding]; other site 469604000015 G-X-G motif; other site 469604000016 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 469604000017 anchoring element; other site 469604000018 dimer interface [polypeptide binding]; other site 469604000019 ATP binding site [chemical binding]; other site 469604000020 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 469604000021 active site 469604000022 putative metal-binding site [ion binding]; other site 469604000023 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 469604000024 DNA gyrase subunit A; Validated; Region: PRK05560 469604000025 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 469604000026 CAP-like domain; other site 469604000027 active site 469604000028 primary dimer interface [polypeptide binding]; other site 469604000029 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469604000030 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469604000031 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469604000032 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469604000033 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469604000034 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 469604000035 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 469604000036 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 469604000037 active site 469604000038 metal binding site [ion binding]; metal-binding site 469604000039 homotetramer interface [polypeptide binding]; other site 469604000040 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 469604000041 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 469604000042 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 469604000043 dimer interface [polypeptide binding]; other site 469604000044 motif 1; other site 469604000045 active site 469604000046 motif 2; other site 469604000047 motif 3; other site 469604000048 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 469604000049 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 469604000050 putative tRNA-binding site [nucleotide binding]; other site 469604000051 B3/4 domain; Region: B3_4; pfam03483 469604000052 tRNA synthetase B5 domain; Region: B5; smart00874 469604000053 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 469604000054 dimer interface [polypeptide binding]; other site 469604000055 motif 1; other site 469604000056 motif 3; other site 469604000057 motif 2; other site 469604000058 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 469604000059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604000060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604000061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604000062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604000063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604000064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604000065 Transposase IS200 like; Region: Y1_Tnp; pfam01797 469604000066 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 469604000067 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 469604000068 NAD binding site [chemical binding]; other site 469604000069 homodimer interface [polypeptide binding]; other site 469604000070 active site 469604000071 substrate binding site [chemical binding]; other site 469604000072 Galactose-1-phosphate uridyltransferase [Carbohydrate transport and metabolism]; Region: GalT; COG4468 469604000073 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 469604000074 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 469604000075 galactokinase; Provisional; Region: PRK05322 469604000076 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 469604000077 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 469604000078 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 469604000079 Predicted membrane protein [Function unknown]; Region: COG1288 469604000080 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469604000081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 469604000082 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 469604000083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 469604000084 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 469604000085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604000086 Walker A/P-loop; other site 469604000087 ATP binding site [chemical binding]; other site 469604000088 Q-loop/lid; other site 469604000089 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469604000090 ABC transporter; Region: ABC_tran_2; pfam12848 469604000091 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469604000092 EamA-like transporter family; Region: EamA; pfam00892 469604000093 EamA-like transporter family; Region: EamA; pfam00892 469604000094 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 469604000095 active site 469604000096 catalytic triad [active] 469604000097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 469604000098 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 469604000099 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 469604000100 Walker A motif; other site 469604000101 Type II/IV secretion system protein; Region: T2SE; pfam00437 469604000102 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 469604000103 Walker A motif; other site 469604000104 ATP binding site [chemical binding]; other site 469604000105 Walker B motif; other site 469604000106 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 469604000107 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469604000108 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 469604000109 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 469604000110 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 469604000111 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 469604000112 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 469604000113 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 469604000114 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 469604000115 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 469604000116 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 469604000117 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469604000118 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469604000119 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469604000120 Predicted membrane protein [Function unknown]; Region: COG3212 469604000121 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 469604000122 Predicted membrane protein [Function unknown]; Region: COG3619 469604000123 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 469604000124 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 469604000125 Potassium binding sites [ion binding]; other site 469604000126 Cesium cation binding sites [ion binding]; other site 469604000127 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 469604000128 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469604000129 active site 469604000130 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469604000131 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 469604000132 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 469604000133 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 469604000134 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 469604000135 RNA binding site [nucleotide binding]; other site 469604000136 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 469604000137 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 469604000138 ATP binding site [chemical binding]; other site 469604000139 Mg2+ binding site [ion binding]; other site 469604000140 G-X-G motif; other site 469604000141 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 469604000142 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 469604000143 active site 469604000144 HIGH motif; other site 469604000145 nucleotide binding site [chemical binding]; other site 469604000146 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469604000147 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 469604000148 active site 469604000149 KMSKS motif; other site 469604000150 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 469604000151 tRNA binding surface [nucleotide binding]; other site 469604000152 anticodon binding site; other site 469604000153 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 469604000154 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 469604000155 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 469604000156 dimer interface [polypeptide binding]; other site 469604000157 motif 1; other site 469604000158 active site 469604000159 motif 2; other site 469604000160 motif 3; other site 469604000161 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 469604000162 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 469604000163 GTP cyclohydrolase I [Coenzyme metabolism]; Region: FolE; COG0302 469604000164 GTP cyclohydrolase I; Provisional; Region: PLN03044 469604000165 active site 469604000166 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 469604000167 homooctamer interface [polypeptide binding]; other site 469604000168 active site 469604000169 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 469604000170 catalytic center binding site [active] 469604000171 ATP binding site [chemical binding]; other site 469604000172 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 469604000173 dihydropteroate synthase; Region: DHPS; TIGR01496 469604000174 substrate binding pocket [chemical binding]; other site 469604000175 dimer interface [polypeptide binding]; other site 469604000176 inhibitor binding site; inhibition site 469604000177 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 469604000178 putative hexamer interface [polypeptide binding]; other site 469604000179 putative hexagonal pore; other site 469604000180 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 469604000181 G1 box; other site 469604000182 GTP/Mg2+ binding site [chemical binding]; other site 469604000183 G2 box; other site 469604000184 Switch I region; other site 469604000185 G3 box; other site 469604000186 Switch II region; other site 469604000187 G4 box; other site 469604000188 G5 box; other site 469604000189 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 469604000190 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 469604000191 active site 469604000192 phosphorylation site [posttranslational modification] 469604000193 intermolecular recognition site; other site 469604000194 dimerization interface [polypeptide binding]; other site 469604000195 ANTAR domain; Region: ANTAR; pfam03861 469604000196 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 469604000197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 469604000198 Histidine kinase; Region: HisKA_2; pfam07568 469604000199 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 469604000200 ATP binding site [chemical binding]; other site 469604000201 Mg2+ binding site [ion binding]; other site 469604000202 G-X-G motif; other site 469604000203 Ethanolamine utilization protein, possible chaperonin protecting lyase from inhibition [Amino acid transport and metabolism]; Region: EutA; COG4819 469604000204 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 469604000205 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 469604000206 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 469604000207 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 469604000208 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 469604000209 putative hexamer interface [polypeptide binding]; other site 469604000210 putative hexagonal pore; other site 469604000211 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 469604000212 putative hexamer interface [polypeptide binding]; other site 469604000213 putative hexagonal pore; other site 469604000214 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 469604000215 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 469604000216 Hexamer interface [polypeptide binding]; other site 469604000217 Hexagonal pore residue; other site 469604000218 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 469604000219 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 469604000220 Hexamer interface [polypeptide binding]; other site 469604000221 Putative hexagonal pore residue; other site 469604000222 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 469604000223 putative catalytic cysteine [active] 469604000224 Ethanolamine utilization cobalamin adenosyltransferase [Amino acid transport and metabolism]; Region: EutT; COG4812 469604000225 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 469604000226 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 469604000227 Hexamer/Pentamer interface [polypeptide binding]; other site 469604000228 central pore; other site 469604000229 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 469604000230 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 469604000231 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 469604000232 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 469604000233 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 469604000234 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 469604000235 putative active site [active] 469604000236 metal binding site [ion binding]; metal-binding site 469604000237 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 469604000238 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469604000239 catalytic residues [active] 469604000240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 469604000241 Sm and related proteins; Region: Sm_like; cl00259 469604000242 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 469604000243 putative oligomer interface [polypeptide binding]; other site 469604000244 putative RNA binding site [nucleotide binding]; other site 469604000245 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 469604000246 NusA N-terminal domain; Region: NusA_N; pfam08529 469604000247 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 469604000248 RNA binding site [nucleotide binding]; other site 469604000249 homodimer interface [polypeptide binding]; other site 469604000250 NusA-like KH domain; Region: KH_5; pfam13184 469604000251 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 469604000252 G-X-X-G motif; other site 469604000253 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 469604000254 putative RNA binding cleft [nucleotide binding]; other site 469604000255 Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]; Region: RPL8A; COG1358 469604000256 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 469604000257 translation initiation factor IF-2; Region: IF-2; TIGR00487 469604000258 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 469604000259 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 469604000260 G1 box; other site 469604000261 putative GEF interaction site [polypeptide binding]; other site 469604000262 GTP/Mg2+ binding site [chemical binding]; other site 469604000263 Switch I region; other site 469604000264 G2 box; other site 469604000265 G3 box; other site 469604000266 Switch II region; other site 469604000267 G4 box; other site 469604000268 G5 box; other site 469604000269 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 469604000270 Translation-initiation factor 2; Region: IF-2; pfam11987 469604000271 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 469604000272 Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]; Region: RbfA; COG0858 469604000273 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 469604000274 DHH family; Region: DHH; pfam01368 469604000275 DHHA1 domain; Region: DHHA1; pfam02272 469604000276 FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]; Region: Tig; COG0544 469604000277 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469604000278 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 469604000279 Clp protease; Region: CLP_protease; pfam00574 469604000280 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 469604000281 oligomer interface [polypeptide binding]; other site 469604000282 active site residues [active] 469604000283 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 469604000284 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 469604000285 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 469604000286 Walker A motif; other site 469604000287 ATP binding site [chemical binding]; other site 469604000288 Walker B motif; other site 469604000289 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 469604000290 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 469604000291 Found in ATP-dependent protease La (LON); Region: LON; smart00464 469604000292 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 469604000293 Walker A motif; other site 469604000294 ATP binding site [chemical binding]; other site 469604000295 Walker B motif; other site 469604000296 arginine finger; other site 469604000297 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 469604000298 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 469604000299 G1 box; other site 469604000300 GTP/Mg2+ binding site [chemical binding]; other site 469604000301 Switch I region; other site 469604000302 G2 box; other site 469604000303 G3 box; other site 469604000304 Switch II region; other site 469604000305 G4 box; other site 469604000306 G5 box; other site 469604000307 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 469604000308 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 469604000309 HIGH motif; other site 469604000310 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469604000311 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 469604000312 active site 469604000313 KMSKS motif; other site 469604000314 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 469604000315 tRNA binding surface [nucleotide binding]; other site 469604000316 anticodon binding site; other site 469604000317 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 469604000318 Transcriptional regulators [Transcription]; Region: MarR; COG1846 469604000319 MarR family; Region: MarR; pfam01047 469604000320 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 469604000321 dimer interface [polypeptide binding]; other site 469604000322 conserved gate region; other site 469604000323 putative PBP binding loops; other site 469604000324 ABC-ATPase subunit interface; other site 469604000325 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 469604000326 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 469604000327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604000328 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 469604000329 Walker A/P-loop; other site 469604000330 ATP binding site [chemical binding]; other site 469604000331 Q-loop/lid; other site 469604000332 ABC transporter signature motif; other site 469604000333 Walker B; other site 469604000334 D-loop; other site 469604000335 H-loop/switch region; other site 469604000336 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 469604000337 catalytic residues [active] 469604000338 dimer interface [polypeptide binding]; other site 469604000339 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 469604000340 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 469604000341 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 469604000342 Walker A/P-loop; other site 469604000343 ATP binding site [chemical binding]; other site 469604000344 Q-loop/lid; other site 469604000345 ABC transporter signature motif; other site 469604000346 Walker B; other site 469604000347 D-loop; other site 469604000348 H-loop/switch region; other site 469604000349 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 469604000350 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 469604000351 Walker A/P-loop; other site 469604000352 ATP binding site [chemical binding]; other site 469604000353 Q-loop/lid; other site 469604000354 ABC transporter signature motif; other site 469604000355 Walker B; other site 469604000356 D-loop; other site 469604000357 H-loop/switch region; other site 469604000358 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 469604000359 Predicted membrane protein [Function unknown]; Region: COG4984 469604000360 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 469604000361 GDYXXLXY protein; Region: GDYXXLXY; cl02066 469604000362 HipA N-terminal domain; Region: Couple_hipA; pfam13657 469604000363 HipA-like N-terminal domain; Region: HipA_N; pfam07805 469604000364 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 469604000365 HipA-like C-terminal domain; Region: HipA_C; pfam07804 469604000366 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 469604000367 non-specific DNA binding site [nucleotide binding]; other site 469604000368 salt bridge; other site 469604000369 sequence-specific DNA binding site [nucleotide binding]; other site 469604000370 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 469604000371 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1244 469604000372 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 469604000373 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 469604000374 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 469604000375 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469604000376 active site 469604000377 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 469604000378 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 469604000379 Substrate binding site; other site 469604000380 Mg++ binding site; other site 469604000381 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 469604000382 active site 469604000383 substrate binding site [chemical binding]; other site 469604000384 CoA binding site [chemical binding]; other site 469604000385 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 469604000386 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 469604000387 HSP70 interaction site [polypeptide binding]; other site 469604000388 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 469604000389 Na2 binding site [ion binding]; other site 469604000390 putative substrate binding site 1 [chemical binding]; other site 469604000391 Na binding site 1 [ion binding]; other site 469604000392 putative substrate binding site 2 [chemical binding]; other site 469604000393 tyrosine phenol-lyase; Provisional; Region: PRK13237 469604000394 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 469604000395 substrate binding site [chemical binding]; other site 469604000396 tetramer interface [polypeptide binding]; other site 469604000397 catalytic residue [active] 469604000398 Transcriptional regulators [Transcription]; Region: GntR; COG1802 469604000399 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469604000400 DNA-binding site [nucleotide binding]; DNA binding site 469604000401 Putative transposase; Region: Y2_Tnp; pfam04986 469604000402 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 469604000403 Putative transposase; Region: Y2_Tnp; pfam04986 469604000404 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 469604000405 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 469604000406 active site 469604000407 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469604000408 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 469604000409 dimer interface [polypeptide binding]; other site 469604000410 conserved gate region; other site 469604000411 putative PBP binding loops; other site 469604000412 ABC-ATPase subunit interface; other site 469604000413 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 469604000414 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 469604000415 dimer interface [polypeptide binding]; other site 469604000416 conserved gate region; other site 469604000417 putative PBP binding loops; other site 469604000418 ABC-ATPase subunit interface; other site 469604000419 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 469604000420 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 469604000421 Walker A/P-loop; other site 469604000422 ATP binding site [chemical binding]; other site 469604000423 Q-loop/lid; other site 469604000424 ABC transporter signature motif; other site 469604000425 Walker B; other site 469604000426 D-loop; other site 469604000427 H-loop/switch region; other site 469604000428 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 469604000429 dimerization domain swap beta strand [polypeptide binding]; other site 469604000430 regulatory protein interface [polypeptide binding]; other site 469604000431 active site 469604000432 regulatory phosphorylation site [posttranslational modification]; other site 469604000433 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 469604000434 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 469604000435 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469604000436 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469604000437 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 469604000438 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 469604000439 putative active site [active] 469604000440 nucleotide binding site [chemical binding]; other site 469604000441 nudix motif; other site 469604000442 putative metal binding site [ion binding]; other site 469604000443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 469604000444 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 469604000445 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 469604000446 homodimer interface [polypeptide binding]; other site 469604000447 Walker A motif; other site 469604000448 ATP binding site [chemical binding]; other site 469604000449 hydroxycobalamin binding site [chemical binding]; other site 469604000450 Walker B motif; other site 469604000451 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604000452 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 469604000453 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 469604000454 homotrimer interaction site [polypeptide binding]; other site 469604000455 zinc binding site [ion binding]; other site 469604000456 CDP-binding sites; other site 469604000457 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 469604000458 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469604000459 putative ribose interaction site [chemical binding]; other site 469604000460 putative ADP binding site [chemical binding]; other site 469604000461 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 469604000462 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469604000463 nucleotide binding site [chemical binding]; other site 469604000464 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 469604000465 dimerization domain swap beta strand [polypeptide binding]; other site 469604000466 regulatory protein interface [polypeptide binding]; other site 469604000467 active site 469604000468 regulatory phosphorylation site [posttranslational modification]; other site 469604000469 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 469604000470 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 469604000471 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 469604000472 RNA binding site [nucleotide binding]; other site 469604000473 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 469604000474 RNA binding site [nucleotide binding]; other site 469604000475 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 469604000476 RNA binding site [nucleotide binding]; other site 469604000477 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cd00164 469604000478 RNA binding site [nucleotide binding]; other site 469604000479 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 469604000480 pyruvate kinase; Provisional; Region: PRK09206 469604000481 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 469604000482 domain interfaces; other site 469604000483 active site 469604000484 enolase; Provisional; Region: eno; PRK00077 469604000485 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 469604000486 dimer interface [polypeptide binding]; other site 469604000487 metal binding site [ion binding]; metal-binding site 469604000488 substrate binding pocket [chemical binding]; other site 469604000489 HutD; Region: HutD; cl01532 469604000490 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 469604000491 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 469604000492 Metal-binding active site; metal-binding site 469604000493 Ycf46; Provisional; Region: ycf46; CHL00195 469604000494 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 469604000495 Walker A motif; other site 469604000496 ATP binding site [chemical binding]; other site 469604000497 Walker B motif; other site 469604000498 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 469604000499 arginine finger; other site 469604000500 Tetratricopeptide repeat; Region: TPR_16; pfam13432 469604000501 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 469604000502 binding surface 469604000503 TPR motif; other site 469604000504 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604000505 binding surface 469604000506 TPR motif; other site 469604000507 TPR repeat; Region: TPR_11; pfam13414 469604000508 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469604000509 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604000510 binding surface 469604000511 TPR motif; other site 469604000512 TPR repeat; Region: TPR_11; pfam13414 469604000513 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604000514 binding surface 469604000515 TPR motif; other site 469604000516 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 469604000517 TPR motif; other site 469604000518 binding surface 469604000519 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604000520 binding surface 469604000521 TPR repeat; Region: TPR_11; pfam13414 469604000522 TPR motif; other site 469604000523 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469604000524 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604000525 TPR motif; other site 469604000526 TPR repeat; Region: TPR_11; pfam13414 469604000527 binding surface 469604000528 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469604000529 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 469604000530 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 469604000531 active site 469604000532 catalytic site [active] 469604000533 metal binding site [ion binding]; metal-binding site 469604000534 dimer interface [polypeptide binding]; other site 469604000535 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469604000536 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 469604000537 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 469604000538 putative ADP-ribose binding site [chemical binding]; other site 469604000539 putative active site [active] 469604000540 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 469604000541 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 469604000542 catalytic triad [active] 469604000543 putative active site [active] 469604000544 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 469604000545 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 469604000546 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604000547 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 469604000548 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 469604000549 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 469604000550 active site 469604000551 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Sulfolobus solfataricus (Ss) and its homologs from archaea and bacteria; Region: NTP-PPase_SsMazG; cd11535 469604000552 metal binding site [ion binding]; metal-binding site 469604000553 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 469604000554 Na2 binding site [ion binding]; other site 469604000555 putative substrate binding site 1 [chemical binding]; other site 469604000556 Na binding site 1 [ion binding]; other site 469604000557 putative substrate binding site 2 [chemical binding]; other site 469604000558 Tryptophanase [Amino acid transport and metabolism]; Region: TnaA; COG3033 469604000559 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 469604000560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469604000561 catalytic residue [active] 469604000562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 469604000563 YheO-like PAS domain; Region: PAS_6; pfam08348 469604000564 HTH domain; Region: HTH_22; pfam13309 469604000565 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 469604000566 Clp amino terminal domain; Region: Clp_N; pfam02861 469604000567 Clp amino terminal domain; Region: Clp_N; pfam02861 469604000568 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 469604000569 Walker A motif; other site 469604000570 ATP binding site [chemical binding]; other site 469604000571 Walker B motif; other site 469604000572 arginine finger; other site 469604000573 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 469604000574 Walker A motif; other site 469604000575 ATP binding site [chemical binding]; other site 469604000576 Walker B motif; other site 469604000577 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 469604000578 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604000579 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 469604000580 HEAT repeats; Region: HEAT_2; pfam13646 469604000581 MFS/sugar transport protein; Region: MFS_2; pfam13347 469604000582 Transposase IS200 like; Region: Y1_Tnp; pfam01797 469604000583 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 469604000584 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 469604000585 CoA-binding site [chemical binding]; other site 469604000586 ATP-binding [chemical binding]; other site 469604000587 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469604000588 Peptidase family U32; Region: Peptidase_U32; pfam01136 469604000589 Collagenase; Region: DUF3656; pfam12392 469604000590 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 469604000591 tetramer interfaces [polypeptide binding]; other site 469604000592 binuclear metal-binding site [ion binding]; other site 469604000593 competence damage-inducible protein A; Provisional; Region: PRK00549 469604000594 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 469604000595 putative MPT binding site; other site 469604000596 Mitovirus RNA-dependent RNA polymerase; Region: Mitovir_RNA_pol; pfam05919 469604000597 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 469604000598 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 469604000599 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 469604000600 non-specific DNA binding site [nucleotide binding]; other site 469604000601 salt bridge; other site 469604000602 sequence-specific DNA binding site [nucleotide binding]; other site 469604000603 Cupin domain; Region: Cupin_2; pfam07883 469604000604 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 469604000605 DAK2 domain; Region: Dak2; pfam02734 469604000606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 469604000607 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 469604000608 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 469604000609 active site 469604000610 phosphorylation site [posttranslational modification] 469604000611 FOG: CBS domain [General function prediction only]; Region: COG0517 469604000612 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; cd02205 469604000613 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 469604000614 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 469604000615 transmembrane helices; other site 469604000616 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 469604000617 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 469604000618 transmembrane helices; other site 469604000619 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 469604000620 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 469604000621 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 469604000622 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 469604000623 Ligand Binding Site [chemical binding]; other site 469604000624 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 469604000625 GTPase CgtA; Reviewed; Region: obgE; PRK12297 469604000626 GTP1/OBG; Region: GTP1_OBG; pfam01018 469604000627 Obg GTPase; Region: Obg; cd01898 469604000628 G1 box; other site 469604000629 GTP/Mg2+ binding site [chemical binding]; other site 469604000630 Switch I region; other site 469604000631 G2 box; other site 469604000632 G3 box; other site 469604000633 Switch II region; other site 469604000634 G4 box; other site 469604000635 G5 box; other site 469604000636 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 469604000637 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 469604000638 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 469604000639 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 469604000640 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 469604000641 ATP binding site [chemical binding]; other site 469604000642 Mg2+ binding site [ion binding]; other site 469604000643 G-X-G motif; other site 469604000644 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 469604000645 anti sigma factor interaction site; other site 469604000646 regulatory phosphorylation site [posttranslational modification]; other site 469604000647 phosphodiesterase; Provisional; Region: PRK12704 469604000648 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469604000649 Zn2+ binding site [ion binding]; other site 469604000650 Mg2+ binding site [ion binding]; other site 469604000651 Family of unknown function (DUF490); Region: DUF490; pfam04357 469604000652 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 469604000653 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469604000654 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469604000655 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469604000656 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 469604000657 Surface antigen; Region: Bac_surface_Ag; pfam01103 469604000658 periplasmic chaperone; Provisional; Region: PRK10780 469604000659 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 469604000660 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 469604000661 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 469604000662 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 469604000663 trimer interface [polypeptide binding]; other site 469604000664 active site 469604000665 UDP-GlcNAc binding site [chemical binding]; other site 469604000666 lipid binding site [chemical binding]; lipid-binding site 469604000667 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 469604000668 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 469604000669 active site 469604000670 catalytic site [active] 469604000671 metal binding site [ion binding]; metal-binding site 469604000672 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 469604000673 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469604000674 DHH family; Region: DHH; pfam01368 469604000675 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 469604000676 DHHA1 domain; Region: DHHA1; pfam02272 469604000677 Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]; Region: TruA; COG0101 469604000678 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 469604000679 dimerization interface 3.5A [polypeptide binding]; other site 469604000680 active site 469604000681 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 469604000682 putative active site [active] 469604000683 catalytic residue [active] 469604000684 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 469604000685 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 469604000686 SLBB domain; Region: SLBB; pfam10531 469604000687 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 469604000688 electron transport complex, RnfABCDGE type, D subunit; Region: rnfD; TIGR01946 469604000689 FMN-binding domain; Region: FMN_bind; cl01081 469604000690 electron transport complex RsxE subunit; Provisional; Region: PRK12405 469604000691 Predicted NADH:ubiquinone oxidoreductase, subunit RnfA [Energy production and conversion]; Region: RnfA; COG4657 469604000692 Predicted NADH:ubiquinone oxidoreductase, subunit RnfB [Energy production and conversion]; Region: COG2878 469604000693 Putative Fe-S cluster; Region: FeS; cl17515 469604000694 Predicted NADH:ubiquinone oxidoreductase, subunit RnfB [Energy production and conversion]; Region: COG2878 469604000695 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 469604000696 Predicted transcriptional regulator [Transcription]; Region: COG2932 469604000697 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 469604000698 non-specific DNA binding site [nucleotide binding]; other site 469604000699 salt bridge; other site 469604000700 sequence-specific DNA binding site [nucleotide binding]; other site 469604000701 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 469604000702 Catalytic site [active] 469604000703 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469604000704 Coenzyme A binding pocket [chemical binding]; other site 469604000705 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 469604000706 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 469604000707 active site 469604000708 Predicted integral membrane protein [Function unknown]; Region: COG5505 469604000709 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 469604000710 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 469604000711 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 469604000712 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469604000713 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469604000714 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 469604000715 MutS domain III; Region: MutS_III; pfam05192 469604000716 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 469604000717 Walker A/P-loop; other site 469604000718 ATP binding site [chemical binding]; other site 469604000719 Q-loop/lid; other site 469604000720 ABC transporter signature motif; other site 469604000721 Walker B; other site 469604000722 D-loop; other site 469604000723 H-loop/switch region; other site 469604000724 Smr domain; Region: Smr; pfam01713 469604000725 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 469604000726 substrate binding site; other site 469604000727 dimer interface; other site 469604000728 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 469604000729 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 469604000730 active site 469604000731 HIGH motif; other site 469604000732 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 469604000733 KMSKS motif; other site 469604000734 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 469604000735 tRNA binding surface [nucleotide binding]; other site 469604000736 anticodon binding site; other site 469604000737 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 469604000738 active site 469604000739 metal binding site [ion binding]; metal-binding site 469604000740 dimerization interface [polypeptide binding]; other site 469604000741 rod shape-determining protein MreB; Provisional; Region: PRK13930 469604000742 MreB and similar proteins; Region: MreB_like; cd10225 469604000743 nucleotide binding site [chemical binding]; other site 469604000744 Mg binding site [ion binding]; other site 469604000745 putative protofilament interaction site [polypeptide binding]; other site 469604000746 RodZ interaction site [polypeptide binding]; other site 469604000747 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 469604000748 DNA polymerase III subunit delta'; Validated; Region: PRK08485 469604000749 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 469604000750 GIY-YIG motif/motif A; other site 469604000751 putative active site [active] 469604000752 Smr domain; Region: Smr; pfam01713 469604000753 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 469604000754 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 469604000755 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 469604000756 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 469604000757 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 469604000758 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 469604000759 TrkA-C domain; Region: TrkA_C; pfam02080 469604000760 TrkA-C domain; Region: TrkA_C; pfam02080 469604000761 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 469604000762 S17 interaction site [polypeptide binding]; other site 469604000763 S8 interaction site; other site 469604000764 16S rRNA interaction site [nucleotide binding]; other site 469604000765 streptomycin interaction site [chemical binding]; other site 469604000766 23S rRNA interaction site [nucleotide binding]; other site 469604000767 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 469604000768 30S ribosomal protein S7; Validated; Region: PRK05302 469604000769 elongation factor G; Reviewed; Region: PRK00007 469604000770 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 469604000771 G1 box; other site 469604000772 putative GEF interaction site [polypeptide binding]; other site 469604000773 GTP/Mg2+ binding site [chemical binding]; other site 469604000774 Switch I region; other site 469604000775 G2 box; other site 469604000776 G3 box; other site 469604000777 Switch II region; other site 469604000778 G4 box; other site 469604000779 G5 box; other site 469604000780 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 469604000781 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 469604000782 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 469604000783 elongation factor Tu; Reviewed; Region: PRK00049 469604000784 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 469604000785 G1 box; other site 469604000786 GEF interaction site [polypeptide binding]; other site 469604000787 GTP/Mg2+ binding site [chemical binding]; other site 469604000788 Switch I region; other site 469604000789 G2 box; other site 469604000790 G3 box; other site 469604000791 Switch II region; other site 469604000792 G4 box; other site 469604000793 G5 box; other site 469604000794 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 469604000795 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 469604000796 Antibiotic Binding Site [chemical binding]; other site 469604000797 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469604000798 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469604000799 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604000800 ribosome recycling factor; Reviewed; Region: frr; PRK00083 469604000801 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 469604000802 hinge region; other site 469604000803 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 469604000804 putative nucleotide binding site [chemical binding]; other site 469604000805 uridine monophosphate binding site [chemical binding]; other site 469604000806 homohexameric interface [polypeptide binding]; other site 469604000807 elongation factor Ts; Provisional; Region: tsf; PRK09377 469604000808 UBA/TS-N domain; Region: UBA; pfam00627 469604000809 Elongation factor TS; Region: EF_TS; pfam00889 469604000810 Elongation factor TS; Region: EF_TS; pfam00889 469604000811 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 469604000812 rRNA interaction site [nucleotide binding]; other site 469604000813 S8 interaction site; other site 469604000814 putative laminin-1 binding site; other site 469604000815 Asp23 family; Region: Asp23; pfam03780 469604000816 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 469604000817 Transcription termination factor [Transcription]; Region: NusB; COG0781 469604000818 putative RNA binding site [nucleotide binding]; other site 469604000819 Integrase core domain; Region: rve; pfam00665 469604000820 Integrase core domain; Region: rve_2; pfam13333 469604000821 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469604000822 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; cl17393 469604000823 DNA-binding interface [nucleotide binding]; DNA binding site 469604000824 Homeodomain-like domain; Region: HTH_23; cl17451 469604000825 hypothetical protein; Provisional; Region: PRK13795 469604000826 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 469604000827 Active Sites [active] 469604000828 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 469604000829 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 469604000830 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 469604000831 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469604000832 catalytic residue [active] 469604000833 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_a; cd09179 469604000834 putative active site [active] 469604000835 catalytic site [active] 469604000836 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 469604000837 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 469604000838 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 469604000839 putative Mg++ binding site [ion binding]; other site 469604000840 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 469604000841 nucleotide binding region [chemical binding]; other site 469604000842 ATP-binding site [chemical binding]; other site 469604000843 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604000844 AAA domain; Region: AAA_23; pfam13476 469604000845 Walker A/P-loop; other site 469604000846 ATP binding site [chemical binding]; other site 469604000847 Abi-like protein; Region: Abi_2; pfam07751 469604000848 Predicted membrane protein [Function unknown]; Region: COG1971 469604000849 Domain of unknown function DUF; Region: DUF204; pfam02659 469604000850 Domain of unknown function DUF; Region: DUF204; pfam02659 469604000851 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 469604000852 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 469604000853 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 469604000854 Walker A motif; other site 469604000855 ATP binding site [chemical binding]; other site 469604000856 Walker B motif; other site 469604000857 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 469604000858 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 469604000859 catalytic residues [active] 469604000860 catalytic nucleophile [active] 469604000861 Presynaptic Site I dimer interface [polypeptide binding]; other site 469604000862 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 469604000863 Synaptic Flat tetramer interface [polypeptide binding]; other site 469604000864 Synaptic Site I dimer interface [polypeptide binding]; other site 469604000865 DNA binding site [nucleotide binding] 469604000866 Recombinase; Region: Recombinase; pfam07508 469604000867 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 469604000868 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 469604000869 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 469604000870 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 469604000871 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 469604000872 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 469604000873 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 469604000874 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 469604000875 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 469604000876 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 469604000877 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 469604000878 Walker A motif; other site 469604000879 ATP binding site [chemical binding]; other site 469604000880 Walker B motif; other site 469604000881 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 469604000882 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 469604000883 FeS/SAM binding site; other site 469604000884 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 469604000885 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 469604000886 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 469604000887 dimerization interface [polypeptide binding]; other site 469604000888 domain crossover interface; other site 469604000889 redox-dependent activation switch; other site 469604000890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 469604000891 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 469604000892 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469604000893 putative active site [active] 469604000894 metal binding site [ion binding]; metal-binding site 469604000895 homodimer binding site [polypeptide binding]; other site 469604000896 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 469604000897 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 469604000898 S-adenosylmethionine binding site [chemical binding]; other site 469604000899 cytidylate kinase; Provisional; Region: cmk; PRK00023 469604000900 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 469604000901 CMP-binding site; other site 469604000902 The sites determining sugar specificity; other site 469604000903 Bacterial SH3 domain; Region: SH3_3; cl17532 469604000904 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 469604000905 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 469604000906 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 469604000907 S-adenosylmethionine binding site [chemical binding]; other site 469604000908 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 469604000909 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 469604000910 GDP-binding site [chemical binding]; other site 469604000911 ACT binding site; other site 469604000912 IMP binding site; other site 469604000913 Predicted kinase [General function prediction only]; Region: COG4639 469604000914 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469604000915 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 469604000916 active site 469604000917 metal binding site [ion binding]; metal-binding site 469604000918 RNA ligase; Region: RNA_lig_T4_1; pfam09511 469604000919 Uncharacterized conserved protein [Function unknown]; Region: COG1683 469604000920 Uncharacterized conserved protein [Function unknown]; Region: COG1739 469604000921 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 469604000922 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 469604000923 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 469604000924 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 469604000925 interface (dimer of trimers) [polypeptide binding]; other site 469604000926 Substrate-binding/catalytic site; other site 469604000927 Zn-binding sites [ion binding]; other site 469604000928 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604000929 Predicted transcriptional regulators [Transcription]; Region: COG1733 469604000930 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 469604000931 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 469604000932 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 469604000933 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469604000934 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469604000935 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 469604000936 active site residue [active] 469604000937 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 469604000938 CPxP motif; other site 469604000939 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 469604000940 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 469604000941 catalytic motif [active] 469604000942 Zn binding site [ion binding]; other site 469604000943 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 469604000944 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 469604000945 ligand binding site [chemical binding]; other site 469604000946 flexible hinge region; other site 469604000947 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; cl17320 469604000948 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 469604000949 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 469604000950 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 469604000951 haemagglutination activity domain; Region: Haemagg_act; pfam05860 469604000952 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469604000953 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469604000954 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 469604000955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604000956 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469604000957 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 469604000958 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 469604000959 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 469604000960 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 469604000961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604000962 Walker A/P-loop; other site 469604000963 ATP binding site [chemical binding]; other site 469604000964 Q-loop/lid; other site 469604000965 ABC transporter signature motif; other site 469604000966 Walker B; other site 469604000967 D-loop; other site 469604000968 H-loop/switch region; other site 469604000969 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469604000970 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 469604000971 TM-ABC transporter signature motif; other site 469604000972 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 469604000973 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469604000974 TM-ABC transporter signature motif; other site 469604000975 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 469604000976 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 469604000977 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 469604000978 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604000979 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 469604000980 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 469604000981 active site 469604000982 catalytic site [active] 469604000983 metal binding site [ion binding]; metal-binding site 469604000984 dimer interface [polypeptide binding]; other site 469604000985 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 469604000986 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 469604000987 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 469604000988 active site 469604000989 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 469604000990 FMN binding site [chemical binding]; other site 469604000991 dimer interface [polypeptide binding]; other site 469604000992 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 469604000993 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469604000994 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 469604000995 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 469604000996 conserved cys residue [active] 469604000997 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 469604000998 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 469604000999 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 469604001000 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 469604001001 nucleotide binding site/active site [active] 469604001002 HIT family signature motif; other site 469604001003 catalytic residue [active] 469604001004 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 469604001005 active site 2 [active] 469604001006 active site 1 [active] 469604001007 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 469604001008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469604001009 NAD(P) binding site [chemical binding]; other site 469604001010 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 469604001011 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 469604001012 FeS/SAM binding site; other site 469604001013 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 469604001014 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 469604001015 ATP-binding cassette domain of MutS homologs; Region: ABC_MutS_homologs; cd03243 469604001016 Walker A/P-loop; other site 469604001017 ATP binding site [chemical binding]; other site 469604001018 Q-loop/lid; other site 469604001019 ABC transporter signature motif; other site 469604001020 Walker B; other site 469604001021 D-loop; other site 469604001022 H-loop/switch region; other site 469604001023 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 469604001024 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 469604001025 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 469604001026 B12 binding site [chemical binding]; other site 469604001027 cobalt ligand [ion binding]; other site 469604001028 Lysine efflux permease [General function prediction only]; Region: COG1279 469604001029 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 469604001030 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 469604001031 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 469604001032 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 469604001033 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 469604001034 substrate binding site [chemical binding]; other site 469604001035 B12 cofactor binding site [chemical binding]; other site 469604001036 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 469604001037 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 469604001038 MutL protein; Region: MutL; pfam13941 469604001039 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 469604001040 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 469604001041 B12 binding site [chemical binding]; other site 469604001042 heterodimer interface [polypeptide binding]; other site 469604001043 cobalt ligand [ion binding]; other site 469604001044 ribonuclease PH; Reviewed; Region: rph; PRK00173 469604001045 Ribonuclease PH; Region: RNase_PH_bact; cd11362 469604001046 hexamer interface [polypeptide binding]; other site 469604001047 active site 469604001048 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 469604001049 active site 469604001050 dimerization interface [polypeptide binding]; other site 469604001051 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 469604001052 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 469604001053 dimer interface [polypeptide binding]; other site 469604001054 active site 469604001055 CoA binding pocket [chemical binding]; other site 469604001056 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 469604001057 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 469604001058 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 469604001059 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469604001060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469604001061 NAD(P) binding site [chemical binding]; other site 469604001062 active site 469604001063 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 469604001064 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 469604001065 classical (c) SDRs; Region: SDR_c; cd05233 469604001066 NAD(P) binding site [chemical binding]; other site 469604001067 active site 469604001068 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469604001069 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 469604001070 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469604001071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 469604001072 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 469604001073 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 469604001074 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 469604001075 fructuronate transporter; Provisional; Region: PRK10034; cl15264 469604001076 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 469604001077 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 469604001078 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 469604001079 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 469604001080 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 469604001081 glycerol kinase; Provisional; Region: glpK; PRK00047 469604001082 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 469604001083 N- and C-terminal domain interface [polypeptide binding]; other site 469604001084 active site 469604001085 MgATP binding site [chemical binding]; other site 469604001086 catalytic site [active] 469604001087 metal binding site [ion binding]; metal-binding site 469604001088 glycerol binding site [chemical binding]; other site 469604001089 homotetramer interface [polypeptide binding]; other site 469604001090 homodimer interface [polypeptide binding]; other site 469604001091 FBP binding site [chemical binding]; other site 469604001092 protein IIAGlc interface [polypeptide binding]; other site 469604001093 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 469604001094 amphipathic channel; other site 469604001095 Asn-Pro-Ala signature motifs; other site 469604001096 Protein of unknown function DUF116; Region: DUF116; cl00800 469604001097 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 469604001098 Tetratricopeptide repeat; Region: TPR_16; pfam13432 469604001099 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 469604001100 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 469604001101 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604001102 binding surface 469604001103 TPR motif; other site 469604001104 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 469604001105 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 469604001106 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 469604001107 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 469604001108 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 469604001109 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 469604001110 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 469604001111 active site 469604001112 phosphorylation site [posttranslational modification] 469604001113 intermolecular recognition site; other site 469604001114 dimerization interface [polypeptide binding]; other site 469604001115 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 469604001116 Walker A motif; other site 469604001117 ATP binding site [chemical binding]; other site 469604001118 Walker B motif; other site 469604001119 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 469604001120 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 469604001121 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 469604001122 Walker A motif; other site 469604001123 ATP binding site [chemical binding]; other site 469604001124 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 469604001125 Walker B motif; other site 469604001126 arginine finger; other site 469604001127 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 469604001128 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 469604001129 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 469604001130 replicative DNA helicase; Region: DnaB; TIGR00665 469604001131 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 469604001132 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 469604001133 Walker A motif; other site 469604001134 ATP binding site [chemical binding]; other site 469604001135 Walker B motif; other site 469604001136 DNA binding loops [nucleotide binding] 469604001137 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 469604001138 Peptidase family U32; Region: Peptidase_U32; pfam01136 469604001139 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 469604001140 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 469604001141 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 469604001142 putative active site [active] 469604001143 putative NTP binding site [chemical binding]; other site 469604001144 putative nucleic acid binding site [nucleotide binding]; other site 469604001145 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 469604001146 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; cl15354 469604001147 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; cl15354 469604001148 DHHA2 domain; Region: DHHA2; pfam02833 469604001149 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469604001150 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469604001151 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469604001152 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469604001153 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604001154 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 469604001155 Walker A/P-loop; other site 469604001156 ATP binding site [chemical binding]; other site 469604001157 Q-loop/lid; other site 469604001158 ABC transporter signature motif; other site 469604001159 Walker B; other site 469604001160 D-loop; other site 469604001161 H-loop/switch region; other site 469604001162 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 469604001163 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604001164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604001165 Walker A/P-loop; other site 469604001166 ATP binding site [chemical binding]; other site 469604001167 Q-loop/lid; other site 469604001168 ABC transporter signature motif; other site 469604001169 Walker B; other site 469604001170 D-loop; other site 469604001171 H-loop/switch region; other site 469604001172 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 469604001173 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 469604001174 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 469604001175 haemagglutination activity domain; Region: Haemagg_act; pfam05860 469604001176 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 469604001177 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469604001178 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469604001179 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469604001180 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469604001181 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469604001182 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 469604001183 putative phosphate acyltransferase; Provisional; Region: PRK05331 469604001184 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 469604001185 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 469604001186 dimer interface [polypeptide binding]; other site 469604001187 active site 469604001188 CoA binding pocket [chemical binding]; other site 469604001189 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 469604001190 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 469604001191 acyl carrier protein; Provisional; Region: acpP; PRK00982 469604001192 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 469604001193 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 469604001194 dimer interface [polypeptide binding]; other site 469604001195 active site 469604001196 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 469604001197 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 469604001198 dimerization interface [polypeptide binding]; other site 469604001199 active site 469604001200 metal binding site [ion binding]; metal-binding site 469604001201 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 469604001202 dsRNA binding site [nucleotide binding]; other site 469604001203 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 469604001204 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 469604001205 FeS/SAM binding site; other site 469604001206 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 469604001207 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 469604001208 homodimer interface [polypeptide binding]; other site 469604001209 oligonucleotide binding site [chemical binding]; other site 469604001210 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 469604001211 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 469604001212 active site 469604001213 (T/H)XGH motif; other site 469604001214 Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]; Region: Sms; COG1066 469604001215 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 469604001216 Walker A motif/ATP binding site; other site 469604001217 ATP binding site [chemical binding]; other site 469604001218 Walker B motif; other site 469604001219 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 469604001220 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]; Region: COG1623 469604001221 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 469604001222 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 469604001223 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 469604001224 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604001225 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 469604001226 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 469604001227 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 469604001228 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 469604001229 amidase catalytic site [active] 469604001230 Zn binding residues [ion binding]; other site 469604001231 substrate binding site [chemical binding]; other site 469604001232 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 469604001233 GTP-binding protein Der; Reviewed; Region: PRK00093 469604001234 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 469604001235 G1 box; other site 469604001236 GTP/Mg2+ binding site [chemical binding]; other site 469604001237 Switch I region; other site 469604001238 G2 box; other site 469604001239 Switch II region; other site 469604001240 G3 box; other site 469604001241 G4 box; other site 469604001242 G5 box; other site 469604001243 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 469604001244 G1 box; other site 469604001245 GTP/Mg2+ binding site [chemical binding]; other site 469604001246 Switch I region; other site 469604001247 G2 box; other site 469604001248 G3 box; other site 469604001249 Switch II region; other site 469604001250 G4 box; other site 469604001251 G5 box; other site 469604001252 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 469604001253 S4 RNA-binding domain; Region: S4; smart00363 469604001254 RNA binding surface [nucleotide binding]; other site 469604001255 TIGR03545 family protein; Region: TIGR03545 469604001256 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 469604001257 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 469604001258 FMN binding site [chemical binding]; other site 469604001259 substrate binding site [chemical binding]; other site 469604001260 putative catalytic residue [active] 469604001261 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 469604001262 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 469604001263 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 469604001264 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 469604001265 Switch I; other site 469604001266 Switch II; other site 469604001267 Septum formation topological specificity factor [Cell division and chromosome partitioning]; Region: MinE; COG0851 469604001268 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469604001269 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 469604001270 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469604001271 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469604001272 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 469604001273 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469604001274 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469604001275 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 469604001276 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 469604001277 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469604001278 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 469604001279 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 469604001280 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 469604001281 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 469604001282 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 469604001283 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 469604001284 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 469604001285 NAD binding site [chemical binding]; other site 469604001286 Predicted dehydrogenase [General function prediction only]; Region: COG0579 469604001287 hydroxyglutarate oxidase; Provisional; Region: PRK11728 469604001288 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 469604001289 P-loop containing region of AAA domain; Region: AAA_29; cl17516 469604001290 AAA domain; Region: AAA_21; pfam13304 469604001291 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 469604001292 putative active site [active] 469604001293 putative metal-binding site [ion binding]; other site 469604001294 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 469604001295 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 469604001296 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 469604001297 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469604001298 catalytic residues [active] 469604001299 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 469604001300 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 469604001301 SelR domain; Region: SelR; pfam01641 469604001302 Response regulator receiver domain; Region: Response_reg; pfam00072 469604001303 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 469604001304 active site 469604001305 phosphorylation site [posttranslational modification] 469604001306 intermolecular recognition site; other site 469604001307 dimerization interface [polypeptide binding]; other site 469604001308 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469604001309 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469604001310 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 469604001311 Cache domain; Region: Cache_1; pfam02743 469604001312 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 469604001313 dimerization interface [polypeptide binding]; other site 469604001314 Histidine kinase; Region: His_kinase; pfam06580 469604001315 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 469604001316 ATP binding site [chemical binding]; other site 469604001317 Mg2+ binding site [ion binding]; other site 469604001318 G-X-G motif; other site 469604001319 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469604001320 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_21; cd08520 469604001321 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469604001322 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 469604001323 dimer interface [polypeptide binding]; other site 469604001324 conserved gate region; other site 469604001325 putative PBP binding loops; other site 469604001326 ABC-ATPase subunit interface; other site 469604001327 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469604001328 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 469604001329 dimer interface [polypeptide binding]; other site 469604001330 conserved gate region; other site 469604001331 putative PBP binding loops; other site 469604001332 ABC-ATPase subunit interface; other site 469604001333 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 469604001334 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604001335 Walker A/P-loop; other site 469604001336 ATP binding site [chemical binding]; other site 469604001337 Q-loop/lid; other site 469604001338 ABC transporter signature motif; other site 469604001339 Walker B; other site 469604001340 D-loop; other site 469604001341 H-loop/switch region; other site 469604001342 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 469604001343 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604001344 Walker A/P-loop; other site 469604001345 ATP binding site [chemical binding]; other site 469604001346 Q-loop/lid; other site 469604001347 ABC transporter signature motif; other site 469604001348 Walker B; other site 469604001349 D-loop; other site 469604001350 H-loop/switch region; other site 469604001351 Predicted transcriptional regulators [Transcription]; Region: COG1695 469604001352 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 469604001353 Transcriptional regulator PadR-like family; Region: PadR; cl17335 469604001354 putative DNA binding helix; other site 469604001355 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 469604001356 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 469604001357 S-adenosylmethionine binding site [chemical binding]; other site 469604001358 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 469604001359 HTH domain; Region: HTH_11; cl17392 469604001360 PRD domain; Region: PRD; pfam00874 469604001361 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 469604001362 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 469604001363 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 469604001364 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 469604001365 carboxyltransferase (CT) interaction site; other site 469604001366 biotinylation site [posttranslational modification]; other site 469604001367 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 469604001368 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 469604001369 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 469604001370 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 469604001371 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 469604001372 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 469604001373 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 469604001374 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 469604001375 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 469604001376 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 469604001377 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 469604001378 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 469604001379 Protein of unknown function, DUF479; Region: DUF479; cl01203 469604001380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604001381 Walker A/P-loop; other site 469604001382 ATP binding site [chemical binding]; other site 469604001383 AAA domain; Region: AAA_21; pfam13304 469604001384 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 469604001385 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 469604001386 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 469604001387 active site 469604001388 putative DNA-binding cleft [nucleotide binding]; other site 469604001389 dimer interface [polypeptide binding]; other site 469604001390 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 469604001391 MgtC family; Region: MgtC; pfam02308 469604001392 short chain dehydrogenase; Provisional; Region: PRK06101 469604001393 classical (c) SDRs; Region: SDR_c; cd05233 469604001394 NAD(P) binding site [chemical binding]; other site 469604001395 active site 469604001396 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 469604001397 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 469604001398 non-specific DNA interactions [nucleotide binding]; other site 469604001399 DNA binding site [nucleotide binding] 469604001400 sequence specific DNA binding site [nucleotide binding]; other site 469604001401 putative cAMP binding site [chemical binding]; other site 469604001402 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 469604001403 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 469604001404 catalytic triad [active] 469604001405 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 469604001406 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 469604001407 active site 469604001408 phosphorylation site [posttranslational modification] 469604001409 intermolecular recognition site; other site 469604001410 dimerization interface [polypeptide binding]; other site 469604001411 LytTr DNA-binding domain; Region: LytTR; pfam04397 469604001412 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 469604001413 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 469604001414 Histidine kinase; Region: His_kinase; pfam06580 469604001415 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 469604001416 Carbon starvation protein CstA; Region: CstA; pfam02554 469604001417 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 469604001418 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 469604001419 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 469604001420 Competence protein; Region: Competence; pfam03772 469604001421 excinuclease ABC subunit B; Provisional; Region: PRK05298 469604001422 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 469604001423 ATP binding site [chemical binding]; other site 469604001424 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 469604001425 nucleotide binding region [chemical binding]; other site 469604001426 ATP-binding site [chemical binding]; other site 469604001427 Ultra-violet resistance protein B; Region: UvrB; pfam12344 469604001428 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 469604001429 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 469604001430 Walker A/P-loop; other site 469604001431 ATP binding site [chemical binding]; other site 469604001432 Q-loop/lid; other site 469604001433 ABC transporter signature motif; other site 469604001434 Walker B; other site 469604001435 D-loop; other site 469604001436 H-loop/switch region; other site 469604001437 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; cl17432 469604001438 NMT1/THI5 like; Region: NMT1; pfam09084 469604001439 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 469604001440 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 469604001441 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 469604001442 dimer interface [polypeptide binding]; other site 469604001443 conserved gate region; other site 469604001444 putative PBP binding loops; other site 469604001445 ABC-ATPase subunit interface; other site 469604001446 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 469604001447 Amidinotransferase; Region: Amidinotransf; pfam02274 469604001448 Thymidylate synthase [Nucleotide transport and metabolism]; Region: ThyA; COG0207 469604001449 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 469604001450 dimerization interface [polypeptide binding]; other site 469604001451 active site 469604001452 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 469604001453 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 469604001454 folate binding site [chemical binding]; other site 469604001455 NADP+ binding site [chemical binding]; other site 469604001456 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 469604001457 TrkA-N domain; Region: TrkA_N; pfam02254 469604001458 TrkA-C domain; Region: TrkA_C; pfam02080 469604001459 TrkA-N domain; Region: TrkA_N; pfam02254 469604001460 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 469604001461 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 469604001462 active site 469604001463 NTP binding site [chemical binding]; other site 469604001464 metal binding triad [ion binding]; metal-binding site 469604001465 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 469604001466 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469604001467 Zn2+ binding site [ion binding]; other site 469604001468 Mg2+ binding site [ion binding]; other site 469604001469 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 469604001470 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 469604001471 metal-binding site [ion binding] 469604001472 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 469604001473 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 469604001474 metal-binding site [ion binding] 469604001475 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469604001476 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 469604001477 motif II; other site 469604001478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604001479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604001480 Adhesion protein FadA; Region: FadA; pfam09403 469604001481 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 469604001482 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469604001483 ligand binding site [chemical binding]; other site 469604001484 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604001485 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 469604001486 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469604001487 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 469604001488 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 469604001489 metal-binding site [ion binding] 469604001490 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 469604001491 dimerization interface [polypeptide binding]; other site 469604001492 putative DNA binding site [nucleotide binding]; other site 469604001493 putative Zn2+ binding site [ion binding]; other site 469604001494 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469604001495 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469604001496 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 469604001497 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 469604001498 catalytic triad [active] 469604001499 putative active site [active] 469604001500 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 469604001501 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 469604001502 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604001503 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 469604001504 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 469604001505 FAD binding site [chemical binding]; other site 469604001506 homotetramer interface [polypeptide binding]; other site 469604001507 substrate binding pocket [chemical binding]; other site 469604001508 catalytic base [active] 469604001509 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 469604001510 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469604001511 Rubredoxin; Region: Rubredoxin; pfam00301 469604001512 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 469604001513 iron binding site [ion binding]; other site 469604001514 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 469604001515 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469604001516 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469604001517 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 469604001518 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 469604001519 dimer interface [polypeptide binding]; other site 469604001520 PYR/PP interface [polypeptide binding]; other site 469604001521 TPP binding site [chemical binding]; other site 469604001522 substrate binding site [chemical binding]; other site 469604001523 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 469604001524 Domain of unknown function; Region: EKR; smart00890 469604001525 4Fe-4S binding domain; Region: Fer4; pfam00037 469604001526 4Fe-4S binding domain; Region: Fer4; pfam00037 469604001527 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 469604001528 TPP-binding site [chemical binding]; other site 469604001529 dimer interface [polypeptide binding]; other site 469604001530 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 469604001531 methionine gamma-lyase; Provisional; Region: PRK06234 469604001532 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 469604001533 homodimer interface [polypeptide binding]; other site 469604001534 substrate-cofactor binding pocket; other site 469604001535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604001536 catalytic residue [active] 469604001537 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 469604001538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469604001539 DNA-binding site [nucleotide binding]; DNA binding site 469604001540 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 469604001541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604001542 homodimer interface [polypeptide binding]; other site 469604001543 catalytic residue [active] 469604001544 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 469604001545 intersubunit interface [polypeptide binding]; other site 469604001546 active site 469604001547 Zn2+ binding site [ion binding]; other site 469604001548 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 469604001549 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469604001550 DNA-binding site [nucleotide binding]; DNA binding site 469604001551 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 469604001552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604001553 homodimer interface [polypeptide binding]; other site 469604001554 catalytic residue [active] 469604001555 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 469604001556 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 469604001557 dimer interface [polypeptide binding]; other site 469604001558 active site 469604001559 metal binding site [ion binding]; metal-binding site 469604001560 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 469604001561 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 469604001562 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 469604001563 Predicted kinase [General function prediction only]; Region: COG4857; cl17281 469604001564 Phosphotransferase enzyme family; Region: APH; pfam01636 469604001565 threonine dehydratase; Provisional; Region: PRK08198 469604001566 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 469604001567 tetramer interface [polypeptide binding]; other site 469604001568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604001569 catalytic residue [active] 469604001570 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 469604001571 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469604001572 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 469604001573 glutaminase A; Region: Gln_ase; TIGR03814 469604001574 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 469604001575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2739 469604001576 signal recognition particle protein; Provisional; Region: PRK10867 469604001577 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 469604001578 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 469604001579 P loop; other site 469604001580 GTP binding site [chemical binding]; other site 469604001581 Signal peptide binding domain; Region: SRP_SPB; pfam02978 469604001582 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 469604001583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469604001584 Coenzyme A binding pocket [chemical binding]; other site 469604001585 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 469604001586 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 469604001587 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 469604001588 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 469604001589 ATP binding site [chemical binding]; other site 469604001590 putative Mg++ binding site [ion binding]; other site 469604001591 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 469604001592 nucleotide binding region [chemical binding]; other site 469604001593 ATP-binding site [chemical binding]; other site 469604001594 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 469604001595 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 469604001596 active site 469604001597 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 469604001598 DpnII restriction endonuclease; Region: DpnII; pfam04556 469604001599 Restriction endonuclease; Region: Mrr_cat; pfam04471 469604001600 DNA methylase; Region: N6_N4_Mtase; cl17433 469604001601 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 469604001602 S-adenosylmethionine binding site [chemical binding]; other site 469604001603 DNA methylase; Region: N6_N4_Mtase; cl17433 469604001604 SWIM zinc finger; Region: SWIM; pfam04434 469604001605 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 469604001606 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 469604001607 Walker A motif; other site 469604001608 ATP binding site [chemical binding]; other site 469604001609 Walker B motif; other site 469604001610 arginine finger; other site 469604001611 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 469604001612 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; cl00057 469604001613 metal ion-dependent adhesion site (MIDAS); other site 469604001614 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604001615 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 469604001616 citrate lyase, beta subunit; Region: citE; TIGR01588 469604001617 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 469604001618 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 469604001619 oxaloacetate decarboxylase; Provisional; Region: PRK12331 469604001620 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 469604001621 active site 469604001622 catalytic residues [active] 469604001623 metal binding site [ion binding]; metal-binding site 469604001624 homodimer binding site [polypeptide binding]; other site 469604001625 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 469604001626 Propionate catabolism activator; Region: PrpR_N; pfam06506 469604001627 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469604001628 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 469604001629 putative deacylase active site [active] 469604001630 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469604001631 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 469604001632 RNA binding surface [nucleotide binding]; other site 469604001633 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469604001634 active site 469604001635 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 469604001636 RNA/DNA hybrid binding site [nucleotide binding]; other site 469604001637 active site 469604001638 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 469604001639 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 469604001640 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469604001641 active site 469604001642 triosephosphate isomerase; Provisional; Region: PRK14567 469604001643 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 469604001644 substrate binding site [chemical binding]; other site 469604001645 dimer interface [polypeptide binding]; other site 469604001646 catalytic triad [active] 469604001647 GTP-binding protein YchF; Reviewed; Region: PRK09601 469604001648 YchF GTPase; Region: YchF; cd01900 469604001649 G1 box; other site 469604001650 GTP/Mg2+ binding site [chemical binding]; other site 469604001651 Switch I region; other site 469604001652 G2 box; other site 469604001653 Switch II region; other site 469604001654 G3 box; other site 469604001655 G4 box; other site 469604001656 G5 box; other site 469604001657 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 469604001658 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 469604001659 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469604001660 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604001661 Walker A/P-loop; other site 469604001662 ATP binding site [chemical binding]; other site 469604001663 Q-loop/lid; other site 469604001664 ABC transporter signature motif; other site 469604001665 Walker B; other site 469604001666 D-loop; other site 469604001667 H-loop/switch region; other site 469604001668 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 469604001669 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604001670 Walker A/P-loop; other site 469604001671 ATP binding site [chemical binding]; other site 469604001672 Q-loop/lid; other site 469604001673 ABC transporter signature motif; other site 469604001674 Walker B; other site 469604001675 D-loop; other site 469604001676 H-loop/switch region; other site 469604001677 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469604001678 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 469604001679 dimer interface [polypeptide binding]; other site 469604001680 conserved gate region; other site 469604001681 putative PBP binding loops; other site 469604001682 ABC-ATPase subunit interface; other site 469604001683 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469604001684 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 469604001685 dimer interface [polypeptide binding]; other site 469604001686 conserved gate region; other site 469604001687 putative PBP binding loops; other site 469604001688 ABC-ATPase subunit interface; other site 469604001689 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469604001690 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_11; cd08516 469604001691 Predicted membrane protein [Function unknown]; Region: COG4393 469604001692 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 469604001693 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469604001694 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 469604001695 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469604001696 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 469604001697 FtsX-like permease family; Region: FtsX; pfam02687 469604001698 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469604001699 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469604001700 Walker A/P-loop; other site 469604001701 ATP binding site [chemical binding]; other site 469604001702 Q-loop/lid; other site 469604001703 ABC transporter signature motif; other site 469604001704 Walker B; other site 469604001705 D-loop; other site 469604001706 H-loop/switch region; other site 469604001707 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 469604001708 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 469604001709 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 469604001710 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469604001711 FtsX-like permease family; Region: FtsX; pfam02687 469604001712 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469604001713 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469604001714 Walker A/P-loop; other site 469604001715 ATP binding site [chemical binding]; other site 469604001716 Q-loop/lid; other site 469604001717 ABC transporter signature motif; other site 469604001718 Walker B; other site 469604001719 D-loop; other site 469604001720 H-loop/switch region; other site 469604001721 Uncharacterized conserved protein [Function unknown]; Region: COG1359 469604001722 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 469604001723 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 469604001724 YARHG domain; Region: YARHG; pfam13308 469604001725 AAA domain; Region: AAA_14; pfam13173 469604001726 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 469604001727 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 469604001728 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 469604001729 active site 469604001730 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 469604001731 peptide chain release factor 2; Provisional; Region: PRK05589 469604001732 This domain is found in peptide chain release factors; Region: PCRF; smart00937 469604001733 RF-1 domain; Region: RF-1; pfam00472 469604001734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604001735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604001736 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 469604001737 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 469604001738 active site 469604001739 HIGH motif; other site 469604001740 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 469604001741 active site 469604001742 KMSKS motif; other site 469604001743 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 469604001744 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 469604001745 active site 469604001746 HIGH motif; other site 469604001747 dimer interface [polypeptide binding]; other site 469604001748 KMSKS motif; other site 469604001749 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 469604001750 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 469604001751 active site 469604001752 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469604001753 dimer interface [polypeptide binding]; other site 469604001754 substrate binding site [chemical binding]; other site 469604001755 catalytic residues [active] 469604001756 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 469604001757 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 469604001758 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 469604001759 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 469604001760 6-phosphofructokinase; Provisional; Region: PRK03202 469604001761 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 469604001762 active site 469604001763 ADP/pyrophosphate binding site [chemical binding]; other site 469604001764 dimerization interface [polypeptide binding]; other site 469604001765 allosteric effector site; other site 469604001766 fructose-1,6-bisphosphate binding site; other site 469604001767 hypothetical protein; Provisional; Region: PRK05423 469604001768 recombination protein RecR; Reviewed; Region: recR; PRK00076 469604001769 RecR protein; Region: RecR; pfam02132 469604001770 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 469604001771 putative active site [active] 469604001772 putative metal-binding site [ion binding]; other site 469604001773 tetramer interface [polypeptide binding]; other site 469604001774 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_c; cd10311 469604001775 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 469604001776 putative active site [active] 469604001777 catalytic site [active] 469604001778 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 469604001779 ATP binding site [chemical binding]; other site 469604001780 putative Mg++ binding site [ion binding]; other site 469604001781 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 469604001782 nucleotide binding region [chemical binding]; other site 469604001783 ATP-binding site [chemical binding]; other site 469604001784 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 469604001785 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 469604001786 DNA methylase; Region: N6_N4_Mtase; cl17433 469604001787 DNA methylase; Region: N6_N4_Mtase; pfam01555 469604001788 DNA methylase; Region: N6_N4_Mtase; cl17433 469604001789 Abi-like protein; Region: Abi_2; cl01988 469604001790 DNA methylase; Region: N6_N4_Mtase; cl17433 469604001791 DNA methylase; Region: N6_N4_Mtase; cl17433 469604001792 Restriction endonuclease [Defense mechanisms]; Region: COG3587 469604001793 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 469604001794 ATP binding site [chemical binding]; other site 469604001795 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 469604001796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469604001797 active site 469604001798 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 469604001799 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 469604001800 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 469604001801 dihydroorotase; Validated; Region: pyrC; PRK09357 469604001802 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 469604001803 active site 469604001804 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 469604001805 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 469604001806 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 469604001807 catalytic site [active] 469604001808 subunit interface [polypeptide binding]; other site 469604001809 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 469604001810 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469604001811 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 469604001812 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 469604001813 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 469604001814 ATP-grasp domain; Region: ATP-grasp_4; cl17255 469604001815 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 469604001816 IMP binding site; other site 469604001817 dimer interface [polypeptide binding]; other site 469604001818 interdomain contacts; other site 469604001819 partial ornithine binding site; other site 469604001820 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 469604001821 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 469604001822 FAD binding pocket [chemical binding]; other site 469604001823 FAD binding motif [chemical binding]; other site 469604001824 phosphate binding motif [ion binding]; other site 469604001825 beta-alpha-beta structure motif; other site 469604001826 NAD binding pocket [chemical binding]; other site 469604001827 Iron coordination center [ion binding]; other site 469604001828 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 469604001829 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 469604001830 heterodimer interface [polypeptide binding]; other site 469604001831 active site 469604001832 FMN binding site [chemical binding]; other site 469604001833 homodimer interface [polypeptide binding]; other site 469604001834 substrate binding site [chemical binding]; other site 469604001835 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 469604001836 active site 469604001837 dimer interface [polypeptide binding]; other site 469604001838 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469604001839 active site 469604001840 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 469604001841 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 469604001842 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 469604001843 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 469604001844 active site 469604001845 metal binding site [ion binding]; metal-binding site 469604001846 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 469604001847 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 469604001848 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 469604001849 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 469604001850 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 469604001851 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 469604001852 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 469604001853 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 469604001854 putative active site [active] 469604001855 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 469604001856 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 469604001857 glutaminase active site [active] 469604001858 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 469604001859 dimer interface [polypeptide binding]; other site 469604001860 active site 469604001861 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 469604001862 dimer interface [polypeptide binding]; other site 469604001863 active site 469604001864 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 469604001865 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 469604001866 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 469604001867 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 469604001868 active site 469604001869 Flavin Reductases; Region: FlaRed; cl00801 469604001870 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 469604001871 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 469604001872 NAD(P) binding site [chemical binding]; other site 469604001873 catalytic residues [active] 469604001874 Rubrerythrin [Energy production and conversion]; Region: COG1592 469604001875 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 469604001876 binuclear metal center [ion binding]; other site 469604001877 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 469604001878 iron binding site [ion binding]; other site 469604001879 Putative glycosyl hydrolase domain; Region: DUF4015; cl17870 469604001880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604001881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604001882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604001883 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 469604001884 dimer interface [polypeptide binding]; other site 469604001885 active site 469604001886 Schiff base residues; other site 469604001887 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 469604001888 30S subunit binding site; other site 469604001889 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 469604001890 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 469604001891 ATP binding site [chemical binding]; other site 469604001892 Mg2+ binding site [ion binding]; other site 469604001893 G-X-G motif; other site 469604001894 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 469604001895 ATP binding site [chemical binding]; other site 469604001896 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 469604001897 Uncharacterized conserved protein [Function unknown]; Region: COG1576 469604001898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 469604001899 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 469604001900 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 469604001901 dimer interface [polypeptide binding]; other site 469604001902 putative anticodon binding site; other site 469604001903 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 469604001904 motif 1; other site 469604001905 active site 469604001906 motif 2; other site 469604001907 motif 3; other site 469604001908 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 469604001909 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 469604001910 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 469604001911 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 469604001912 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 469604001913 flavodoxin FldA; Validated; Region: PRK09267 469604001914 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 469604001915 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 469604001916 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 469604001917 Protein export membrane protein; Region: SecD_SecF; cl14618 469604001918 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 469604001919 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 469604001920 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 469604001921 FeS/SAM binding site; other site 469604001922 TRAM domain; Region: TRAM; pfam01938 469604001923 Transcription termination factor [Transcription]; Region: Rho; COG1158 469604001924 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 469604001925 RNA binding site [nucleotide binding]; other site 469604001926 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 469604001927 Walker A motif; other site 469604001928 ATP binding site [chemical binding]; other site 469604001929 Walker B motif; other site 469604001930 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 469604001931 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 469604001932 Peptidase family M23; Region: Peptidase_M23; pfam01551 469604001933 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 469604001934 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 469604001935 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 469604001936 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 469604001937 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469604001938 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 469604001939 DNA binding residues [nucleotide binding] 469604001940 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 469604001941 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469604001942 active site 469604001943 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 469604001944 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 469604001945 (R)-2-Hydroxyglutarate Dehydrogenase and related dehydrogenases, NAD-binding and catalytic domains; Region: HGDH_like; cd12184 469604001946 putative homodimer interface [polypeptide binding]; other site 469604001947 putative ligand binding site [chemical binding]; other site 469604001948 putative NAD binding site [chemical binding]; other site 469604001949 catalytic site [active] 469604001950 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 469604001951 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 469604001952 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 469604001953 NAD(P) binding site [chemical binding]; other site 469604001954 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 469604001955 Predicted membrane protein [Function unknown]; Region: COG2035 469604001956 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 469604001957 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 469604001958 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469604001959 catalytic residue [active] 469604001960 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 469604001961 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 469604001962 NAD(P) binding site [chemical binding]; other site 469604001963 homotetramer interface [polypeptide binding]; other site 469604001964 homodimer interface [polypeptide binding]; other site 469604001965 active site 469604001966 putative acyltransferase; Provisional; Region: PRK05790 469604001967 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 469604001968 dimer interface [polypeptide binding]; other site 469604001969 active site 469604001970 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 469604001971 Autotransporter beta-domain; Region: Autotransporter; smart00869 469604001972 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469604001973 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 469604001974 N-terminal plug; other site 469604001975 ligand-binding site [chemical binding]; other site 469604001976 TM1410 hypothetical-related protein; Region: DUF297; cl00997 469604001977 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 469604001978 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 469604001979 homodimer interface [polypeptide binding]; other site 469604001980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604001981 catalytic residue [active] 469604001982 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 469604001983 Arginase family; Region: Arginase; cd09989 469604001984 active site 469604001985 Mn binding site [ion binding]; other site 469604001986 oligomer interface [polypeptide binding]; other site 469604001987 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 469604001988 active site 469604001989 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469604001990 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469604001991 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 469604001992 dimerization interface [polypeptide binding]; other site 469604001993 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 469604001994 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 469604001995 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 469604001996 catalytic triad [active] 469604001997 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 469604001998 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 469604001999 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 469604002000 active site 469604002001 HIGH motif; other site 469604002002 KMSK motif region; other site 469604002003 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 469604002004 tRNA binding surface [nucleotide binding]; other site 469604002005 anticodon binding site; other site 469604002006 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 469604002007 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 469604002008 active site 469604002009 nucleophile elbow; other site 469604002010 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 469604002011 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 469604002012 putative ligand binding site [chemical binding]; other site 469604002013 putative NAD binding site [chemical binding]; other site 469604002014 catalytic site [active] 469604002015 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 469604002016 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469604002017 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469604002018 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 469604002019 flavodoxin, short chain; Region: flav_short; TIGR01753 469604002020 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 469604002021 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 469604002022 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469604002023 HlyD family secretion protein; Region: HlyD_3; pfam13437 469604002024 Outer membrane efflux protein; Region: OEP; pfam02321 469604002025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604002026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604002027 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 469604002028 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604002029 AAA domain; Region: AAA_23; pfam13476 469604002030 Walker A/P-loop; other site 469604002031 ATP binding site [chemical binding]; other site 469604002032 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 469604002033 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604002034 Q-loop/lid; other site 469604002035 ABC transporter signature motif; other site 469604002036 Walker B; other site 469604002037 D-loop; other site 469604002038 H-loop/switch region; other site 469604002039 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 469604002040 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 469604002041 active site 469604002042 metal binding site [ion binding]; metal-binding site 469604002043 DNA binding site [nucleotide binding] 469604002044 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 469604002045 Part of AAA domain; Region: AAA_19; pfam13245 469604002046 Family description; Region: UvrD_C_2; pfam13538 469604002047 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 469604002048 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 469604002049 Transglycosylase; Region: Transgly; pfam00912 469604002050 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 469604002051 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469604002052 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 469604002053 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 469604002054 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 469604002055 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 469604002056 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 469604002057 DNA-binding site [nucleotide binding]; DNA binding site 469604002058 RNA-binding motif; other site 469604002059 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 469604002060 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 469604002061 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 469604002062 Predicted membrane protein [Function unknown]; Region: COG2855 469604002063 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 469604002064 DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]; Region: DnaN; COG0592 469604002065 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 469604002066 putative DNA binding surface [nucleotide binding]; other site 469604002067 dimer interface [polypeptide binding]; other site 469604002068 beta-clamp/clamp loader binding surface; other site 469604002069 beta-clamp/translesion DNA polymerase binding surface; other site 469604002070 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 469604002071 Preprotein translocase SecG subunit; Region: SecG; pfam03840 469604002072 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 469604002073 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 469604002074 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 469604002075 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 469604002076 inhibitor-cofactor binding pocket; inhibition site 469604002077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604002078 catalytic residue [active] 469604002079 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 469604002080 putative active site [active] 469604002081 putative metal binding site [ion binding]; other site 469604002082 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 469604002083 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 469604002084 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 469604002085 putative metal binding site; other site 469604002086 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469604002087 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 469604002088 putative active site [active] 469604002089 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469604002090 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 469604002091 putative active site [active] 469604002092 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 469604002093 active site 469604002094 ATP binding site [chemical binding]; other site 469604002095 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469604002096 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 469604002097 putative active site [active] 469604002098 recombinase A; Provisional; Region: recA; PRK09354 469604002099 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 469604002100 hexamer interface [polypeptide binding]; other site 469604002101 Walker A motif; other site 469604002102 ATP binding site [chemical binding]; other site 469604002103 Walker B motif; other site 469604002104 RecX family; Region: RecX; cl00936 469604002105 UGMP family protein; Validated; Region: PRK09604 469604002106 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469604002107 nucleotide binding site [chemical binding]; other site 469604002108 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469604002109 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 469604002110 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 469604002111 metal ion-dependent adhesion site (MIDAS); other site 469604002112 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 469604002113 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 469604002114 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 469604002115 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 469604002116 active site 469604002117 substrate binding site [chemical binding]; other site 469604002118 metal binding site [ion binding]; metal-binding site 469604002119 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 469604002120 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 469604002121 FeS/SAM binding site; other site 469604002122 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 469604002123 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 469604002124 catalytic residue [active] 469604002125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 469604002126 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 469604002127 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 469604002128 Ligand Binding Site [chemical binding]; other site 469604002129 Domain of unknown function (DUF814); Region: DUF814; pfam05670 469604002130 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 469604002131 DNA protecting protein DprA; Region: dprA; TIGR00732 469604002132 Transposase IS200 like; Region: Y1_Tnp; pfam01797 469604002133 Domain of unknown function (DUF4253); Region: DUF4253; pfam14062 469604002134 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 469604002135 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 469604002136 ATP binding site [chemical binding]; other site 469604002137 putative Mg++ binding site [ion binding]; other site 469604002138 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 469604002139 nucleotide binding region [chemical binding]; other site 469604002140 ATP-binding site [chemical binding]; other site 469604002141 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 469604002142 HRDC domain; Region: HRDC; pfam00570 469604002143 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 469604002144 MG2 domain; Region: A2M_N; pfam01835 469604002145 Alpha-2-macroglobulin family; Region: A2M; pfam00207 469604002146 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 469604002147 surface patch; other site 469604002148 thioester region; other site 469604002149 specificity defining residues; other site 469604002150 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 469604002151 Transglycosylase; Region: Transgly; pfam00912 469604002152 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 469604002153 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 469604002154 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 469604002155 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469604002156 FtsX-like permease family; Region: FtsX; pfam02687 469604002157 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469604002158 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469604002159 Walker A/P-loop; other site 469604002160 ATP binding site [chemical binding]; other site 469604002161 Q-loop/lid; other site 469604002162 ABC transporter signature motif; other site 469604002163 Walker B; other site 469604002164 D-loop; other site 469604002165 H-loop/switch region; other site 469604002166 Predicted membrane protein [Function unknown]; Region: COG3212 469604002167 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 469604002168 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 469604002169 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 469604002170 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 469604002171 active site 469604002172 phosphorylation site [posttranslational modification] 469604002173 intermolecular recognition site; other site 469604002174 dimerization interface [polypeptide binding]; other site 469604002175 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 469604002176 DNA binding site [nucleotide binding] 469604002177 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 469604002178 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 469604002179 dimerization interface [polypeptide binding]; other site 469604002180 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 469604002181 dimer interface [polypeptide binding]; other site 469604002182 phosphorylation site [posttranslational modification] 469604002183 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 469604002184 ATP binding site [chemical binding]; other site 469604002185 Mg2+ binding site [ion binding]; other site 469604002186 G-X-G motif; other site 469604002187 Sugar efflux transporter for intercellular exchange; Region: MtN3_slv; pfam03083 469604002188 Predicted transcriptional regulators [Transcription]; Region: COG1733 469604002189 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 469604002190 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 469604002191 Part of AAA domain; Region: AAA_19; pfam13245 469604002192 Family description; Region: UvrD_C_2; pfam13538 469604002193 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 469604002194 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 469604002195 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 469604002196 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 469604002197 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 469604002198 active site 469604002199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 469604002200 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 469604002201 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 469604002202 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469604002203 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604002204 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 469604002205 Walker A/P-loop; other site 469604002206 ATP binding site [chemical binding]; other site 469604002207 Q-loop/lid; other site 469604002208 ABC transporter signature motif; other site 469604002209 Walker B; other site 469604002210 D-loop; other site 469604002211 H-loop/switch region; other site 469604002212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604002213 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469604002214 Zn2+ binding site [ion binding]; other site 469604002215 Mg2+ binding site [ion binding]; other site 469604002216 Exoribonuclease R [Transcription]; Region: VacB; COG0557 469604002217 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 469604002218 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 469604002219 RNB domain; Region: RNB; pfam00773 469604002220 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 469604002221 RNA binding site [nucleotide binding]; other site 469604002222 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 469604002223 SmpB-tmRNA interface; other site 469604002224 Uncharacterized conserved protein [Function unknown]; Region: COG5543 469604002225 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 469604002226 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 469604002227 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 469604002228 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 469604002229 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 469604002230 active site 469604002231 dimer interface [polypeptide binding]; other site 469604002232 motif 1; other site 469604002233 motif 2; other site 469604002234 motif 3; other site 469604002235 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 469604002236 anticodon binding site; other site 469604002237 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 469604002238 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 469604002239 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 469604002240 dimer interface [polypeptide binding]; other site 469604002241 conserved gate region; other site 469604002242 putative PBP binding loops; other site 469604002243 ABC-ATPase subunit interface; other site 469604002244 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 469604002245 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 469604002246 Walker A/P-loop; other site 469604002247 ATP binding site [chemical binding]; other site 469604002248 Q-loop/lid; other site 469604002249 ABC transporter signature motif; other site 469604002250 Walker B; other site 469604002251 D-loop; other site 469604002252 H-loop/switch region; other site 469604002253 NIL domain; Region: NIL; pfam09383 469604002254 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 469604002255 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 469604002256 putative active site [active] 469604002257 putative metal binding site [ion binding]; other site 469604002258 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 469604002259 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 469604002260 FMN binding site [chemical binding]; other site 469604002261 substrate binding site [chemical binding]; other site 469604002262 putative catalytic residue [active] 469604002263 Bacterial SH3 domain; Region: SH3_4; pfam06347 469604002264 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604002265 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 469604002266 PAS fold; Region: PAS; pfam00989 469604002267 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 469604002268 putative active site [active] 469604002269 heme pocket [chemical binding]; other site 469604002270 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 469604002271 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 469604002272 Walker A motif; other site 469604002273 ATP binding site [chemical binding]; other site 469604002274 Walker B motif; other site 469604002275 arginine finger; other site 469604002276 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 469604002277 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 469604002278 NifU-like domain; Region: NifU; cl00484 469604002279 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 469604002280 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 469604002281 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 469604002282 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 469604002283 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 469604002284 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 469604002285 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 469604002286 Predicted membrane protein [Function unknown]; Region: COG2510 469604002287 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 469604002288 Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins...; Region: TroA; cd01016 469604002289 metal binding site [ion binding]; metal-binding site 469604002290 intersubunit interface [polypeptide binding]; other site 469604002291 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 469604002292 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 469604002293 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 469604002294 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 469604002295 ABC-ATPase subunit interface; other site 469604002296 dimer interface [polypeptide binding]; other site 469604002297 putative PBP binding regions; other site 469604002298 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 469604002299 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 469604002300 ABC-ATPase subunit interface; other site 469604002301 dimer interface [polypeptide binding]; other site 469604002302 putative PBP binding regions; other site 469604002303 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 469604002304 putative deacylase active site [active] 469604002305 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 469604002306 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 469604002307 ring oligomerisation interface [polypeptide binding]; other site 469604002308 ATP/Mg binding site [chemical binding]; other site 469604002309 stacking interactions; other site 469604002310 hinge regions; other site 469604002311 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 469604002312 oligomerisation interface [polypeptide binding]; other site 469604002313 mobile loop; other site 469604002314 roof hairpin; other site 469604002315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 469604002316 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 469604002317 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 469604002318 Predicted GTPases [General function prediction only]; Region: COG1162 469604002319 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 469604002320 GTPase/Zn-binding domain interface [polypeptide binding]; other site 469604002321 GTP/Mg2+ binding site [chemical binding]; other site 469604002322 G4 box; other site 469604002323 G5 box; other site 469604002324 G1 box; other site 469604002325 Switch I region; other site 469604002326 G2 box; other site 469604002327 G3 box; other site 469604002328 Switch II region; other site 469604002329 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 469604002330 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 469604002331 substrate binding site [chemical binding]; other site 469604002332 hexamer interface [polypeptide binding]; other site 469604002333 metal binding site [ion binding]; metal-binding site 469604002334 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 469604002335 MarR family; Region: MarR; pfam01047 469604002336 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 469604002337 Domain of unknown function (DUF814); Region: DUF814; pfam05670 469604002338 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 469604002339 hybrid cluster protein; Provisional; Region: PRK05290 469604002340 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 469604002341 ACS interaction site; other site 469604002342 CODH interaction site; other site 469604002343 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 469604002344 hybrid metal cluster; other site 469604002345 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 469604002346 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 469604002347 Na binding site [ion binding]; other site 469604002348 Protein of unknown function (DUF997); Region: DUF997; pfam06196 469604002349 YadA-like C-terminal region; Region: YadA; pfam03895 469604002350 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 469604002351 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 469604002352 FMN binding site [chemical binding]; other site 469604002353 active site 469604002354 catalytic residues [active] 469604002355 substrate binding site [chemical binding]; other site 469604002356 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 469604002357 MutS domain I; Region: MutS_I; pfam01624 469604002358 MutS domain II; Region: MutS_II; pfam05188 469604002359 MutS domain III; Region: MutS_III; pfam05192 469604002360 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 469604002361 Walker A/P-loop; other site 469604002362 ATP binding site [chemical binding]; other site 469604002363 Q-loop/lid; other site 469604002364 ABC transporter signature motif; other site 469604002365 Walker B; other site 469604002366 D-loop; other site 469604002367 H-loop/switch region; other site 469604002368 OstA-like protein; Region: OstA; cl00844 469604002369 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 469604002370 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 469604002371 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 469604002372 Walker A/P-loop; other site 469604002373 ATP binding site [chemical binding]; other site 469604002374 Q-loop/lid; other site 469604002375 ABC transporter signature motif; other site 469604002376 Walker B; other site 469604002377 D-loop; other site 469604002378 H-loop/switch region; other site 469604002379 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 469604002380 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 469604002381 motif 1; other site 469604002382 active site 469604002383 motif 2; other site 469604002384 motif 3; other site 469604002385 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 469604002386 DHHA1 domain; Region: DHHA1; pfam02272 469604002387 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 469604002388 protein-export membrane protein SecD; Region: secD; TIGR01129 469604002389 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 469604002390 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 469604002391 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 469604002392 Protein export membrane protein; Region: SecD_SecF; pfam02355 469604002393 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 469604002394 S-adenosylmethionine binding site [chemical binding]; other site 469604002395 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 469604002396 DNA polymerase I; Provisional; Region: PRK05755 469604002397 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 469604002398 active site 469604002399 metal binding site 1 [ion binding]; metal-binding site 469604002400 putative 5' ssDNA interaction site; other site 469604002401 metal binding site 3; metal-binding site 469604002402 metal binding site 2 [ion binding]; metal-binding site 469604002403 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 469604002404 putative DNA binding site [nucleotide binding]; other site 469604002405 putative metal binding site [ion binding]; other site 469604002406 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 469604002407 substrate binding site [chemical binding]; other site 469604002408 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 469604002409 active site 469604002410 DNA binding site [nucleotide binding] 469604002411 catalytic site [active] 469604002412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 469604002413 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 469604002414 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 469604002415 active site 469604002416 Riboflavin kinase; Region: Flavokinase; smart00904 469604002417 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 469604002418 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 469604002419 MviN-like protein; Region: MVIN; pfam03023 469604002420 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 469604002421 Flavoprotein; Region: Flavoprotein; pfam02441 469604002422 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 469604002423 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 469604002424 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 469604002425 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 469604002426 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 469604002427 active site 469604002428 FMN binding site [chemical binding]; other site 469604002429 substrate binding site [chemical binding]; other site 469604002430 putative catalytic residue [active] 469604002431 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 469604002432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604002433 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 469604002434 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 469604002435 RNA binding surface [nucleotide binding]; other site 469604002436 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 469604002437 active site 469604002438 uracil binding [chemical binding]; other site 469604002439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 469604002440 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 469604002441 elongation factor P; Validated; Region: PRK00529 469604002442 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 469604002443 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 469604002444 RNA binding site [nucleotide binding]; other site 469604002445 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 469604002446 RNA binding site [nucleotide binding]; other site 469604002447 TIR domain; Region: TIR_2; pfam13676 469604002448 FOG: WD40 repeat [General function prediction only]; Region: COG2319 469604002449 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 469604002450 structural tetrad; other site 469604002451 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 469604002452 structural tetrad; other site 469604002453 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 469604002454 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 469604002455 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 469604002456 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 469604002457 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cd09644 469604002458 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 469604002459 tetramer interface [polypeptide binding]; other site 469604002460 putative DNA binding site [nucleotide binding]; other site 469604002461 flavodoxin, long chain; Region: flav_long; TIGR01752 469604002462 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 469604002463 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 469604002464 putative ATP binding site [chemical binding]; other site 469604002465 putative substrate interface [chemical binding]; other site 469604002466 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 469604002467 Fic family protein [Function unknown]; Region: COG3177 469604002468 Fic/DOC family; Region: Fic; pfam02661 469604002469 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 469604002470 catalytic core [active] 469604002471 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 469604002472 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 469604002473 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1323 469604002474 peptidase T; Region: peptidase-T; TIGR01882 469604002475 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 469604002476 metal binding site [ion binding]; metal-binding site 469604002477 dimer interface [polypeptide binding]; other site 469604002478 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 469604002479 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 469604002480 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 469604002481 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 469604002482 S-adenosylmethionine binding site [chemical binding]; other site 469604002483 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 469604002484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604002485 Methenyl tetrahydrofolate cyclohydrolase [Amino acid transport and metabolism]; Region: COG3404 469604002486 imidazolonepropionase; Validated; Region: PRK09356 469604002487 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 469604002488 active site 469604002489 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 469604002490 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 469604002491 Formiminotransferase domain; Region: FTCD; pfam02971 469604002492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 469604002493 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 469604002494 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 469604002495 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 469604002496 DEAD/DEAH box helicase; Region: DEAD; pfam00270 469604002497 DEAD_2; Region: DEAD_2; pfam06733 469604002498 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 469604002499 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 469604002500 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 469604002501 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469604002502 Zn2+ binding site [ion binding]; other site 469604002503 Mg2+ binding site [ion binding]; other site 469604002504 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 469604002505 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 469604002506 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 469604002507 non-specific DNA binding site [nucleotide binding]; other site 469604002508 salt bridge; other site 469604002509 sequence-specific DNA binding site [nucleotide binding]; other site 469604002510 Cupin domain; Region: Cupin_2; pfam07883 469604002511 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 469604002512 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 469604002513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604002514 homodimer interface [polypeptide binding]; other site 469604002515 catalytic residue [active] 469604002516 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 469604002517 dimer interface [polypeptide binding]; other site 469604002518 ADP-ribose binding site [chemical binding]; other site 469604002519 active site 469604002520 nudix motif; other site 469604002521 metal binding site [ion binding]; metal-binding site 469604002522 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 469604002523 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 469604002524 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 469604002525 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 469604002526 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 469604002527 active site 469604002528 homodimer interface [polypeptide binding]; other site 469604002529 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 469604002530 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 469604002531 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 469604002532 GatB domain; Region: GatB_Yqey; smart00845 469604002533 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 469604002534 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 469604002535 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 469604002536 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 469604002537 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 469604002538 RNA binding surface [nucleotide binding]; other site 469604002539 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 469604002540 active site 469604002541 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 469604002542 rod shape-determining protein MreB; Provisional; Region: PRK13930 469604002543 MreB and similar proteins; Region: MreB_like; cd10225 469604002544 nucleotide binding site [chemical binding]; other site 469604002545 Mg binding site [ion binding]; other site 469604002546 putative protofilament interaction site [polypeptide binding]; other site 469604002547 RodZ interaction site [polypeptide binding]; other site 469604002548 Maf-like protein; Region: Maf; pfam02545 469604002549 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 469604002550 active site 469604002551 dimer interface [polypeptide binding]; other site 469604002552 Remorin, C-terminal region; Region: Remorin_C; pfam03763 469604002553 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]; Region: COG1521 469604002554 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; cl17220 469604002555 putative DNA binding site [nucleotide binding]; other site 469604002556 putative Zn2+ binding site [ion binding]; other site 469604002557 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 469604002558 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 469604002559 Ligand Binding Site [chemical binding]; other site 469604002560 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 469604002561 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 469604002562 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 469604002563 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 469604002564 intersubunit interface [polypeptide binding]; other site 469604002565 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469604002566 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 469604002567 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 469604002568 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 469604002569 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 469604002570 ABC-ATPase subunit interface; other site 469604002571 dimer interface [polypeptide binding]; other site 469604002572 putative PBP binding regions; other site 469604002573 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 469604002574 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469604002575 Walker A/P-loop; other site 469604002576 ATP binding site [chemical binding]; other site 469604002577 Q-loop/lid; other site 469604002578 ABC transporter signature motif; other site 469604002579 Walker B; other site 469604002580 D-loop; other site 469604002581 H-loop/switch region; other site 469604002582 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 469604002583 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 469604002584 FeS/SAM binding site; other site 469604002585 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 469604002586 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 469604002587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604002588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604002589 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 469604002590 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 469604002591 active site 469604002592 metal binding site [ion binding]; metal-binding site 469604002593 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 469604002594 dimer interface [polypeptide binding]; other site 469604002595 active site 469604002596 GTP-binding protein LepA; Provisional; Region: PRK05433 469604002597 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 469604002598 G1 box; other site 469604002599 putative GEF interaction site [polypeptide binding]; other site 469604002600 GTP/Mg2+ binding site [chemical binding]; other site 469604002601 Switch I region; other site 469604002602 G2 box; other site 469604002603 G3 box; other site 469604002604 Switch II region; other site 469604002605 G4 box; other site 469604002606 G5 box; other site 469604002607 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 469604002608 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 469604002609 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 469604002610 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469604002611 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 469604002612 S-adenosylmethionine binding site [chemical binding]; other site 469604002613 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 469604002614 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 469604002615 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 469604002616 Uncharacterized conserved protein [Function unknown]; Region: COG3610 469604002617 Uncharacterized conserved protein [Function unknown]; Region: COG2966 469604002618 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 469604002619 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 469604002620 Methyltransferase domain; Region: Methyltransf_26; pfam13659 469604002621 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 469604002622 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 469604002623 FAD binding site [chemical binding]; other site 469604002624 homotetramer interface [polypeptide binding]; other site 469604002625 substrate binding pocket [chemical binding]; other site 469604002626 catalytic base [active] 469604002627 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 469604002628 Ligand binding site [chemical binding]; other site 469604002629 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469604002630 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 469604002631 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 469604002632 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469604002633 Uncharacterized conserved protein [Function unknown]; Region: COG1284 469604002634 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 469604002635 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 469604002636 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 469604002637 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469604002638 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469604002639 nucleotide binding site [chemical binding]; other site 469604002640 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 469604002641 active sites [active] 469604002642 tetramer interface [polypeptide binding]; other site 469604002643 urocanate hydratase; Provisional; Region: PRK05414 469604002644 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 469604002645 HTH domain; Region: HTH_11; pfam08279 469604002646 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; cl15354 469604002647 FOG: CBS domain [General function prediction only]; Region: COG0517 469604002648 pyruvate phosphate dikinase; Provisional; Region: PRK09279 469604002649 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 469604002650 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 469604002651 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 469604002652 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 469604002653 Uncharacterized protein conserved in bacteria [Carbohydrate transport and metabolism]; Region: Fbp; COG3855 469604002654 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 469604002655 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 469604002656 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 469604002657 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 469604002658 active site 469604002659 catalytic site [active] 469604002660 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 469604002661 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 469604002662 substrate binding pocket [chemical binding]; other site 469604002663 membrane-bound complex binding site; other site 469604002664 hinge residues; other site 469604002665 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 469604002666 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 469604002667 Walker A/P-loop; other site 469604002668 ATP binding site [chemical binding]; other site 469604002669 Q-loop/lid; other site 469604002670 ABC transporter signature motif; other site 469604002671 Walker B; other site 469604002672 D-loop; other site 469604002673 H-loop/switch region; other site 469604002674 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 469604002675 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 469604002676 dimer interface [polypeptide binding]; other site 469604002677 conserved gate region; other site 469604002678 putative PBP binding loops; other site 469604002679 ABC-ATPase subunit interface; other site 469604002680 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 469604002681 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 469604002682 catalytic residues [active] 469604002683 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 469604002684 methionine sulfoxide reductase B; Provisional; Region: PRK00222 469604002685 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 469604002686 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 469604002687 A new structural DNA glycosylase; Region: AlkD_like; cd06561 469604002688 active site 469604002689 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 469604002690 Stage II sporulation protein; Region: SpoIID; pfam08486 469604002691 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 469604002692 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 469604002693 Ligand binding site; other site 469604002694 oligomer interface; other site 469604002695 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 469604002696 catalytic core [active] 469604002697 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 469604002698 HsdM N-terminal domain; Region: HsdM_N; pfam12161 469604002699 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 469604002700 Methyltransferase domain; Region: Methyltransf_26; pfam13659 469604002701 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 469604002702 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 469604002703 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 469604002704 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 469604002705 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 469604002706 ATP binding site [chemical binding]; other site 469604002707 putative Mg++ binding site [ion binding]; other site 469604002708 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 469604002709 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 469604002710 tetramer interface [polypeptide binding]; other site 469604002711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604002712 catalytic residue [active] 469604002713 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 469604002714 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 469604002715 IHF dimer interface [polypeptide binding]; other site 469604002716 IHF - DNA interface [nucleotide binding]; other site 469604002717 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604002718 binding surface 469604002719 TPR motif; other site 469604002720 TPR repeat; Region: TPR_11; pfam13414 469604002721 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604002722 binding surface 469604002723 TPR motif; other site 469604002724 TPR repeat; Region: TPR_11; pfam13414 469604002725 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604002726 TPR motif; other site 469604002727 binding surface 469604002728 TPR repeat; Region: TPR_11; pfam13414 469604002729 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 469604002730 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604002731 TPR motif; other site 469604002732 TPR repeat; Region: TPR_11; pfam13414 469604002733 binding surface 469604002734 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 469604002735 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469604002736 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469604002737 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 469604002738 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 469604002739 ADP binding site [chemical binding]; other site 469604002740 magnesium binding site [ion binding]; other site 469604002741 putative shikimate binding site; other site 469604002742 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 469604002743 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 469604002744 HflX GTPase family; Region: HflX; cd01878 469604002745 G1 box; other site 469604002746 GTP/Mg2+ binding site [chemical binding]; other site 469604002747 Switch I region; other site 469604002748 G2 box; other site 469604002749 G3 box; other site 469604002750 Switch II region; other site 469604002751 G4 box; other site 469604002752 G5 box; other site 469604002753 WYL domain; Region: WYL; pfam13280 469604002754 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 469604002755 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469604002756 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 469604002757 HlyD family secretion protein; Region: HlyD_3; pfam13437 469604002758 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469604002759 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 469604002760 Walker A/P-loop; other site 469604002761 ATP binding site [chemical binding]; other site 469604002762 Q-loop/lid; other site 469604002763 ABC transporter signature motif; other site 469604002764 Walker B; other site 469604002765 D-loop; other site 469604002766 H-loop/switch region; other site 469604002767 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 469604002768 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 469604002769 FtsX-like permease family; Region: FtsX; pfam02687 469604002770 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469604002771 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 469604002772 N-terminal plug; other site 469604002773 ligand-binding site [chemical binding]; other site 469604002774 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 469604002775 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 469604002776 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 469604002777 active site 469604002778 DNA binding site [nucleotide binding] 469604002779 Int/Topo IB signature motif; other site 469604002780 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604002781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604002782 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469604002783 Tetratricopeptide repeat; Region: TPR_10; cl17452 469604002784 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469604002785 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604002786 binding surface 469604002787 TPR motif; other site 469604002788 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469604002789 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 469604002790 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 469604002791 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 469604002792 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 469604002793 substrate-cofactor binding pocket; other site 469604002794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604002795 catalytic residue [active] 469604002796 Protein of unknown function (DUF452); Region: DUF452; cl01062 469604002797 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 469604002798 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 469604002799 S-adenosylmethionine binding site [chemical binding]; other site 469604002800 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 469604002801 Methyltransferase domain; Region: Methyltransf_31; pfam13847 469604002802 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 469604002803 S-adenosylmethionine binding site [chemical binding]; other site 469604002804 glycogen synthase; Provisional; Region: glgA; PRK00654 469604002805 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 469604002806 ADP-binding pocket [chemical binding]; other site 469604002807 homodimer interface [polypeptide binding]; other site 469604002808 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 469604002809 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 469604002810 ligand binding site; other site 469604002811 oligomer interface; other site 469604002812 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 469604002813 dimer interface [polypeptide binding]; other site 469604002814 N-terminal domain interface [polypeptide binding]; other site 469604002815 sulfate 1 binding site; other site 469604002816 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 469604002817 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 469604002818 ligand binding site; other site 469604002819 oligomer interface; other site 469604002820 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 469604002821 dimer interface [polypeptide binding]; other site 469604002822 N-terminal domain interface [polypeptide binding]; other site 469604002823 sulfate 1 binding site; other site 469604002824 glycogen branching enzyme; Provisional; Region: PRK12313 469604002825 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 469604002826 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 469604002827 active site 469604002828 catalytic site [active] 469604002829 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 469604002830 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 469604002831 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 469604002832 active site pocket [active] 469604002833 4-alpha-glucanotransferase; Provisional; Region: PRK14508 469604002834 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 469604002835 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 469604002836 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 469604002837 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 469604002838 acyl-activating enzyme (AAE) consensus motif; other site 469604002839 putative AMP binding site [chemical binding]; other site 469604002840 putative active site [active] 469604002841 putative CoA binding site [chemical binding]; other site 469604002842 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 469604002843 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 469604002844 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 469604002845 putative acyl-acceptor binding pocket; other site 469604002846 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 469604002847 Ligand Binding Site [chemical binding]; other site 469604002848 TIGR00269 family protein; Region: TIGR00269 469604002849 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 469604002850 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 469604002851 active site 469604002852 motif I; other site 469604002853 motif II; other site 469604002854 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 469604002855 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469604002856 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 469604002857 active site residue [active] 469604002858 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 469604002859 active site 469604002860 dimer interface [polypeptide binding]; other site 469604002861 metal binding site [ion binding]; metal-binding site 469604002862 exopolyphosphatase; Region: exo_poly_only; TIGR03706 469604002863 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 469604002864 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 469604002865 active site 469604002866 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 469604002867 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 469604002868 tandem repeat interface [polypeptide binding]; other site 469604002869 oligomer interface [polypeptide binding]; other site 469604002870 active site residues [active] 469604002871 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 469604002872 dimer interface [polypeptide binding]; other site 469604002873 active site 469604002874 ADP-ribose binding site [chemical binding]; other site 469604002875 nudix motif; other site 469604002876 metal binding site [ion binding]; metal-binding site 469604002877 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 469604002878 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469604002879 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 469604002880 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 469604002881 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 469604002882 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 469604002883 Na binding site [ion binding]; other site 469604002884 Transcriptional regulators [Transcription]; Region: GntR; COG1802 469604002885 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469604002886 DNA-binding site [nucleotide binding]; DNA binding site 469604002887 FCD domain; Region: FCD; pfam07729 469604002888 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 469604002889 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 469604002890 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 469604002891 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604002892 Walker A/P-loop; other site 469604002893 ATP binding site [chemical binding]; other site 469604002894 Q-loop/lid; other site 469604002895 ABC transporter signature motif; other site 469604002896 Walker B; other site 469604002897 D-loop; other site 469604002898 H-loop/switch region; other site 469604002899 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 469604002900 oligoendopeptidase F; Region: pepF; TIGR00181 469604002901 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 469604002902 active site 469604002903 Zn binding site [ion binding]; other site 469604002904 uracil-xanthine permease; Region: ncs2; TIGR00801 469604002905 Predicted thioesterase [General function prediction only]; Region: COG5496 469604002906 Thiamine pyrophosphokinase; Region: TPK; cd07995 469604002907 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 469604002908 active site 469604002909 dimerization interface [polypeptide binding]; other site 469604002910 thiamine binding site [chemical binding]; other site 469604002911 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 469604002912 putative active site [active] 469604002913 putative catalytic site [active] 469604002914 putative Mg binding site IVb [ion binding]; other site 469604002915 putative phosphate binding site [ion binding]; other site 469604002916 putative DNA binding site [nucleotide binding]; other site 469604002917 putative Mg binding site IVa [ion binding]; other site 469604002918 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 469604002919 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 469604002920 motif II; other site 469604002921 Predicted transcriptional regulator [Transcription]; Region: COG1959 469604002922 Transcriptional regulator; Region: Rrf2; pfam02082 469604002923 YcxB-like protein; Region: YcxB; pfam14317 469604002924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 469604002925 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 469604002926 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 469604002927 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 469604002928 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 469604002929 classical (c) SDRs; Region: SDR_c; cd05233 469604002930 NAD(P) binding site [chemical binding]; other site 469604002931 active site 469604002932 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 469604002933 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 469604002934 Uracil-DNA glycosylase [DNA replication, recombination, and repair]; Region: COG1573 469604002935 ligand binding site [chemical binding]; other site 469604002936 active site 469604002937 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 469604002938 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 469604002939 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 469604002940 KpsF/GutQ family protein; Region: kpsF; TIGR00393 469604002941 putative active site [active] 469604002942 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 469604002943 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 469604002944 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 469604002945 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469604002946 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 469604002947 N-terminal plug; other site 469604002948 ligand-binding site [chemical binding]; other site 469604002949 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469604002950 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 469604002951 dimer interface [polypeptide binding]; other site 469604002952 conserved gate region; other site 469604002953 putative PBP binding loops; other site 469604002954 ABC-ATPase subunit interface; other site 469604002955 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 469604002956 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 469604002957 ABC-ATPase subunit interface; other site 469604002958 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604002959 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 469604002960 Walker A/P-loop; other site 469604002961 ATP binding site [chemical binding]; other site 469604002962 Q-loop/lid; other site 469604002963 ABC transporter signature motif; other site 469604002964 Walker B; other site 469604002965 D-loop; other site 469604002966 H-loop/switch region; other site 469604002967 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604002968 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469604002969 Walker A/P-loop; other site 469604002970 ATP binding site [chemical binding]; other site 469604002971 Q-loop/lid; other site 469604002972 ABC transporter signature motif; other site 469604002973 Walker B; other site 469604002974 D-loop; other site 469604002975 H-loop/switch region; other site 469604002976 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 469604002977 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469604002978 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 469604002979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 469604002980 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 469604002981 putative efflux protein, MATE family; Region: matE; TIGR00797 469604002982 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 469604002983 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 469604002984 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 469604002985 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 469604002986 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 469604002987 S-adenosylmethionine binding site [chemical binding]; other site 469604002988 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 469604002989 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 469604002990 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 469604002991 MPN+ (JAMM) motif; other site 469604002992 Zinc-binding site [ion binding]; other site 469604002993 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 469604002994 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 469604002995 putative dimer interface [polypeptide binding]; other site 469604002996 active site pocket [active] 469604002997 putative cataytic base [active] 469604002998 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 469604002999 catalytic core [active] 469604003000 cobalamin synthase; Reviewed; Region: cobS; PRK00235 469604003001 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 469604003002 homotrimer interface [polypeptide binding]; other site 469604003003 Walker A motif; other site 469604003004 GTP binding site [chemical binding]; other site 469604003005 Walker B motif; other site 469604003006 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 469604003007 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 469604003008 HPr interaction site; other site 469604003009 glycerol kinase (GK) interaction site [polypeptide binding]; other site 469604003010 active site 469604003011 phosphorylation site [posttranslational modification] 469604003012 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 469604003013 DNA polymerase III, delta subunit; Region: holA; TIGR01128 469604003014 Peptidase family M48; Region: Peptidase_M48; cl12018 469604003015 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 469604003016 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 469604003017 active site 469604003018 substrate binding site [chemical binding]; other site 469604003019 ATP binding site [chemical binding]; other site 469604003020 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 469604003021 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 469604003022 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 469604003023 putative active site [active] 469604003024 catalytic site [active] 469604003025 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 469604003026 putative active site [active] 469604003027 catalytic site [active] 469604003028 SIR2-like domain; Region: SIR2_2; pfam13289 469604003029 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 469604003030 synthetase active site [active] 469604003031 NTP binding site [chemical binding]; other site 469604003032 metal binding site [ion binding]; metal-binding site 469604003033 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 469604003034 Glycoprotease family; Region: Peptidase_M22; pfam00814 469604003035 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 469604003036 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 469604003037 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 469604003038 active site 469604003039 nucleotide binding site [chemical binding]; other site 469604003040 HIGH motif; other site 469604003041 KMSKS motif; other site 469604003042 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 469604003043 putative active site [active] 469604003044 putative CoA binding site [chemical binding]; other site 469604003045 nudix motif; other site 469604003046 metal binding site [ion binding]; metal-binding site 469604003047 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 469604003048 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 469604003049 hinge; other site 469604003050 active site 469604003051 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 469604003052 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 469604003053 Tetramer interface [polypeptide binding]; other site 469604003054 active site 469604003055 FMN-binding site [chemical binding]; other site 469604003056 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604003057 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 469604003058 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 469604003059 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 469604003060 ligand binding site [chemical binding]; other site 469604003061 flexible hinge region; other site 469604003062 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 469604003063 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 469604003064 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 469604003065 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 469604003066 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 469604003067 FAD binding pocket [chemical binding]; other site 469604003068 FAD binding motif [chemical binding]; other site 469604003069 phosphate binding motif [ion binding]; other site 469604003070 beta-alpha-beta structure motif; other site 469604003071 NAD binding pocket [chemical binding]; other site 469604003072 Iron coordination center [ion binding]; other site 469604003073 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 469604003074 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 469604003075 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469604003076 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 469604003077 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 469604003078 active site 469604003079 Protein of unknown function DUF45; Region: DUF45; pfam01863 469604003080 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 469604003081 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 469604003082 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 469604003083 Cation efflux family; Region: Cation_efflux; cl00316 469604003084 AAA domain; Region: AAA_11; pfam13086 469604003085 Part of AAA domain; Region: AAA_19; pfam13245 469604003086 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 469604003087 AAA domain; Region: AAA_12; pfam13087 469604003088 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 469604003089 putative active site [active] 469604003090 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 469604003091 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 469604003092 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 469604003093 active site 469604003094 SAM binding site [chemical binding]; other site 469604003095 homodimer interface [polypeptide binding]; other site 469604003096 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 469604003097 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 469604003098 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 469604003099 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 469604003100 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 469604003101 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 469604003102 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 469604003103 FeS/SAM binding site; other site 469604003104 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 469604003105 Divergent AAA domain; Region: AAA_4; pfam04326 469604003106 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 469604003107 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 469604003108 active site 469604003109 SAM binding site [chemical binding]; other site 469604003110 homodimer interface [polypeptide binding]; other site 469604003111 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 469604003112 active site 469604003113 SAM binding site [chemical binding]; other site 469604003114 homodimer interface [polypeptide binding]; other site 469604003115 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 469604003116 GIY-YIG motif/motif A; other site 469604003117 putative active site [active] 469604003118 putative metal binding site [ion binding]; other site 469604003119 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 469604003120 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 469604003121 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 469604003122 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 469604003123 NAD binding site [chemical binding]; other site 469604003124 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 469604003125 active site 469604003126 putative homodimer interface [polypeptide binding]; other site 469604003127 SAM binding site [chemical binding]; other site 469604003128 Cobalamin biosynthesis protein CbiD [Coenzyme metabolism]; Region: CbiD; COG1903 469604003129 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 469604003130 Precorrin-8X methylmutase; Region: CbiC; pfam02570 469604003131 Fic family protein [Function unknown]; Region: COG3177 469604003132 Fic/DOC family; Region: Fic; pfam02661 469604003133 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 469604003134 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 469604003135 Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]; Region: CobB; COG1797 469604003136 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 469604003137 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 469604003138 catalytic triad [active] 469604003139 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 469604003140 Methyltransferase domain; Region: Methyltransf_26; pfam13659 469604003141 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 469604003142 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 469604003143 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 469604003144 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 469604003145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604003146 homodimer interface [polypeptide binding]; other site 469604003147 catalytic residue [active] 469604003148 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 469604003149 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 469604003150 cobyric acid synthase; Provisional; Region: PRK00784 469604003151 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 469604003152 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 469604003153 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 469604003154 catalytic triad [active] 469604003155 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469604003156 trimer interface [polypeptide binding]; other site 469604003157 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469604003158 trimer interface [polypeptide binding]; other site 469604003159 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469604003160 trimer interface [polypeptide binding]; other site 469604003161 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 469604003162 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 469604003163 Haemagglutinin; Region: HIM; pfam05662 469604003164 YadA-like C-terminal region; Region: YadA; pfam03895 469604003165 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 469604003166 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 469604003167 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 469604003168 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 469604003169 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 469604003170 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 469604003171 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 469604003172 purine monophosphate binding site [chemical binding]; other site 469604003173 dimer interface [polypeptide binding]; other site 469604003174 putative catalytic residues [active] 469604003175 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 469604003176 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 469604003177 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 469604003178 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 469604003179 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 469604003180 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 469604003181 active site 469604003182 substrate binding site [chemical binding]; other site 469604003183 cosubstrate binding site; other site 469604003184 catalytic site [active] 469604003185 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 469604003186 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 469604003187 dimerization interface [polypeptide binding]; other site 469604003188 putative ATP binding site [chemical binding]; other site 469604003189 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 469604003190 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 469604003191 tetramer interface [polypeptide binding]; other site 469604003192 active site 469604003193 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469604003194 active site 469604003195 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 469604003196 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 469604003197 ATP binding site [chemical binding]; other site 469604003198 active site 469604003199 substrate binding site [chemical binding]; other site 469604003200 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 469604003201 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 469604003202 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 469604003203 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 469604003204 dimerization interface [polypeptide binding]; other site 469604003205 ATP binding site [chemical binding]; other site 469604003206 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 469604003207 dimerization interface [polypeptide binding]; other site 469604003208 ATP binding site [chemical binding]; other site 469604003209 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 469604003210 putative active site [active] 469604003211 catalytic triad [active] 469604003212 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 469604003213 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 469604003214 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469604003215 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 469604003216 putative active site [active] 469604003217 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 469604003218 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 469604003219 Predicted integral membrane protein [Function unknown]; Region: COG5522 469604003220 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 469604003221 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 469604003222 RNA/DNA hybrid binding site [nucleotide binding]; other site 469604003223 active site 469604003224 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469604003225 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 469604003226 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 469604003227 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 469604003228 putative oligomer interface [polypeptide binding]; other site 469604003229 putative active site [active] 469604003230 metal binding site [ion binding]; metal-binding site 469604003231 biotin synthase; Region: bioB; TIGR00433 469604003232 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 469604003233 FeS/SAM binding site; other site 469604003234 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 469604003235 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 469604003236 AAA domain; Region: AAA_26; pfam13500 469604003237 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 469604003238 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 469604003239 inhibitor-cofactor binding pocket; inhibition site 469604003240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604003241 catalytic residue [active] 469604003242 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 469604003243 WHG domain; Region: WHG; pfam13305 469604003244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 469604003245 Transposase; Region: DDE_Tnp_ISL3; pfam01610 469604003246 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 469604003247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 469604003248 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 469604003249 DHH family; Region: DHH; pfam01368 469604003250 DHHA1 domain; Region: DHHA1; pfam02272 469604003251 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 469604003252 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 469604003253 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 469604003254 Hpr binding site; other site 469604003255 active site 469604003256 homohexamer subunit interaction site [polypeptide binding]; other site 469604003257 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 469604003258 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 469604003259 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 469604003260 Hpr binding site; other site 469604003261 active site 469604003262 homohexamer subunit interaction site [polypeptide binding]; other site 469604003263 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 469604003264 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469604003265 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469604003266 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 469604003267 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 469604003268 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 469604003269 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 469604003270 putative acyl-acceptor binding pocket; other site 469604003271 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 469604003272 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 469604003273 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 469604003274 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 469604003275 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 469604003276 substrate binding site [chemical binding]; other site 469604003277 oxyanion hole (OAH) forming residues; other site 469604003278 trimer interface [polypeptide binding]; other site 469604003279 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 469604003280 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 469604003281 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 469604003282 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469604003283 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 469604003284 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 469604003285 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 469604003286 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 469604003287 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 469604003288 IHF - DNA interface [nucleotide binding]; other site 469604003289 IHF dimer interface [polypeptide binding]; other site 469604003290 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469604003291 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469604003292 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 469604003293 RNA binding surface [nucleotide binding]; other site 469604003294 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469604003295 active site 469604003296 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 469604003297 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 469604003298 trimer interface [polypeptide binding]; other site 469604003299 active site 469604003300 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 469604003301 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 469604003302 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 469604003303 Predicted permeases [General function prediction only]; Region: COG0795 469604003304 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469604003305 Predicted permeases [General function prediction only]; Region: COG0795 469604003306 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 469604003307 Colicin V production protein; Region: Colicin_V; pfam02674 469604003308 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 469604003309 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 469604003310 putative RNA binding site [nucleotide binding]; other site 469604003311 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 469604003312 S-adenosylmethionine binding site [chemical binding]; other site 469604003313 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 469604003314 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 469604003315 flavodoxin; Provisional; Region: PRK06242 469604003316 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469604003317 EamA-like transporter family; Region: EamA; pfam00892 469604003318 EamA-like transporter family; Region: EamA; pfam00892 469604003319 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 469604003320 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 469604003321 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 469604003322 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 469604003323 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 469604003324 S1 domain; Region: S1_2; pfam13509 469604003325 S1 domain; Region: S1_2; pfam13509 469604003326 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 469604003327 RNA binding site [nucleotide binding]; other site 469604003328 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 469604003329 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 469604003330 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; cl00364 469604003331 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_3; cd07241 469604003332 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469604003333 putative metal binding site [ion binding]; other site 469604003334 Domain of unknown function (DUF3601); Region: DUF3601; pfam12208 469604003335 Domain of unknown function (DUF3601); Region: DUF3601; pfam12208 469604003336 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 469604003337 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 469604003338 dimer interface [polypeptide binding]; other site 469604003339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604003340 catalytic residue [active] 469604003341 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469604003342 Coenzyme A binding pocket [chemical binding]; other site 469604003343 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 469604003344 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 469604003345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 469604003346 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 469604003347 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 469604003348 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 469604003349 metal binding site [ion binding]; metal-binding site 469604003350 dimer interface [polypeptide binding]; other site 469604003351 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 469604003352 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 469604003353 generic binding surface I; other site 469604003354 generic binding surface II; other site 469604003355 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 469604003356 TPR motif; other site 469604003357 binding surface 469604003358 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604003359 binding surface 469604003360 TPR motif; other site 469604003361 TPR repeat; Region: TPR_11; pfam13414 469604003362 DNA protecting protein DprA; Region: dprA; TIGR00732 469604003363 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 469604003364 DNA topoisomerase I; Validated; Region: PRK06599 469604003365 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 469604003366 active site 469604003367 interdomain interaction site; other site 469604003368 putative metal-binding site [ion binding]; other site 469604003369 nucleotide binding site [chemical binding]; other site 469604003370 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 469604003371 domain I; other site 469604003372 DNA binding groove [nucleotide binding] 469604003373 phosphate binding site [ion binding]; other site 469604003374 domain II; other site 469604003375 domain III; other site 469604003376 nucleotide binding site [chemical binding]; other site 469604003377 catalytic site [active] 469604003378 domain IV; other site 469604003379 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 469604003380 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 469604003381 Glucose inhibited division protein A; Region: GIDA; pfam01134 469604003382 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 469604003383 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 469604003384 active site 469604003385 Int/Topo IB signature motif; other site 469604003386 DNA binding site [nucleotide binding] 469604003387 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 469604003388 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 469604003389 GTP/Mg2+ binding site [chemical binding]; other site 469604003390 G4 box; other site 469604003391 G5 box; other site 469604003392 G1 box; other site 469604003393 Switch I region; other site 469604003394 G2 box; other site 469604003395 G3 box; other site 469604003396 Switch II region; other site 469604003397 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 469604003398 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 469604003399 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 469604003400 GTP binding site [chemical binding]; other site 469604003401 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 469604003402 PGAP1-like protein; Region: PGAP1; pfam07819 469604003403 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 469604003404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604003405 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 469604003406 Ferritin-like domain; Region: Ferritin; pfam00210 469604003407 dimerization interface [polypeptide binding]; other site 469604003408 DPS ferroxidase diiron center [ion binding]; other site 469604003409 ion pore; other site 469604003410 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469604003411 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604003412 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 469604003413 Walker A/P-loop; other site 469604003414 ATP binding site [chemical binding]; other site 469604003415 Q-loop/lid; other site 469604003416 ABC transporter signature motif; other site 469604003417 Walker B; other site 469604003418 D-loop; other site 469604003419 H-loop/switch region; other site 469604003420 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 469604003421 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 469604003422 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 469604003423 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 469604003424 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 469604003425 DJ-1 family protein; Region: not_thiJ; TIGR01383 469604003426 conserved cys residue [active] 469604003427 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 469604003428 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469604003429 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 469604003430 AAA domain; Region: AAA_22; pfam13401 469604003431 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 469604003432 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 469604003433 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 469604003434 GIY-YIG motif/motif A; other site 469604003435 active site 469604003436 catalytic site [active] 469604003437 putative DNA binding site [nucleotide binding]; other site 469604003438 metal binding site [ion binding]; metal-binding site 469604003439 UvrB/uvrC motif; Region: UVR; pfam02151 469604003440 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 469604003441 GAF domain; Region: GAF_3; pfam13492 469604003442 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 469604003443 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 469604003444 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 469604003445 Predicted transcriptional regulator [Transcription]; Region: COG1959 469604003446 Transcriptional regulator; Region: Rrf2; pfam02082 469604003447 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 469604003448 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 469604003449 Putative Catalytic site; other site 469604003450 DXD motif; other site 469604003451 Predicted membrane protein [Function unknown]; Region: COG2246 469604003452 GtrA-like protein; Region: GtrA; pfam04138 469604003453 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 469604003454 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 469604003455 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 469604003456 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 469604003457 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 469604003458 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 469604003459 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 469604003460 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 469604003461 RuvA N terminal domain; Region: RuvA_N; pfam01330 469604003462 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 469604003463 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 469604003464 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 469604003465 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 469604003466 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469604003467 Coenzyme A binding pocket [chemical binding]; other site 469604003468 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 469604003469 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 469604003470 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 469604003471 catalytic triad [active] 469604003472 active site nucleophile [active] 469604003473 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 469604003474 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 469604003475 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 469604003476 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 469604003477 Transposase IS200 like; Region: Y1_Tnp; pfam01797 469604003478 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 469604003479 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 469604003480 active site 469604003481 substrate-binding site [chemical binding]; other site 469604003482 metal-binding site [ion binding] 469604003483 ATP binding site [chemical binding]; other site 469604003484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 469604003485 hypothetical protein; Provisional; Region: PRK13663 469604003486 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 469604003487 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 469604003488 acyl-activating enzyme (AAE) consensus motif; other site 469604003489 putative AMP binding site [chemical binding]; other site 469604003490 putative active site [active] 469604003491 putative CoA binding site [chemical binding]; other site 469604003492 Phosphopantetheine attachment site; Region: PP-binding; cl09936 469604003493 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 469604003494 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 469604003495 putative acyl-acceptor binding pocket; other site 469604003496 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 469604003497 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469604003498 catalytic residues [active] 469604003499 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469604003500 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469604003501 ligand binding site [chemical binding]; other site 469604003502 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 469604003503 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469604003504 Coenzyme A binding pocket [chemical binding]; other site 469604003505 Predicted membrane protein [Function unknown]; Region: COG4907 469604003506 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 469604003507 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 469604003508 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 469604003509 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 469604003510 Walker A/P-loop; other site 469604003511 ATP binding site [chemical binding]; other site 469604003512 Q-loop/lid; other site 469604003513 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 469604003514 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 469604003515 Q-loop/lid; other site 469604003516 ABC transporter signature motif; other site 469604003517 Walker B; other site 469604003518 D-loop; other site 469604003519 H-loop/switch region; other site 469604003520 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 469604003521 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 469604003522 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 469604003523 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 469604003524 active site 469604003525 (T/H)XGH motif; other site 469604003526 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 469604003527 Divergent AAA domain; Region: AAA_4; pfam04326 469604003528 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 469604003529 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 469604003530 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 469604003531 active site 469604003532 dimer interface [polypeptide binding]; other site 469604003533 Domain of unknown function (DUF386); Region: DUF386; cl01047 469604003534 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 469604003535 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 469604003536 substrate binding pocket [chemical binding]; other site 469604003537 membrane-bound complex binding site; other site 469604003538 hinge residues; other site 469604003539 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 469604003540 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 469604003541 Walker A/P-loop; other site 469604003542 ATP binding site [chemical binding]; other site 469604003543 Q-loop/lid; other site 469604003544 ABC transporter signature motif; other site 469604003545 Walker B; other site 469604003546 D-loop; other site 469604003547 H-loop/switch region; other site 469604003548 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 469604003549 dimer interface [polypeptide binding]; other site 469604003550 conserved gate region; other site 469604003551 putative PBP binding loops; other site 469604003552 ABC-ATPase subunit interface; other site 469604003553 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 469604003554 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 469604003555 dimer interface [polypeptide binding]; other site 469604003556 conserved gate region; other site 469604003557 putative PBP binding loops; other site 469604003558 ABC-ATPase subunit interface; other site 469604003559 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 469604003560 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 469604003561 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 469604003562 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 469604003563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 469604003564 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 469604003565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 469604003566 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 469604003567 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 469604003568 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 469604003569 FeS/SAM binding site; other site 469604003570 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 469604003571 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 469604003572 active site 469604003573 trimer interface [polypeptide binding]; other site 469604003574 allosteric site; other site 469604003575 active site lid [active] 469604003576 hexamer (dimer of trimers) interface [polypeptide binding]; other site 469604003577 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 469604003578 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 469604003579 active site 469604003580 Zn binding site [ion binding]; other site 469604003581 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 469604003582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604003583 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 469604003584 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469604003585 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 469604003586 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 469604003587 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 469604003588 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 469604003589 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604003590 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 469604003591 aspartate aminotransferase; Provisional; Region: PRK07568 469604003592 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 469604003593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604003594 homodimer interface [polypeptide binding]; other site 469604003595 catalytic residue [active] 469604003596 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 469604003597 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 469604003598 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 469604003599 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 469604003600 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 469604003601 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 469604003602 primosomal protein N' Region: priA; TIGR00595 469604003603 ATP binding site [chemical binding]; other site 469604003604 putative Mg++ binding site [ion binding]; other site 469604003605 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 469604003606 nucleotide binding region [chemical binding]; other site 469604003607 ATP-binding site [chemical binding]; other site 469604003608 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 469604003609 active site 469604003610 catalytic residues [active] 469604003611 metal binding site [ion binding]; metal-binding site 469604003612 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 469604003613 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 469604003614 putative active site [active] 469604003615 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 469604003616 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 469604003617 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 469604003618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469604003619 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469604003620 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 469604003621 nucleotide binding site [chemical binding]; other site 469604003622 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 469604003623 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 469604003624 ligand binding site [chemical binding]; other site 469604003625 calcium binding site [ion binding]; other site 469604003626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604003627 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 469604003628 Walker A/P-loop; other site 469604003629 ATP binding site [chemical binding]; other site 469604003630 Q-loop/lid; other site 469604003631 ABC transporter signature motif; other site 469604003632 Walker B; other site 469604003633 D-loop; other site 469604003634 H-loop/switch region; other site 469604003635 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 469604003636 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469604003637 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 469604003638 TM-ABC transporter signature motif; other site 469604003639 H+ Antiporter protein; Region: 2A0121; TIGR00900 469604003640 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 469604003641 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469604003642 NAD binding site [chemical binding]; other site 469604003643 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 469604003644 dimer interface [polypeptide binding]; other site 469604003645 substrate binding site [chemical binding]; other site 469604003646 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 469604003647 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 469604003648 dimer interface [polypeptide binding]; other site 469604003649 PYR/PP interface [polypeptide binding]; other site 469604003650 TPP binding site [chemical binding]; other site 469604003651 substrate binding site [chemical binding]; other site 469604003652 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 469604003653 Domain of unknown function; Region: EKR; smart00890 469604003654 4Fe-4S binding domain; Region: Fer4_6; pfam12837 469604003655 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 469604003656 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 469604003657 TPP-binding site [chemical binding]; other site 469604003658 dimer interface [polypeptide binding]; other site 469604003659 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 469604003660 propionate/acetate kinase; Provisional; Region: PRK12379 469604003661 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 469604003662 NAD-dependent deacetylase; Provisional; Region: PRK00481 469604003663 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 469604003664 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 469604003665 amidohydrolase; Region: amidohydrolases; TIGR01891 469604003666 metal binding site [ion binding]; metal-binding site 469604003667 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 469604003668 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 469604003669 substrate binding pocket [chemical binding]; other site 469604003670 membrane-bound complex binding site; other site 469604003671 hinge residues; other site 469604003672 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 469604003673 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 469604003674 Soluble P-type ATPase [General function prediction only]; Region: COG4087 469604003675 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 469604003676 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 469604003677 active site 469604003678 DNA binding site [nucleotide binding] 469604003679 Predicted acetyltransferase [General function prediction only]; Region: COG3981 469604003680 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 469604003681 Coenzyme A binding pocket [chemical binding]; other site 469604003682 FMN-binding domain; Region: FMN_bind; pfam04205 469604003683 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 469604003684 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 469604003685 Phosphoglycerate kinase; Region: PGK; pfam00162 469604003686 substrate binding site [chemical binding]; other site 469604003687 hinge regions; other site 469604003688 ADP binding site [chemical binding]; other site 469604003689 catalytic site [active] 469604003690 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 469604003691 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 469604003692 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 469604003693 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 469604003694 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 469604003695 active site 469604003696 Glutamyl-tRNA reductase [Coenzyme metabolism]; Region: HemA; COG0373 469604003697 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 469604003698 tRNA; other site 469604003699 putative tRNA binding site [nucleotide binding]; other site 469604003700 putative NADP binding site [chemical binding]; other site 469604003701 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 469604003702 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 469604003703 domain interfaces; other site 469604003704 active site 469604003705 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 469604003706 active site 469604003707 SAM binding site [chemical binding]; other site 469604003708 homodimer interface [polypeptide binding]; other site 469604003709 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 469604003710 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 469604003711 active site 469604003712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 469604003713 CAAX protease self-immunity; Region: Abi; pfam02517 469604003714 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 469604003715 metal binding site [ion binding]; metal-binding site 469604003716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604003717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604003718 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 469604003719 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 469604003720 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 469604003721 RNA binding site [nucleotide binding]; other site 469604003722 active site 469604003723 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 469604003724 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 469604003725 G1 box; other site 469604003726 putative GEF interaction site [polypeptide binding]; other site 469604003727 GTP/Mg2+ binding site [chemical binding]; other site 469604003728 Switch I region; other site 469604003729 G2 box; other site 469604003730 G3 box; other site 469604003731 Switch II region; other site 469604003732 G4 box; other site 469604003733 G5 box; other site 469604003734 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 469604003735 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 469604003736 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 469604003737 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 469604003738 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 469604003739 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604003740 homodimer interface [polypeptide binding]; other site 469604003741 catalytic residue [active] 469604003742 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 469604003743 N-glycosylase/DNA lyase; Provisional; Region: PRK01229 469604003744 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469604003745 minor groove reading motif; other site 469604003746 helix-hairpin-helix signature motif; other site 469604003747 active site 469604003748 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 469604003749 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 469604003750 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 469604003751 Mechanosensitive ion channel; Region: MS_channel; pfam00924 469604003752 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 469604003753 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 469604003754 DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]; Region: DnaN; COG0592 469604003755 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 469604003756 putative DNA binding surface [nucleotide binding]; other site 469604003757 dimer interface [polypeptide binding]; other site 469604003758 beta-clamp/clamp loader binding surface; other site 469604003759 beta-clamp/translesion DNA polymerase binding surface; other site 469604003760 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604003761 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469604003762 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604003763 Walker A/P-loop; other site 469604003764 ATP binding site [chemical binding]; other site 469604003765 Q-loop/lid; other site 469604003766 ABC transporter signature motif; other site 469604003767 Walker B; other site 469604003768 D-loop; other site 469604003769 H-loop/switch region; other site 469604003770 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469604003771 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604003772 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604003773 Walker A/P-loop; other site 469604003774 ATP binding site [chemical binding]; other site 469604003775 Q-loop/lid; other site 469604003776 ABC transporter signature motif; other site 469604003777 Walker B; other site 469604003778 D-loop; other site 469604003779 H-loop/switch region; other site 469604003780 NAD synthetase; Provisional; Region: PRK13980 469604003781 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 469604003782 homodimer interface [polypeptide binding]; other site 469604003783 NAD binding pocket [chemical binding]; other site 469604003784 ATP binding pocket [chemical binding]; other site 469604003785 Mg binding site [ion binding]; other site 469604003786 active-site loop [active] 469604003787 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 469604003788 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 469604003789 GTP/Mg2+ binding site [chemical binding]; other site 469604003790 G4 box; other site 469604003791 G5 box; other site 469604003792 G1 box; other site 469604003793 Switch I region; other site 469604003794 G2 box; other site 469604003795 G3 box; other site 469604003796 Switch II region; other site 469604003797 Predicted methyltransferases [General function prediction only]; Region: COG0313 469604003798 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 469604003799 putative SAM binding site [chemical binding]; other site 469604003800 putative homodimer interface [polypeptide binding]; other site 469604003801 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 469604003802 C-terminal peptidase (prc); Region: prc; TIGR00225 469604003803 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 469604003804 protein binding site [polypeptide binding]; other site 469604003805 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 469604003806 Catalytic dyad [active] 469604003807 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 469604003808 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 469604003809 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 469604003810 S-adenosylmethionine binding site [chemical binding]; other site 469604003811 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 469604003812 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469604003813 Zn2+ binding site [ion binding]; other site 469604003814 Mg2+ binding site [ion binding]; other site 469604003815 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 469604003816 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 469604003817 TPP-binding site; other site 469604003818 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 469604003819 PYR/PP interface [polypeptide binding]; other site 469604003820 dimer interface [polypeptide binding]; other site 469604003821 TPP binding site [chemical binding]; other site 469604003822 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469604003823 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 469604003824 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 469604003825 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469604003826 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 469604003827 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 469604003828 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 469604003829 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 469604003830 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 469604003831 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 469604003832 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 469604003833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 469604003834 Rrf2 family protein; Region: rrf2_super; TIGR00738 469604003835 Transcriptional regulator; Region: Rrf2; pfam02082 469604003836 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 469604003837 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 469604003838 Walker A motif; other site 469604003839 ATP binding site [chemical binding]; other site 469604003840 Walker B motif; other site 469604003841 arginine finger; other site 469604003842 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 469604003843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 469604003844 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 469604003845 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 469604003846 dimer interface [polypeptide binding]; other site 469604003847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604003848 catalytic residue [active] 469604003849 Transposase IS200 like; Region: Y1_Tnp; pfam01797 469604003850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3878 469604003851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4922 469604003852 Membrane transport protein; Region: Mem_trans; cl09117 469604003853 malate dehydrogenase; Provisional; Region: PRK13529 469604003854 Malic enzyme, N-terminal domain; Region: malic; pfam00390 469604003855 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 469604003856 NAD(P) binding site [chemical binding]; other site 469604003857 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 469604003858 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 469604003859 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 469604003860 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469604003861 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469604003862 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469604003863 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 469604003864 ligand binding site [chemical binding]; other site 469604003865 active site 469604003866 UGI interface [polypeptide binding]; other site 469604003867 catalytic site [active] 469604003868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604003869 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 469604003870 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 469604003871 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 469604003872 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 469604003873 active site 469604003874 Predicted transcriptional regulators [Transcription]; Region: COG1733 469604003875 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 469604003876 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 469604003877 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 469604003878 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 469604003879 active site 469604003880 metal binding site [ion binding]; metal-binding site 469604003881 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 469604003882 active site 469604003883 metal-binding site 469604003884 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 469604003885 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469604003886 catalytic residue [active] 469604003887 LicD family; Region: LicD; cl01378 469604003888 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; cl17526 469604003889 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469604003890 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 469604003891 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469604003892 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 469604003893 putative ADP-binding pocket [chemical binding]; other site 469604003894 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 469604003895 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 469604003896 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 469604003897 Protein of unknown function (DUF535); Region: DUF535; pfam04393 469604003898 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 469604003899 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 469604003900 Fe2+ transport protein; Region: Iron_transport; cl01377 469604003901 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 469604003902 putative FMN binding site [chemical binding]; other site 469604003903 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 469604003904 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 469604003905 active site 469604003906 motif I; other site 469604003907 motif II; other site 469604003908 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 469604003909 DctM-like transporters; Region: DctM; pfam06808 469604003910 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 469604003911 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 469604003912 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 469604003913 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 469604003914 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 469604003915 putative uracil binding site [chemical binding]; other site 469604003916 putative active site [active] 469604003917 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 469604003918 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 469604003919 dimer interface [polypeptide binding]; other site 469604003920 phosphorylation site [posttranslational modification] 469604003921 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 469604003922 ATP binding site [chemical binding]; other site 469604003923 Mg2+ binding site [ion binding]; other site 469604003924 G-X-G motif; other site 469604003925 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 469604003926 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 469604003927 active site 469604003928 phosphorylation site [posttranslational modification] 469604003929 intermolecular recognition site; other site 469604003930 dimerization interface [polypeptide binding]; other site 469604003931 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 469604003932 DNA binding site [nucleotide binding] 469604003933 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 469604003934 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 469604003935 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 469604003936 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 469604003937 active site 469604003938 C-terminal domain interface [polypeptide binding]; other site 469604003939 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 469604003940 active site 469604003941 N-terminal domain interface [polypeptide binding]; other site 469604003942 Glycine zipper; Region: Gly-zipper_Omp; cl17724 469604003943 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469604003944 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469604003945 ligand binding site [chemical binding]; other site 469604003946 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 469604003947 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 469604003948 active site 469604003949 tetramer interface; other site 469604003950 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604003951 binding surface 469604003952 TPR motif; other site 469604003953 TPR repeat; Region: TPR_11; pfam13414 469604003954 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 469604003955 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 469604003956 active site 469604003957 HIGH motif; other site 469604003958 KMSKS motif; other site 469604003959 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 469604003960 tRNA binding surface [nucleotide binding]; other site 469604003961 anticodon binding site; other site 469604003962 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 469604003963 putative tRNA-binding site [nucleotide binding]; other site 469604003964 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 469604003965 putative acyl-acceptor binding pocket; other site 469604003966 hypothetical protein; Validated; Region: PRK00153 469604003967 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 469604003968 tandem repeat interface [polypeptide binding]; other site 469604003969 oligomer interface [polypeptide binding]; other site 469604003970 active site residues [active] 469604003971 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 469604003972 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 469604003973 tandem repeat interface [polypeptide binding]; other site 469604003974 oligomer interface [polypeptide binding]; other site 469604003975 active site residues [active] 469604003976 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 469604003977 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 469604003978 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 469604003979 HlyD family secretion protein; Region: HlyD_3; pfam13437 469604003980 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 469604003981 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 469604003982 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 469604003983 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 469604003984 active site 469604003985 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 469604003986 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 469604003987 metal binding site [ion binding]; metal-binding site 469604003988 dimer interface [polypeptide binding]; other site 469604003989 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 469604003990 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 469604003991 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 469604003992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469604003993 Coenzyme A binding pocket [chemical binding]; other site 469604003994 LysE type translocator; Region: LysE; cl00565 469604003995 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604003996 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 469604003997 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 469604003998 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469604003999 Walker A/P-loop; other site 469604004000 ATP binding site [chemical binding]; other site 469604004001 Q-loop/lid; other site 469604004002 ABC transporter signature motif; other site 469604004003 Walker B; other site 469604004004 D-loop; other site 469604004005 H-loop/switch region; other site 469604004006 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469604004007 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 469604004008 ABC-ATPase subunit interface; other site 469604004009 dimer interface [polypeptide binding]; other site 469604004010 putative PBP binding regions; other site 469604004011 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 469604004012 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 469604004013 intersubunit interface [polypeptide binding]; other site 469604004014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469604004015 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 469604004016 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604004017 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 469604004018 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 469604004019 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 469604004020 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 469604004021 alphaNTD homodimer interface [polypeptide binding]; other site 469604004022 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 469604004023 alphaNTD - beta interaction site [polypeptide binding]; other site 469604004024 alphaNTD - beta' interaction site [polypeptide binding]; other site 469604004025 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 469604004026 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 469604004027 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 469604004028 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 469604004029 RNA binding surface [nucleotide binding]; other site 469604004030 30S ribosomal protein S11; Validated; Region: PRK05309 469604004031 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 469604004032 30S ribosomal protein S13; Region: bact_S13; TIGR03631 469604004033 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 469604004034 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 469604004035 rRNA binding site [nucleotide binding]; other site 469604004036 predicted 30S ribosome binding site; other site 469604004037 DKNYY family; Region: DKNYY; pfam13644 469604004038 DKNYY family; Region: DKNYY; pfam13644 469604004039 DKNYY family; Region: DKNYY; pfam13644 469604004040 DKNYY family; Region: DKNYY; pfam13644 469604004041 DKNYY family; Region: DKNYY; pfam13644 469604004042 DKNYY family; Region: DKNYY; pfam13644 469604004043 DKNYY family; Region: DKNYY; pfam13644 469604004044 DKNYY family; Region: DKNYY; pfam13644 469604004045 DKNYY family; Region: DKNYY; pfam13644 469604004046 DKNYY family; Region: DKNYY; pfam13644 469604004047 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 469604004048 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 469604004049 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 469604004050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469604004051 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 469604004052 Coenzyme A binding pocket [chemical binding]; other site 469604004053 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 469604004054 active site 469604004055 adenylate kinase; Reviewed; Region: adk; PRK00279 469604004056 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 469604004057 AMP-binding site [chemical binding]; other site 469604004058 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 469604004059 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469604004060 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 469604004061 putative NAD(P) binding site [chemical binding]; other site 469604004062 active site 469604004063 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 469604004064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604004065 Walker A/P-loop; other site 469604004066 ATP binding site [chemical binding]; other site 469604004067 Q-loop/lid; other site 469604004068 ABC transporter signature motif; other site 469604004069 Walker B; other site 469604004070 D-loop; other site 469604004071 H-loop/switch region; other site 469604004072 ABC transporter; Region: ABC_tran_2; pfam12848 469604004073 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 469604004074 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 469604004075 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 469604004076 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 469604004077 dimer interface [polypeptide binding]; other site 469604004078 ssDNA binding site [nucleotide binding]; other site 469604004079 tetramer (dimer of dimers) interface [polypeptide binding]; other site 469604004080 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 469604004081 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 469604004082 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 469604004083 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 469604004084 S-adenosylmethionine binding site [chemical binding]; other site 469604004085 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 469604004086 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 469604004087 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 469604004088 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 469604004089 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 469604004090 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 469604004091 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 469604004092 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 469604004093 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 469604004094 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 469604004095 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 469604004096 Uncharacterized conserved protein [Function unknown]; Region: COG0327 469604004097 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 469604004098 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 469604004099 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469604004100 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 469604004101 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 469604004102 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 469604004103 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469604004104 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 469604004105 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 469604004106 DNA binding residues [nucleotide binding] 469604004107 CHC2 zinc finger; Region: zf-CHC2; cl17510 469604004108 DNA primase, catalytic core; Region: dnaG; TIGR01391 469604004109 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 469604004110 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 469604004111 active site 469604004112 metal binding site [ion binding]; metal-binding site 469604004113 interdomain interaction site; other site 469604004114 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 469604004115 SurA N-terminal domain; Region: SurA_N_3; cl07813 469604004116 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 469604004117 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 469604004118 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 469604004119 active site 469604004120 phosphorylation site [posttranslational modification] 469604004121 intermolecular recognition site; other site 469604004122 dimerization interface [polypeptide binding]; other site 469604004123 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 469604004124 Walker A motif; other site 469604004125 ATP binding site [chemical binding]; other site 469604004126 Walker B motif; other site 469604004127 arginine finger; other site 469604004128 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 469604004129 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 469604004130 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 469604004131 active site 469604004132 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 469604004133 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 469604004134 putative substrate binding region [chemical binding]; other site 469604004135 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 469604004136 thymidylate kinase; Provisional; Region: PRK13975; cl17243 469604004137 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 469604004138 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 469604004139 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 469604004140 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 469604004141 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 469604004142 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 469604004143 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 469604004144 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 469604004145 catalytic residue [active] 469604004146 putative FPP diphosphate binding site; other site 469604004147 putative FPP binding hydrophobic cleft; other site 469604004148 dimer interface [polypeptide binding]; other site 469604004149 putative IPP diphosphate binding site; other site 469604004150 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 469604004151 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 469604004152 substrate binding pocket [chemical binding]; other site 469604004153 chain length determination region; other site 469604004154 substrate-Mg2+ binding site; other site 469604004155 catalytic residues [active] 469604004156 aspartate-rich region 1; other site 469604004157 active site lid residues [active] 469604004158 aspartate-rich region 2; other site 469604004159 Exonuclease VII small subunit [DNA replication, recombination, and repair]; Region: XseB; COG1722 469604004160 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 469604004161 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 469604004162 S-adenosylmethionine binding site [chemical binding]; other site 469604004163 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 469604004164 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 469604004165 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 469604004166 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 469604004167 peptide chain release factor 1; Validated; Region: prfA; PRK00591 469604004168 This domain is found in peptide chain release factors; Region: PCRF; smart00937 469604004169 RF-1 domain; Region: RF-1; pfam00472 469604004170 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 469604004171 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 469604004172 active site 469604004173 metal binding site [ion binding]; metal-binding site 469604004174 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 469604004175 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 469604004176 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 469604004177 Protein of unknown function (DUF2977); Region: DUF2977; pfam11192 469604004178 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 469604004179 hypothetical protein; Region: PHA00670 469604004180 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 469604004181 Terminase-like family; Region: Terminase_6; pfam03237 469604004182 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 469604004183 DNA binding residues [nucleotide binding] 469604004184 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 469604004185 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 469604004186 Walker A motif; other site 469604004187 ATP binding site [chemical binding]; other site 469604004188 Walker B motif; other site 469604004189 Helix-turn-helix domain; Region: HTH_36; pfam13730 469604004190 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 469604004191 Predicted transcriptional regulator [Transcription]; Region: COG2932 469604004192 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 469604004193 non-specific DNA binding site [nucleotide binding]; other site 469604004194 salt bridge; other site 469604004195 sequence-specific DNA binding site [nucleotide binding]; other site 469604004196 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 469604004197 Catalytic site [active] 469604004198 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 469604004199 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 469604004200 antimicrobial peptide, SdpC family; Region: toxin_SdpC; TIGR04032 469604004201 Protein of unknown function (DUF968); Region: DUF968; pfam06147 469604004202 HNH endonuclease; Region: HNH_3; pfam13392 469604004203 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 469604004204 YopX protein; Region: YopX; pfam09643 469604004205 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 469604004206 active site 469604004207 homodimer interface [polypeptide binding]; other site 469604004208 metal binding site [ion binding]; metal-binding site 469604004209 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 469604004210 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 469604004211 active site 469604004212 catalytic residues [active] 469604004213 DNA binding site [nucleotide binding] 469604004214 Int/Topo IB signature motif; other site 469604004215 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 469604004216 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604004217 Walker A/P-loop; other site 469604004218 ATP binding site [chemical binding]; other site 469604004219 Q-loop/lid; other site 469604004220 ABC transporter signature motif; other site 469604004221 Walker B; other site 469604004222 D-loop; other site 469604004223 H-loop/switch region; other site 469604004224 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469604004225 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 469604004226 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604004227 Walker A/P-loop; other site 469604004228 ATP binding site [chemical binding]; other site 469604004229 Q-loop/lid; other site 469604004230 ABC transporter signature motif; other site 469604004231 Walker B; other site 469604004232 D-loop; other site 469604004233 H-loop/switch region; other site 469604004234 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 469604004235 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469604004236 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 469604004237 dimer interface [polypeptide binding]; other site 469604004238 conserved gate region; other site 469604004239 putative PBP binding loops; other site 469604004240 ABC-ATPase subunit interface; other site 469604004241 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469604004242 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 469604004243 dimer interface [polypeptide binding]; other site 469604004244 conserved gate region; other site 469604004245 ABC-ATPase subunit interface; other site 469604004246 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469604004247 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 469604004248 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469604004249 EamA-like transporter family; Region: EamA; pfam00892 469604004250 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 469604004251 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 469604004252 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 469604004253 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 469604004254 putative active site [active] 469604004255 putative metal binding site [ion binding]; other site 469604004256 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 469604004257 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 469604004258 FeS/SAM binding site; other site 469604004259 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 469604004260 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 469604004261 active site 469604004262 motif I; other site 469604004263 motif II; other site 469604004264 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 469604004265 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 469604004266 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 469604004267 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 469604004268 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 469604004269 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604004270 TM1410 hypothetical-related protein; Region: DUF297; cl00997 469604004271 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]; Region: COG2342 469604004272 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 469604004273 Predicted membrane protein [Function unknown]; Region: COG4267 469604004274 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 469604004275 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469604004276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4878 469604004277 Uncharacterized protein conserved in bacteria (DUF2194); Region: DUF2194; pfam09960 469604004278 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 469604004279 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 469604004280 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 469604004281 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 469604004282 NAD binding site [chemical binding]; other site 469604004283 homodimer interface [polypeptide binding]; other site 469604004284 active site 469604004285 substrate binding site [chemical binding]; other site 469604004286 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 469604004287 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 469604004288 dimer interface [polypeptide binding]; other site 469604004289 conserved gate region; other site 469604004290 putative PBP binding loops; other site 469604004291 ABC-ATPase subunit interface; other site 469604004292 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 469604004293 dimer interface [polypeptide binding]; other site 469604004294 conserved gate region; other site 469604004295 putative PBP binding loops; other site 469604004296 ABC-ATPase subunit interface; other site 469604004297 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 469604004298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604004299 Walker A/P-loop; other site 469604004300 ATP binding site [chemical binding]; other site 469604004301 Q-loop/lid; other site 469604004302 ABC transporter signature motif; other site 469604004303 Walker B; other site 469604004304 D-loop; other site 469604004305 H-loop/switch region; other site 469604004306 TOBE domain; Region: TOBE_2; pfam08402 469604004307 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 469604004308 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 469604004309 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 469604004310 DHH family; Region: DHH; pfam01368 469604004311 DHHA1 domain; Region: DHHA1; pfam02272 469604004312 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 469604004313 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 469604004314 Catalytic site [active] 469604004315 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 469604004316 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 469604004317 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469604004318 Coenzyme A binding pocket [chemical binding]; other site 469604004319 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 469604004320 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 469604004321 tetramer interface [polypeptide binding]; other site 469604004322 active site 469604004323 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 469604004324 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 469604004325 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 469604004326 active site 469604004327 substrate binding site [chemical binding]; other site 469604004328 metal binding site [ion binding]; metal-binding site 469604004329 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 469604004330 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 469604004331 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 469604004332 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 469604004333 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 469604004334 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 469604004335 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 469604004336 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 469604004337 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469604004338 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 469604004339 beta subunit interaction interface [polypeptide binding]; other site 469604004340 Walker A motif; other site 469604004341 ATP binding site [chemical binding]; other site 469604004342 Walker B motif; other site 469604004343 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469604004344 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 469604004345 core domain interface [polypeptide binding]; other site 469604004346 delta subunit interface [polypeptide binding]; other site 469604004347 epsilon subunit interface [polypeptide binding]; other site 469604004348 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 469604004349 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469604004350 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 469604004351 alpha subunit interaction interface [polypeptide binding]; other site 469604004352 Walker A motif; other site 469604004353 ATP binding site [chemical binding]; other site 469604004354 Walker B motif; other site 469604004355 inhibitor binding site; inhibition site 469604004356 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469604004357 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 469604004358 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 469604004359 gamma subunit interface [polypeptide binding]; other site 469604004360 LBP interface [polypeptide binding]; other site 469604004361 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 469604004362 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 469604004363 dimer interface [polypeptide binding]; other site 469604004364 active site 469604004365 metal binding site [ion binding]; metal-binding site 469604004366 glutathione binding site [chemical binding]; other site 469604004367 S-adenosylmethionine synthetase; Validated; Region: PRK05250 469604004368 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 469604004369 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 469604004370 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 469604004371 EamA-like transporter family; Region: EamA; pfam00892 469604004372 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469604004373 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 469604004374 putative active site [active] 469604004375 dimerization interface [polypeptide binding]; other site 469604004376 putative tRNAtyr binding site [nucleotide binding]; other site 469604004377 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 469604004378 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 469604004379 active site 469604004380 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 469604004381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5341 469604004382 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 469604004383 Domain of unknown function DUF20; Region: UPF0118; pfam01594 469604004384 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 469604004385 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 469604004386 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 469604004387 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 469604004388 active site 469604004389 Predicted permease [General function prediction only]; Region: COG2056 469604004390 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 469604004391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 469604004392 Nucleoside recognition; Region: Gate; pfam07670 469604004393 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 469604004394 Bacterial SH3 domain; Region: SH3_3; cl17532 469604004395 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469604004396 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469604004397 ligand binding site [chemical binding]; other site 469604004398 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 469604004399 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 469604004400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604004401 homodimer interface [polypeptide binding]; other site 469604004402 catalytic residue [active] 469604004403 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 469604004404 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 469604004405 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 469604004406 oligomer interface [polypeptide binding]; other site 469604004407 metal binding site [ion binding]; metal-binding site 469604004408 metal binding site [ion binding]; metal-binding site 469604004409 Cl binding site [ion binding]; other site 469604004410 aspartate ring; other site 469604004411 basic sphincter; other site 469604004412 putative hydrophobic gate; other site 469604004413 periplasmic entrance; other site 469604004414 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; pfam10020 469604004415 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 469604004416 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 469604004417 23S rRNA interface [nucleotide binding]; other site 469604004418 L3 interface [polypeptide binding]; other site 469604004419 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469604004420 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 469604004421 Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]; Region: InfC; COG0290 469604004422 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 469604004423 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 469604004424 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 469604004425 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 469604004426 23S rRNA binding site [nucleotide binding]; other site 469604004427 L21 binding site [polypeptide binding]; other site 469604004428 L13 binding site [polypeptide binding]; other site 469604004429 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 469604004430 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 469604004431 Int/Topo IB signature motif; other site 469604004432 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 469604004433 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 469604004434 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 469604004435 Magnesium ion binding site [ion binding]; other site 469604004436 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 469604004437 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 469604004438 non-specific DNA binding site [nucleotide binding]; other site 469604004439 salt bridge; other site 469604004440 sequence-specific DNA binding site [nucleotide binding]; other site 469604004441 Conjugal transfer protein TraD; Region: TraD; cl05753 469604004442 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 469604004443 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 469604004444 N-acetyl-D-glucosamine binding site [chemical binding]; other site 469604004445 catalytic residue [active] 469604004446 MobA/MobL family; Region: MobA_MobL; pfam03389 469604004447 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 469604004448 non-specific DNA binding site [nucleotide binding]; other site 469604004449 salt bridge; other site 469604004450 sequence-specific DNA binding site [nucleotide binding]; other site 469604004451 multiple promoter invertase; Provisional; Region: mpi; PRK13413 469604004452 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 469604004453 catalytic residues [active] 469604004454 catalytic nucleophile [active] 469604004455 Presynaptic Site I dimer interface [polypeptide binding]; other site 469604004456 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 469604004457 Synaptic Flat tetramer interface [polypeptide binding]; other site 469604004458 Synaptic Site I dimer interface [polypeptide binding]; other site 469604004459 DNA binding site [nucleotide binding] 469604004460 Fic family protein [Function unknown]; Region: COG3177 469604004461 Fic/DOC family; Region: Fic; pfam02661 469604004462 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 469604004463 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 469604004464 catalytic residues [active] 469604004465 catalytic nucleophile [active] 469604004466 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 469604004467 Synaptic Flat tetramer interface [polypeptide binding]; other site 469604004468 Synaptic Site I dimer interface [polypeptide binding]; other site 469604004469 DNA binding site [nucleotide binding] 469604004470 Zeta toxin; Region: Zeta_toxin; pfam06414 469604004471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 469604004472 Methyltransferase domain; Region: Methyltransf_26; pfam13659 469604004473 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 469604004474 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 469604004475 DEAD-like helicases superfamily; Region: DEXDc; smart00487 469604004476 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 469604004477 ATP binding site [chemical binding]; other site 469604004478 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 469604004479 helicase superfamily c-terminal domain; Region: HELICc; smart00490 469604004480 nucleotide binding region [chemical binding]; other site 469604004481 ATP-binding site [chemical binding]; other site 469604004482 DNA primase, catalytic core; Region: dnaG; TIGR01391 469604004483 CHC2 zinc finger; Region: zf-CHC2; cl17510 469604004484 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 469604004485 active site 469604004486 metal binding site [ion binding]; metal-binding site 469604004487 interdomain interaction site; other site 469604004488 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 469604004489 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 469604004490 active site 469604004491 putative interdomain interaction site [polypeptide binding]; other site 469604004492 putative metal-binding site [ion binding]; other site 469604004493 putative nucleotide binding site [chemical binding]; other site 469604004494 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; cl11986 469604004495 domain I; other site 469604004496 DNA binding groove [nucleotide binding] 469604004497 phosphate binding site [ion binding]; other site 469604004498 domain II; other site 469604004499 domain III; other site 469604004500 nucleotide binding site [chemical binding]; other site 469604004501 catalytic site [active] 469604004502 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; cl11986 469604004503 domain IV; other site 469604004504 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 469604004505 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 469604004506 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 469604004507 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 469604004508 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 469604004509 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 469604004510 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 469604004511 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604004512 Walker A/P-loop; other site 469604004513 ATP binding site [chemical binding]; other site 469604004514 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 469604004515 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 469604004516 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 469604004517 ATP binding site [chemical binding]; other site 469604004518 Walker A motif; other site 469604004519 hexamer interface [polypeptide binding]; other site 469604004520 Walker B motif; other site 469604004521 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 469604004522 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 469604004523 Walker A motif; other site 469604004524 ATP binding site [chemical binding]; other site 469604004525 Walker B motif; other site 469604004526 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 469604004527 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 469604004528 VirB7 interaction site; other site 469604004529 VirB8 protein; Region: VirB8; cl01500 469604004530 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; cl00257 469604004531 IHF - DNA interface [nucleotide binding]; other site 469604004532 IHF dimer interface [polypeptide binding]; other site 469604004533 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 469604004534 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 469604004535 putative active site [active] 469604004536 catalytic residue [active] 469604004537 heat shock protein 90; Provisional; Region: PRK05218 469604004538 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 469604004539 ATP binding site [chemical binding]; other site 469604004540 Mg2+ binding site [ion binding]; other site 469604004541 G-X-G motif; other site 469604004542 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 469604004543 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 469604004544 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 469604004545 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 469604004546 citrate lyase subunit gamma; Provisional; Region: PRK13253 469604004547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 469604004548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 469604004549 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 469604004550 dimerization interface [polypeptide binding]; other site 469604004551 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 469604004552 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 469604004553 putative active site [active] 469604004554 (T/H)XGH motif; other site 469604004555 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 469604004556 PemK-like protein; Region: PemK; pfam02452 469604004557 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 469604004558 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 469604004559 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 469604004560 S-adenosylmethionine binding site [chemical binding]; other site 469604004561 16S rRNA methyltransferase B; Provisional; Region: PRK14902 469604004562 NusB family; Region: NusB; pfam01029 469604004563 putative RNA binding site [nucleotide binding]; other site 469604004564 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 469604004565 S-adenosylmethionine binding site [chemical binding]; other site 469604004566 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604004567 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 469604004568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604004569 Walker A/P-loop; other site 469604004570 ATP binding site [chemical binding]; other site 469604004571 Q-loop/lid; other site 469604004572 ABC transporter signature motif; other site 469604004573 Walker B; other site 469604004574 D-loop; other site 469604004575 H-loop/switch region; other site 469604004576 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469604004577 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604004578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604004579 Walker A/P-loop; other site 469604004580 ATP binding site [chemical binding]; other site 469604004581 Q-loop/lid; other site 469604004582 ABC transporter signature motif; other site 469604004583 Walker B; other site 469604004584 D-loop; other site 469604004585 H-loop/switch region; other site 469604004586 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469604004587 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 469604004588 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 469604004589 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 469604004590 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 469604004591 ATP cone domain; Region: ATP-cone; pfam03477 469604004592 Class III ribonucleotide reductase; Region: RNR_III; cd01675 469604004593 effector binding site; other site 469604004594 active site 469604004595 Zn binding site [ion binding]; other site 469604004596 glycine loop; other site 469604004597 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 469604004598 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604004599 Walker A/P-loop; other site 469604004600 ATP binding site [chemical binding]; other site 469604004601 Q-loop/lid; other site 469604004602 ABC transporter signature motif; other site 469604004603 Walker B; other site 469604004604 D-loop; other site 469604004605 H-loop/switch region; other site 469604004606 TOBE domain; Region: TOBE_2; pfam08402 469604004607 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 469604004608 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 469604004609 dimer interface [polypeptide binding]; other site 469604004610 conserved gate region; other site 469604004611 putative PBP binding loops; other site 469604004612 ABC-ATPase subunit interface; other site 469604004613 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 469604004614 dimer interface [polypeptide binding]; other site 469604004615 conserved gate region; other site 469604004616 putative PBP binding loops; other site 469604004617 ABC-ATPase subunit interface; other site 469604004618 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 469604004619 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 469604004620 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 469604004621 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469604004622 Q-loop/lid; other site 469604004623 ABC transporter signature motif; other site 469604004624 Walker B; other site 469604004625 D-loop; other site 469604004626 H-loop/switch region; other site 469604004627 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 469604004628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604004629 Walker A/P-loop; other site 469604004630 ATP binding site [chemical binding]; other site 469604004631 Q-loop/lid; other site 469604004632 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 469604004633 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604004634 Walker A/P-loop; other site 469604004635 ATP binding site [chemical binding]; other site 469604004636 Q-loop/lid; other site 469604004637 ABC transporter signature motif; other site 469604004638 Walker B; other site 469604004639 D-loop; other site 469604004640 H-loop/switch region; other site 469604004641 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604004642 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 469604004643 Walker A/P-loop; other site 469604004644 ATP binding site [chemical binding]; other site 469604004645 Q-loop/lid; other site 469604004646 ABC transporter signature motif; other site 469604004647 Walker B; other site 469604004648 D-loop; other site 469604004649 H-loop/switch region; other site 469604004650 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469604004651 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 469604004652 dimer interface [polypeptide binding]; other site 469604004653 conserved gate region; other site 469604004654 putative PBP binding loops; other site 469604004655 ABC-ATPase subunit interface; other site 469604004656 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469604004657 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 469604004658 dimer interface [polypeptide binding]; other site 469604004659 conserved gate region; other site 469604004660 putative PBP binding loops; other site 469604004661 ABC-ATPase subunit interface; other site 469604004662 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469604004663 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_19; cd08518 469604004664 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 469604004665 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 469604004666 dimer interface [polypeptide binding]; other site 469604004667 anticodon binding site; other site 469604004668 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 469604004669 homodimer interface [polypeptide binding]; other site 469604004670 motif 1; other site 469604004671 active site 469604004672 motif 2; other site 469604004673 GAD domain; Region: GAD; pfam02938 469604004674 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 469604004675 active site 469604004676 motif 3; other site 469604004677 histidyl-tRNA synthetase; Region: hisS; TIGR00442 469604004678 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 469604004679 dimer interface [polypeptide binding]; other site 469604004680 motif 1; other site 469604004681 active site 469604004682 motif 2; other site 469604004683 motif 3; other site 469604004684 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 469604004685 anticodon binding site; other site 469604004686 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 469604004687 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 469604004688 Walker A motif; other site 469604004689 ATP binding site [chemical binding]; other site 469604004690 Walker B motif; other site 469604004691 arginine finger; other site 469604004692 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 469604004693 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; pfam10020 469604004694 Family of unknown function (DUF695); Region: DUF695; pfam05117 469604004695 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 469604004696 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 469604004697 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 469604004698 PYR/PP interface [polypeptide binding]; other site 469604004699 dimer interface [polypeptide binding]; other site 469604004700 TPP binding site [chemical binding]; other site 469604004701 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469604004702 transketolase; Reviewed; Region: PRK05899 469604004703 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 469604004704 TPP-binding site [chemical binding]; other site 469604004705 dimer interface [polypeptide binding]; other site 469604004706 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469604004707 active site 469604004708 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 469604004709 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 469604004710 S-adenosylmethionine binding site [chemical binding]; other site 469604004711 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 469604004712 KH domain; Region: KH_4; pfam13083 469604004713 G-X-X-G motif; other site 469604004714 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 469604004715 RimM N-terminal domain; Region: RimM; pfam01782 469604004716 PRC-barrel domain; Region: PRC; pfam05239 469604004717 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 469604004718 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; cl17853 469604004719 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 469604004720 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 469604004721 generic binding surface II; other site 469604004722 generic binding surface I; other site 469604004723 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 469604004724 active site 469604004725 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 469604004726 active site 469604004727 catalytic site [active] 469604004728 substrate binding site [chemical binding]; other site 469604004729 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 469604004730 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 469604004731 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 469604004732 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 469604004733 active site 469604004734 metal binding site [ion binding]; metal-binding site 469604004735 Uncharacterized conserved protein [Function unknown]; Region: COG4866 469604004736 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 469604004737 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 469604004738 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 469604004739 PhoU domain; Region: PhoU; pfam01895 469604004740 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 469604004741 Predicted transcriptional regulator [Transcription]; Region: COG2378 469604004742 HTH domain; Region: HTH_11; pfam08279 469604004743 WYL domain; Region: WYL; pfam13280 469604004744 GTPase Era; Reviewed; Region: era; PRK00089 469604004745 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 469604004746 G1 box; other site 469604004747 GTP/Mg2+ binding site [chemical binding]; other site 469604004748 Switch I region; other site 469604004749 G2 box; other site 469604004750 Switch II region; other site 469604004751 G3 box; other site 469604004752 G4 box; other site 469604004753 G5 box; other site 469604004754 KH domain; Region: KH_2; pfam07650 469604004755 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 469604004756 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 469604004757 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 469604004758 Walker A/P-loop; other site 469604004759 ATP binding site [chemical binding]; other site 469604004760 Q-loop/lid; other site 469604004761 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 469604004762 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 469604004763 ABC transporter signature motif; other site 469604004764 Walker B; other site 469604004765 D-loop; other site 469604004766 H-loop/switch region; other site 469604004767 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 469604004768 ATP-NAD kinase; Region: NAD_kinase; pfam01513 469604004769 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 469604004770 Peptidase family M23; Region: Peptidase_M23; pfam01551 469604004771 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 469604004772 Adhesion protein FadA; Region: FadA; pfam09403 469604004773 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 469604004774 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 469604004775 Pyruvate formate lyase 1; Region: PFL1; cd01678 469604004776 coenzyme A binding site [chemical binding]; other site 469604004777 active site 469604004778 catalytic residues [active] 469604004779 glycine loop; other site 469604004780 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 469604004781 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 469604004782 FeS/SAM binding site; other site 469604004783 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 469604004784 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 469604004785 Walker A/P-loop; other site 469604004786 ATP binding site [chemical binding]; other site 469604004787 Q-loop/lid; other site 469604004788 ABC transporter signature motif; other site 469604004789 Walker B; other site 469604004790 D-loop; other site 469604004791 H-loop/switch region; other site 469604004792 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 469604004793 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 469604004794 Walker A/P-loop; other site 469604004795 ATP binding site [chemical binding]; other site 469604004796 Q-loop/lid; other site 469604004797 ABC transporter signature motif; other site 469604004798 Walker B; other site 469604004799 D-loop; other site 469604004800 H-loop/switch region; other site 469604004801 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 469604004802 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469604004803 TM-ABC transporter signature motif; other site 469604004804 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 469604004805 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 469604004806 TM-ABC transporter signature motif; other site 469604004807 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 469604004808 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 469604004809 putative ligand binding site [chemical binding]; other site 469604004810 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 469604004811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469604004812 NAD(P) binding site [chemical binding]; other site 469604004813 active site 469604004814 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604004815 binding surface 469604004816 TPR motif; other site 469604004817 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604004818 TPR motif; other site 469604004819 binding surface 469604004820 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604004821 binding surface 469604004822 TPR motif; other site 469604004823 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 469604004824 binding surface 469604004825 TPR motif; other site 469604004826 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469604004827 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604004828 binding surface 469604004829 TPR motif; other site 469604004830 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469604004831 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604004832 TPR motif; other site 469604004833 Tetratricopeptide repeat; Region: TPR_12; pfam13424 469604004834 binding surface 469604004835 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 469604004836 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604004837 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604004838 Walker A/P-loop; other site 469604004839 ATP binding site [chemical binding]; other site 469604004840 Q-loop/lid; other site 469604004841 ABC transporter signature motif; other site 469604004842 Walker B; other site 469604004843 D-loop; other site 469604004844 H-loop/switch region; other site 469604004845 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 469604004846 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 469604004847 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 469604004848 Walker A/P-loop; other site 469604004849 ATP binding site [chemical binding]; other site 469604004850 Q-loop/lid; other site 469604004851 ABC transporter signature motif; other site 469604004852 Walker B; other site 469604004853 D-loop; other site 469604004854 H-loop/switch region; other site 469604004855 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 469604004856 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 469604004857 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 469604004858 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 469604004859 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 469604004860 Transposase IS200 like; Region: Y1_Tnp; pfam01797 469604004861 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 469604004862 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 469604004863 putative ATP binding site [chemical binding]; other site 469604004864 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 469604004865 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 469604004866 active site 469604004867 phosphorylation site [posttranslational modification] 469604004868 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 469604004869 active site 469604004870 P-loop; other site 469604004871 phosphorylation site [posttranslational modification] 469604004872 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 469604004873 GMP synthase; Reviewed; Region: guaA; PRK00074 469604004874 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 469604004875 AMP/PPi binding site [chemical binding]; other site 469604004876 candidate oxyanion hole; other site 469604004877 catalytic triad [active] 469604004878 potential glutamine specificity residues [chemical binding]; other site 469604004879 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 469604004880 ATP Binding subdomain [chemical binding]; other site 469604004881 Ligand Binding sites [chemical binding]; other site 469604004882 Dimerization subdomain; other site 469604004883 Holin family; Region: Phage_holin_4; pfam05105 469604004884 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 469604004885 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 469604004886 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 469604004887 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 469604004888 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 469604004889 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 469604004890 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 469604004891 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 469604004892 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 469604004893 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 469604004894 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 469604004895 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 469604004896 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 469604004897 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 469604004898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 469604004899 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 469604004900 Terminase small subunit; Region: Terminase_2; pfam03592 469604004901 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 469604004902 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 469604004903 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 469604004904 DNA binding residues [nucleotide binding] 469604004905 Phage anti-repressor protein [Transcription]; Region: COG3561 469604004906 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 469604004907 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 469604004908 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 469604004909 Walker A motif; other site 469604004910 ATP binding site [chemical binding]; other site 469604004911 Walker B motif; other site 469604004912 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 469604004913 Bacterial PH domain; Region: DUF304; pfam03703 469604004914 Domain of unknown function (DUF955); Region: DUF955; pfam06114 469604004915 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 469604004916 non-specific DNA binding site [nucleotide binding]; other site 469604004917 salt bridge; other site 469604004918 sequence-specific DNA binding site [nucleotide binding]; other site 469604004919 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 469604004920 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 469604004921 Protein of unknown function (DUF968); Region: DUF968; pfam06147 469604004922 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 469604004923 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 469604004924 Active Sites [active] 469604004925 YopX protein; Region: YopX; pfam09643 469604004926 Methyltransferase domain; Region: Methyltransf_25; pfam13649 469604004927 dUTPase; Region: dUTPase_2; pfam08761 469604004928 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 469604004929 active site 469604004930 homodimer interface [polypeptide binding]; other site 469604004931 metal binding site [ion binding]; metal-binding site 469604004932 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 469604004933 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 469604004934 Int/Topo IB signature motif; other site 469604004935 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 469604004936 active site 469604004937 NTP binding site [chemical binding]; other site 469604004938 metal binding triad [ion binding]; metal-binding site 469604004939 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 469604004940 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 469604004941 ATP binding site [chemical binding]; other site 469604004942 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 469604004943 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 469604004944 Fic/DOC family; Region: Fic; pfam02661 469604004945 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604004946 Predicted permease [General function prediction only]; Region: COG2985 469604004947 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 469604004948 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 469604004949 cell division protein FtsZ; Validated; Region: PRK09330 469604004950 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 469604004951 nucleotide binding site [chemical binding]; other site 469604004952 SulA interaction site; other site 469604004953 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 469604004954 Cell division protein FtsA; Region: FtsA; smart00842 469604004955 Cell division protein FtsA; Region: FtsA; pfam14450 469604004956 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 469604004957 Cell division protein FtsQ; Region: FtsQ; pfam03799 469604004958 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 469604004959 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 469604004960 ATP-grasp domain; Region: ATP-grasp_4; cl17255 469604004961 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 469604004962 FAD binding domain; Region: FAD_binding_4; pfam01565 469604004963 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 469604004964 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 469604004965 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469604004966 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469604004967 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469604004968 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 469604004969 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 469604004970 active site 469604004971 homodimer interface [polypeptide binding]; other site 469604004972 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 469604004973 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469604004974 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469604004975 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 469604004976 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 469604004977 Mg++ binding site [ion binding]; other site 469604004978 putative catalytic motif [active] 469604004979 putative substrate binding site [chemical binding]; other site 469604004980 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 469604004981 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 469604004982 active site 469604004983 motif I; other site 469604004984 motif II; other site 469604004985 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 469604004986 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 469604004987 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 469604004988 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 469604004989 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 469604004990 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469604004991 DNA-binding site [nucleotide binding]; DNA binding site 469604004992 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 469604004993 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604004994 homodimer interface [polypeptide binding]; other site 469604004995 catalytic residue [active] 469604004996 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 469604004997 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 469604004998 active site 469604004999 multimer interface [polypeptide binding]; other site 469604005000 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 469604005001 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 469604005002 active site 469604005003 catalytic tetrad [active] 469604005004 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 469604005005 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 469604005006 TPP-binding site; other site 469604005007 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 469604005008 PYR/PP interface [polypeptide binding]; other site 469604005009 dimer interface [polypeptide binding]; other site 469604005010 TPP binding site [chemical binding]; other site 469604005011 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 469604005012 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 469604005013 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 469604005014 DNA binding residues [nucleotide binding] 469604005015 putative dimer interface [polypeptide binding]; other site 469604005016 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469604005017 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469604005018 EamA-like transporter family; Region: EamA; pfam00892 469604005019 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 469604005020 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 469604005021 putative efflux protein, MATE family; Region: matE; TIGR00797 469604005022 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 469604005023 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 469604005024 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 469604005025 ATP binding site [chemical binding]; other site 469604005026 putative Mg++ binding site [ion binding]; other site 469604005027 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 469604005028 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 469604005029 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 469604005030 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 469604005031 Virulence protein [General function prediction only]; Region: COG3943 469604005032 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 469604005033 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 469604005034 HsdM N-terminal domain; Region: HsdM_N; pfam12161 469604005035 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 469604005036 S-adenosylmethionine binding site [chemical binding]; other site 469604005037 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 469604005038 Galactose oxidase, central domain; Region: Kelch_3; cl02701 469604005039 Transcriptional regulators [Transcription]; Region: PurR; COG1609 469604005040 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 469604005041 DNA binding site [nucleotide binding] 469604005042 domain linker motif; other site 469604005043 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 469604005044 ligand binding site [chemical binding]; other site 469604005045 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 469604005046 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 469604005047 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 469604005048 DctM-like transporters; Region: DctM; pfam06808 469604005049 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 469604005050 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 469604005051 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 469604005052 nucleotide binding site [chemical binding]; other site 469604005053 N-acetylneuraminate lyase; Provisional; Region: PRK04147 469604005054 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 469604005055 inhibitor site; inhibition site 469604005056 active site 469604005057 dimer interface [polypeptide binding]; other site 469604005058 catalytic residue [active] 469604005059 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 469604005060 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 469604005061 putative active site cavity [active] 469604005062 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469604005063 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 469604005064 MgtE intracellular N domain; Region: MgtE_N; smart00924 469604005065 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 469604005066 Divalent cation transporter; Region: MgtE; pfam01769 469604005067 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 469604005068 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 469604005069 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 469604005070 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469604005071 Zn2+ binding site [ion binding]; other site 469604005072 Mg2+ binding site [ion binding]; other site 469604005073 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 469604005074 synthetase active site [active] 469604005075 NTP binding site [chemical binding]; other site 469604005076 metal binding site [ion binding]; metal-binding site 469604005077 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 469604005078 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 469604005079 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 469604005080 active site 469604005081 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 469604005082 Tetratricopeptide repeat; Region: TPR_16; pfam13432 469604005083 TPR motif; other site 469604005084 Uncharacterized conserved protein [Function unknown]; Region: COG2928 469604005085 Domain of unknown function DUF21; Region: DUF21; pfam01595 469604005086 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 469604005087 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 469604005088 Transporter associated domain; Region: CorC_HlyC; smart01091 469604005089 ACT domain-containing protein [General function prediction only]; Region: PheB; COG4492 469604005090 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 469604005091 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 469604005092 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 469604005093 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 469604005094 homodimer interface [polypeptide binding]; other site 469604005095 NADP binding site [chemical binding]; other site 469604005096 substrate binding site [chemical binding]; other site 469604005097 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 469604005098 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 469604005099 putative active site [active] 469604005100 substrate binding site [chemical binding]; other site 469604005101 putative cosubstrate binding site; other site 469604005102 catalytic site [active] 469604005103 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 469604005104 substrate binding site [chemical binding]; other site 469604005105 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 469604005106 ATP cone domain; Region: ATP-cone; pfam03477 469604005107 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 469604005108 active site 469604005109 phosphorylation site [posttranslational modification] 469604005110 Recombination protein O N terminal; Region: RecO_N; pfam11967 469604005111 DNA repair protein RecO; Region: reco; TIGR00613 469604005112 Recombination protein O C terminal; Region: RecO_C; pfam02565 469604005113 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 469604005114 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 469604005115 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 469604005116 Major Facilitator Superfamily; Region: MFS_1; pfam07690 469604005117 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 469604005118 EamA-like transporter family; Region: EamA; pfam00892 469604005119 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 469604005120 trimer interface [polypeptide binding]; other site 469604005121 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 469604005122 YadA-like C-terminal region; Region: YadA; pfam03895 469604005123 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469604005124 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604005125 Walker A/P-loop; other site 469604005126 ATP binding site [chemical binding]; other site 469604005127 Q-loop/lid; other site 469604005128 ABC transporter signature motif; other site 469604005129 Walker B; other site 469604005130 D-loop; other site 469604005131 H-loop/switch region; other site 469604005132 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469604005133 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604005134 Walker A/P-loop; other site 469604005135 ATP binding site [chemical binding]; other site 469604005136 Q-loop/lid; other site 469604005137 ABC transporter signature motif; other site 469604005138 Walker B; other site 469604005139 D-loop; other site 469604005140 H-loop/switch region; other site 469604005141 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469604005142 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 469604005143 dimer interface [polypeptide binding]; other site 469604005144 conserved gate region; other site 469604005145 putative PBP binding loops; other site 469604005146 ABC-ATPase subunit interface; other site 469604005147 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469604005148 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 469604005149 dimer interface [polypeptide binding]; other site 469604005150 conserved gate region; other site 469604005151 putative PBP binding loops; other site 469604005152 ABC-ATPase subunit interface; other site 469604005153 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469604005154 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 469604005155 substrate binding site [chemical binding]; other site 469604005156 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 469604005157 homopentamer interface [polypeptide binding]; other site 469604005158 active site 469604005159 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 469604005160 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 469604005161 catalytic motif [active] 469604005162 Zn binding site [ion binding]; other site 469604005163 RibD C-terminal domain; Region: RibD_C; cl17279 469604005164 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 469604005165 Lumazine binding domain; Region: Lum_binding; pfam00677 469604005166 Lumazine binding domain; Region: Lum_binding; pfam00677 469604005167 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 469604005168 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 469604005169 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 469604005170 dimerization interface [polypeptide binding]; other site 469604005171 active site 469604005172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604005173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604005174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604005175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604005176 variable surface protein Vir12; Provisional; Region: PTZ00234 469604005177 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 469604005178 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 469604005179 HIGH motif; other site 469604005180 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 469604005181 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 469604005182 active site 469604005183 KMSKS motif; other site 469604005184 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 469604005185 tRNA binding surface [nucleotide binding]; other site 469604005186 RNA polymerase factor sigma-70; Validated; Region: PRK08295 469604005187 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 469604005188 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 469604005189 DNA binding residues [nucleotide binding] 469604005190 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 469604005191 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 469604005192 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 469604005193 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 469604005194 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 469604005195 hinge; other site 469604005196 active site 469604005197 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469604005198 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 469604005199 dimer interface [polypeptide binding]; other site 469604005200 conserved gate region; other site 469604005201 ABC-ATPase subunit interface; other site 469604005202 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 469604005203 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 469604005204 putative PBP binding loops; other site 469604005205 dimer interface [polypeptide binding]; other site 469604005206 ABC-ATPase subunit interface; other site 469604005207 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469604005208 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_3; cd08490 469604005209 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604005210 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 469604005211 Walker A/P-loop; other site 469604005212 ATP binding site [chemical binding]; other site 469604005213 Q-loop/lid; other site 469604005214 ABC transporter signature motif; other site 469604005215 Walker B; other site 469604005216 D-loop; other site 469604005217 H-loop/switch region; other site 469604005218 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469604005219 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 469604005220 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604005221 Walker A/P-loop; other site 469604005222 ATP binding site [chemical binding]; other site 469604005223 Q-loop/lid; other site 469604005224 ABC transporter signature motif; other site 469604005225 Walker B; other site 469604005226 D-loop; other site 469604005227 H-loop/switch region; other site 469604005228 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469604005229 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 469604005230 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604005231 Adhesion protein FadA; Region: FadA; pfam09403 469604005232 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 469604005233 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 469604005234 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 469604005235 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 469604005236 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 469604005237 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 469604005238 Ligand binding site [chemical binding]; other site 469604005239 Electron transfer flavoprotein domain; Region: ETF; pfam01012 469604005240 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 469604005241 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 469604005242 active site 469604005243 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 469604005244 FAD binding domain; Region: FAD_binding_4; pfam01565 469604005245 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 469604005246 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 469604005247 P loop; other site 469604005248 Nucleotide binding site [chemical binding]; other site 469604005249 DTAP/Switch II; other site 469604005250 Switch I; other site 469604005251 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 469604005252 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 469604005253 P loop; other site 469604005254 Nucleotide binding site [chemical binding]; other site 469604005255 DTAP/Switch II; other site 469604005256 Switch I; other site 469604005257 Uncharacterized conserved protein [Function unknown]; Region: COG1556 469604005258 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 469604005259 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 469604005260 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 469604005261 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 469604005262 Cysteine-rich domain; Region: CCG; pfam02754 469604005263 Cysteine-rich domain; Region: CCG; pfam02754 469604005264 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 469604005265 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 469604005266 substrate binding pocket [chemical binding]; other site 469604005267 chain length determination region; other site 469604005268 substrate-Mg2+ binding site; other site 469604005269 catalytic residues [active] 469604005270 aspartate-rich region 1; other site 469604005271 active site lid residues [active] 469604005272 aspartate-rich region 2; other site 469604005273 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 469604005274 UbiA prenyltransferase family; Region: UbiA; pfam01040 469604005275 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 469604005276 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 469604005277 S-adenosylmethionine binding site [chemical binding]; other site 469604005278 oxidoreductase; Provisional; Region: PRK10015 469604005279 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 469604005280 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 469604005281 elongation factor G; Reviewed; Region: PRK12740 469604005282 G1 box; other site 469604005283 putative GEF interaction site [polypeptide binding]; other site 469604005284 GTP/Mg2+ binding site [chemical binding]; other site 469604005285 Switch I region; other site 469604005286 G2 box; other site 469604005287 G3 box; other site 469604005288 Switch II region; other site 469604005289 G4 box; other site 469604005290 G5 box; other site 469604005291 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 469604005292 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 469604005293 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 469604005294 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 469604005295 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 469604005296 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 469604005297 active site turn [active] 469604005298 phosphorylation site [posttranslational modification] 469604005299 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 469604005300 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 469604005301 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 469604005302 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 469604005303 SecY translocase; Region: SecY; pfam00344 469604005304 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 469604005305 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 469604005306 23S rRNA binding site [nucleotide binding]; other site 469604005307 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 469604005308 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 469604005309 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 469604005310 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 469604005311 23S rRNA interface [nucleotide binding]; other site 469604005312 L21e interface [polypeptide binding]; other site 469604005313 5S rRNA interface [nucleotide binding]; other site 469604005314 L27 interface [polypeptide binding]; other site 469604005315 L5 interface [polypeptide binding]; other site 469604005316 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 469604005317 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 469604005318 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 469604005319 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 469604005320 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 469604005321 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 469604005322 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 469604005323 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 469604005324 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 469604005325 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 469604005326 RNA binding site [nucleotide binding]; other site 469604005327 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 469604005328 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 469604005329 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 469604005330 23S rRNA interface [nucleotide binding]; other site 469604005331 putative translocon interaction site; other site 469604005332 signal recognition particle (SRP54) interaction site; other site 469604005333 L23 interface [polypeptide binding]; other site 469604005334 trigger factor interaction site; other site 469604005335 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 469604005336 23S rRNA interface [nucleotide binding]; other site 469604005337 5S rRNA interface [nucleotide binding]; other site 469604005338 putative antibiotic binding site [chemical binding]; other site 469604005339 L25 interface [polypeptide binding]; other site 469604005340 L27 interface [polypeptide binding]; other site 469604005341 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 469604005342 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 469604005343 G-X-X-G motif; other site 469604005344 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 469604005345 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 469604005346 putative translocon binding site; other site 469604005347 protein-rRNA interface [nucleotide binding]; other site 469604005348 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 469604005349 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 469604005350 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 469604005351 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 469604005352 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 469604005353 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 469604005354 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 469604005355 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 469604005356 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604005357 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469604005358 Walker A/P-loop; other site 469604005359 ATP binding site [chemical binding]; other site 469604005360 Q-loop/lid; other site 469604005361 ABC transporter signature motif; other site 469604005362 Walker B; other site 469604005363 D-loop; other site 469604005364 H-loop/switch region; other site 469604005365 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 469604005366 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 469604005367 Walker A/P-loop; other site 469604005368 ATP binding site [chemical binding]; other site 469604005369 Q-loop/lid; other site 469604005370 ABC transporter signature motif; other site 469604005371 Walker B; other site 469604005372 D-loop; other site 469604005373 H-loop/switch region; other site 469604005374 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 469604005375 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 469604005376 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 469604005377 dimer interface [polypeptide binding]; other site 469604005378 conserved gate region; other site 469604005379 putative PBP binding loops; other site 469604005380 ABC-ATPase subunit interface; other site 469604005381 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 469604005382 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 469604005383 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 469604005384 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 469604005385 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_3; cd08490 469604005386 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604005387 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 469604005388 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469604005389 Uncharacterized conserved protein [Function unknown]; Region: COG2461 469604005390 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 469604005391 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 469604005392 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 469604005393 prolyl-tRNA synthetase; Provisional; Region: PRK09194 469604005394 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 469604005395 dimer interface [polypeptide binding]; other site 469604005396 motif 1; other site 469604005397 active site 469604005398 motif 2; other site 469604005399 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 469604005400 putative deacylase active site [active] 469604005401 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 469604005402 active site 469604005403 motif 3; other site 469604005404 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 469604005405 anticodon binding site; other site 469604005406 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 469604005407 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 469604005408 generic binding surface II; other site 469604005409 ssDNA binding site; other site 469604005410 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 469604005411 ATP binding site [chemical binding]; other site 469604005412 putative Mg++ binding site [ion binding]; other site 469604005413 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 469604005414 nucleotide binding region [chemical binding]; other site 469604005415 ATP-binding site [chemical binding]; other site 469604005416 hypothetical protein; Validated; Region: PRK00110 469604005417 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 469604005418 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 469604005419 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 469604005420 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 469604005421 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 469604005422 NAD binding site [chemical binding]; other site 469604005423 substrate binding site [chemical binding]; other site 469604005424 homodimer interface [polypeptide binding]; other site 469604005425 active site 469604005426 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 469604005427 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 469604005428 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 469604005429 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 469604005430 active site 469604005431 metal-binding site 469604005432 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 469604005433 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 469604005434 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469604005435 catalytic residue [active] 469604005436 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 469604005437 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 469604005438 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 469604005439 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 469604005440 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 469604005441 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 469604005442 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_III; cd01996 469604005443 Ligand Binding Site [chemical binding]; other site 469604005444 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 469604005445 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 469604005446 active site 469604005447 homodimer interface [polypeptide binding]; other site 469604005448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 469604005449 NAD(P) binding site [chemical binding]; other site 469604005450 active site 469604005451 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 469604005452 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 469604005453 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 469604005454 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 469604005455 NAD(P) binding site [chemical binding]; other site 469604005456 homodimer interface [polypeptide binding]; other site 469604005457 substrate binding site [chemical binding]; other site 469604005458 active site 469604005459 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 469604005460 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 469604005461 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 469604005462 Bacterial sugar transferase; Region: Bac_transf; pfam02397 469604005463 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 469604005464 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 469604005465 putative trimer interface [polypeptide binding]; other site 469604005466 putative CoA binding site [chemical binding]; other site 469604005467 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 469604005468 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 469604005469 inhibitor-cofactor binding pocket; inhibition site 469604005470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604005471 catalytic residue [active] 469604005472 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 469604005473 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 469604005474 NAD(P) binding site [chemical binding]; other site 469604005475 homodimer interface [polypeptide binding]; other site 469604005476 substrate binding site [chemical binding]; other site 469604005477 active site 469604005478 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 469604005479 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 469604005480 NADP binding site [chemical binding]; other site 469604005481 active site 469604005482 putative substrate binding site [chemical binding]; other site 469604005483 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 469604005484 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 469604005485 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 469604005486 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 469604005487 NADP binding site [chemical binding]; other site 469604005488 homopentamer interface [polypeptide binding]; other site 469604005489 substrate binding site [chemical binding]; other site 469604005490 active site 469604005491 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 469604005492 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 469604005493 active site 469604005494 nucleophile elbow; other site 469604005495 Surface antigen; Region: Bac_surface_Ag; pfam01103 469604005496 hypothetical protein; Provisional; Region: PRK10621 469604005497 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 469604005498 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 469604005499 active site 469604005500 catalytic residues [active] 469604005501 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 469604005502 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 469604005503 RNase E interface [polypeptide binding]; other site 469604005504 trimer interface [polypeptide binding]; other site 469604005505 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 469604005506 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 469604005507 RNase E interface [polypeptide binding]; other site 469604005508 trimer interface [polypeptide binding]; other site 469604005509 active site 469604005510 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 469604005511 putative nucleic acid binding region [nucleotide binding]; other site 469604005512 G-X-X-G motif; other site 469604005513 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 469604005514 RNA binding site [nucleotide binding]; other site 469604005515 domain interface; other site 469604005516 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 469604005517 YGGT family; Region: YGGT; cl00508 469604005518 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 469604005519 MraW methylase family; Region: Methyltransf_5; cl17771 469604005520 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 469604005521 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 469604005522 S-adenosylmethionine binding site [chemical binding]; other site 469604005523 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 469604005524 AAA domain; Region: AAA_14; pfam13173 469604005525 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 469604005526 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 469604005527 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 469604005528 nucleotide binding pocket [chemical binding]; other site 469604005529 K-X-D-G motif; other site 469604005530 catalytic site [active] 469604005531 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 469604005532 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 469604005533 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 469604005534 Dimer interface [polypeptide binding]; other site 469604005535 BRCT sequence motif; other site 469604005536 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 469604005537 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 469604005538 SEC-C motif; Region: SEC-C; pfam02810 469604005539 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 469604005540 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 469604005541 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 469604005542 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 469604005543 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 469604005544 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 469604005545 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 469604005546 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 469604005547 TrkA-N domain; Region: TrkA_N; pfam02254 469604005548 TrkA-C domain; Region: TrkA_C; pfam02080 469604005549 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 469604005550 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 469604005551 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 469604005552 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 469604005553 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 469604005554 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 469604005555 Cl- selectivity filter; other site 469604005556 Cl- binding residues [ion binding]; other site 469604005557 pore gating glutamate residue; other site 469604005558 dimer interface [polypeptide binding]; other site 469604005559 H+/Cl- coupling transport residue; other site 469604005560 TrkA-C domain; Region: TrkA_C; pfam02080 469604005561 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 469604005562 putative substrate binding pocket [chemical binding]; other site 469604005563 AC domain interface; other site 469604005564 catalytic triad [active] 469604005565 AB domain interface; other site 469604005566 interchain disulfide; other site 469604005567 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 469604005568 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 469604005569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 469604005570 catalytic residue [active] 469604005571 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 469604005572 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 469604005573 chorismate binding enzyme; Region: Chorismate_bind; cl10555 469604005574 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 469604005575 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 469604005576 glutamine binding [chemical binding]; other site 469604005577 catalytic triad [active] 469604005578 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 469604005579 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 469604005580 V-type ATP synthase subunit B; Provisional; Region: PRK04196 469604005581 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469604005582 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 469604005583 Walker A motif homologous position; other site 469604005584 Walker B motif; other site 469604005585 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469604005586 V-type ATP synthase subunit A; Provisional; Region: PRK04192 469604005587 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 469604005588 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 469604005589 Walker A motif/ATP binding site; other site 469604005590 Walker B motif; other site 469604005591 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 469604005592 V-type ATP synthase subunit F; Provisional; Region: PRK01395 469604005593 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 469604005594 V-type ATP synthase subunit C; Provisional; Region: PRK01198 469604005595 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 469604005596 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 469604005597 V-type ATP synthase subunit K; Validated; Region: PRK06558 469604005598 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 469604005599 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 469604005600 V-type ATP synthase subunit I; Validated; Region: PRK05771 469604005601 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 469604005602 thiamine phosphate binding site [chemical binding]; other site 469604005603 active site 469604005604 pyrophosphate binding site [ion binding]; other site 469604005605 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 469604005606 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 469604005607 FeS/SAM binding site; other site 469604005608 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 469604005609 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 469604005610 ThiS interaction site; other site 469604005611 putative active site [active] 469604005612 tetramer interface [polypeptide binding]; other site 469604005613 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 469604005614 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 469604005615 putative ATP binding site [chemical binding]; other site 469604005616 putative substrate interface [chemical binding]; other site 469604005617 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 469604005618 thiS-thiF/thiG interaction site; other site 469604005619 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 469604005620 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 469604005621 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 469604005622 thiamine phosphate binding site [chemical binding]; other site 469604005623 active site 469604005624 pyrophosphate binding site [ion binding]; other site 469604005625 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 469604005626 dimer interface [polypeptide binding]; other site 469604005627 substrate binding site [chemical binding]; other site 469604005628 ATP binding site [chemical binding]; other site 469604005629 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 469604005630 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 469604005631 Walker A/P-loop; other site 469604005632 ATP binding site [chemical binding]; other site 469604005633 Q-loop/lid; other site 469604005634 ABC transporter signature motif; other site 469604005635 Walker B; other site 469604005636 D-loop; other site 469604005637 H-loop/switch region; other site 469604005638 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 469604005639 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 469604005640 ABC-ATPase subunit interface; other site 469604005641 dimer interface [polypeptide binding]; other site 469604005642 putative PBP binding regions; other site 469604005643 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 469604005644 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 469604005645 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 469604005646 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 469604005647 N-terminal plug; other site 469604005648 ligand-binding site [chemical binding]; other site 469604005649 Transcriptional regulators [Transcription]; Region: FadR; COG2186 469604005650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 469604005651 DNA-binding site [nucleotide binding]; DNA binding site 469604005652 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 469604005653 Dihydroxyacid dehydratase/phosphogluconate dehydratase [Amino acid transport and metabolism / Carbohydrate transport and metabolism]; Region: IlvD; COG0129 469604005654 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 469604005655 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 469604005656 substrate binding site [chemical binding]; other site 469604005657 ATP binding site [chemical binding]; other site 469604005658 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 469604005659 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 469604005660 active site 469604005661 intersubunit interface [polypeptide binding]; other site 469604005662 catalytic residue [active] 469604005663 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 469604005664 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 469604005665 ligand binding site [chemical binding]; other site 469604005666 NAD binding site [chemical binding]; other site 469604005667 catalytic site [active] 469604005668 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 469604005669 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 469604005670 NADP binding site [chemical binding]; other site 469604005671 homodimer interface [polypeptide binding]; other site 469604005672 active site 469604005673 KduI/IolB family; Region: KduI; cl01508 469604005674 DctM-like transporters; Region: DctM; pfam06808 469604005675 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 469604005676 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 469604005677 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 469604005678 GDYXXLXY protein; Region: GDYXXLXY; cl02066 469604005679 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 469604005680 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 469604005681 homotrimer interaction site [polypeptide binding]; other site 469604005682 putative active site [active] 469604005683 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 469604005684 PLD-like domain; Region: PLDc_2; pfam13091 469604005685 putative homodimer interface [polypeptide binding]; other site 469604005686 putative active site [active] 469604005687 catalytic site [active] 469604005688 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 469604005689 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 469604005690 ATP binding site [chemical binding]; other site 469604005691 putative Mg++ binding site [ion binding]; other site 469604005692 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 469604005693 nucleotide binding region [chemical binding]; other site 469604005694 ATP-binding site [chemical binding]; other site 469604005695 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 469604005696 DEAD-like helicases superfamily; Region: DEXDc; smart00487 469604005697 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 469604005698 ATP binding site [chemical binding]; other site 469604005699 Mg++ binding site [ion binding]; other site 469604005700 motif III; other site 469604005701 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 469604005702 nucleotide binding region [chemical binding]; other site 469604005703 ATP-binding site [chemical binding]; other site 469604005704 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 469604005705 RNA binding site [nucleotide binding]; other site 469604005706 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 469604005707 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 469604005708 dimerization interface [polypeptide binding]; other site 469604005709 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 469604005710 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 469604005711 Ligand Binding Site [chemical binding]; other site 469604005712 TilS substrate C-terminal domain; Region: TilS_C; smart00977 469604005713 FtsH Extracellular; Region: FtsH_ext; pfam06480 469604005714 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 469604005715 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 469604005716 Walker A motif; other site 469604005717 ATP binding site [chemical binding]; other site 469604005718 Walker B motif; other site 469604005719 arginine finger; other site 469604005720 Peptidase family M41; Region: Peptidase_M41; pfam01434 469604005721 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 469604005722 16S/18S rRNA binding site [nucleotide binding]; other site 469604005723 S13e-L30e interaction site [polypeptide binding]; other site 469604005724 25S rRNA binding site [nucleotide binding]; other site 469604005725 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 469604005726 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 469604005727 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 469604005728 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 469604005729 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 469604005730 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 469604005731 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604005732 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 469604005733 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469604005734 ligand binding site [chemical binding]; other site 469604005735 peroxiredoxin; Region: AhpC; TIGR03137 469604005736 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 469604005737 dimer interface [polypeptide binding]; other site 469604005738 decamer (pentamer of dimers) interface [polypeptide binding]; other site 469604005739 catalytic triad [active] 469604005740 peroxidatic and resolving cysteines [active] 469604005741 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 469604005742 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 469604005743 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 469604005744 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 469604005745 catalytic residue [active] 469604005746 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 469604005747 catalytic residues [active] 469604005748 Inner membrane protein CreD; Region: CreD; cl01844 469604005749 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 469604005750 YARHG domain; Region: YARHG; pfam13308 469604005751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 469604005752 Helix-turn-helix domain; Region: HTH_28; pfam13518 469604005753 HTH-like domain; Region: HTH_21; pfam13276 469604005754 Integrase core domain; Region: rve; pfam00665 469604005755 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 469604005756 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 469604005757 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 469604005758 intersubunit interface [polypeptide binding]; other site 469604005759 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 469604005760 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 469604005761 ABC-ATPase subunit interface; other site 469604005762 dimer interface [polypeptide binding]; other site 469604005763 putative PBP binding regions; other site 469604005764 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 469604005765 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 469604005766 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 469604005767 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 469604005768 intersubunit interface [polypeptide binding]; other site 469604005769 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 469604005770 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 469604005771 intersubunit interface [polypeptide binding]; other site 469604005772 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 469604005773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 469604005774 Walker A/P-loop; other site 469604005775 ATP binding site [chemical binding]; other site 469604005776 Q-loop/lid; other site 469604005777 ABC transporter signature motif; other site 469604005778 Walker B; other site 469604005779 H-loop/switch region; other site 469604005780 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 469604005781 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 469604005782 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 469604005783 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 469604005784 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 469604005785 FeS/SAM binding site; other site 469604005786 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 469604005787 AAA domain; Region: AAA_14; pfam13173 469604005788 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 469604005789 chaperone protein DnaJ; Provisional; Region: PRK10767 469604005790 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 469604005791 HSP70 interaction site [polypeptide binding]; other site 469604005792 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 469604005793 substrate binding site [polypeptide binding]; other site 469604005794 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 469604005795 Zn binding sites [ion binding]; other site 469604005796 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 469604005797 dimer interface [polypeptide binding]; other site 469604005798 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 469604005799 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 469604005800 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 469604005801 DNA binding site [nucleotide binding] 469604005802 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 469604005803 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 469604005804 nucleotide binding site [chemical binding]; other site 469604005805 NEF interaction site [polypeptide binding]; other site 469604005806 SBD interface [polypeptide binding]; other site 469604005807 GrpE; Region: GrpE; pfam01025 469604005808 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 469604005809 dimer interface [polypeptide binding]; other site 469604005810 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 469604005811 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 469604005812 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 469604005813 seryl-tRNA synthetase; Provisional; Region: PRK05431 469604005814 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 469604005815 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 469604005816 dimer interface [polypeptide binding]; other site 469604005817 active site 469604005818 motif 1; other site 469604005819 motif 2; other site 469604005820 motif 3; other site 469604005821 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 469604005822 putative dimer interface [polypeptide binding]; other site 469604005823 catalytic triad [active] 469604005824 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 469604005825 Na binding site [ion binding]; other site 469604005826 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 469604005827 dimer interface [polypeptide binding]; other site 469604005828 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 469604005829 putative radical transfer pathway; other site 469604005830 diiron center [ion binding]; other site 469604005831 tyrosyl radical; other site 469604005832 ATP cone domain; Region: ATP-cone; pfam03477 469604005833 Ribonucleotide reductase, alpha subunit [Nucleotide transport and metabolism]; Region: NrdA; COG0209 469604005834 Class I ribonucleotide reductase; Region: RNR_I; cd01679 469604005835 active site 469604005836 dimer interface [polypeptide binding]; other site 469604005837 catalytic residues [active] 469604005838 effector binding site; other site 469604005839 R2 peptide binding site; other site 469604005840 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 469604005841 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 469604005842 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; cd00322 469604005843 FAD binding pocket [chemical binding]; other site 469604005844 conserved FAD binding motif [chemical binding]; other site 469604005845 phosphate binding motif [ion binding]; other site 469604005846 beta-alpha-beta structure motif; other site 469604005847 NAD binding pocket [chemical binding]; other site 469604005848 Inorganic pyrophosphatase [Energy production and conversion]; Region: Ppa; COG0221 469604005849 substrate binding site [chemical binding]; other site 469604005850 metal binding sites [ion binding]; metal-binding site 469604005851 dimer interface [polypeptide binding]; other site 469604005852 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 469604005853 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 469604005854 catalytic triad [active] 469604005855 catalytic triad [active] 469604005856 oxyanion hole [active] 469604005857 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 469604005858 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 469604005859 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 469604005860 ApbE family; Region: ApbE; pfam02424 469604005861 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 469604005862 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 469604005863 catalytic site [active] 469604005864 G-X2-G-X-G-K; other site 469604005865 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 469604005866 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 469604005867 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 469604005868 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 469604005869 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 469604005870 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 469604005871 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 469604005872 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 469604005873 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 469604005874 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 469604005875 cleft; other site 469604005876 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 469604005877 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 469604005878 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 469604005879 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 469604005880 DNA binding site [nucleotide binding] 469604005881 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 469604005882 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 469604005883 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 469604005884 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 469604005885 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 469604005886 RPB1 interaction site [polypeptide binding]; other site 469604005887 RPB10 interaction site [polypeptide binding]; other site 469604005888 RPB11 interaction site [polypeptide binding]; other site 469604005889 RPB3 interaction site [polypeptide binding]; other site 469604005890 RPB12 interaction site [polypeptide binding]; other site 469604005891 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 469604005892 peripheral dimer interface [polypeptide binding]; other site 469604005893 core dimer interface [polypeptide binding]; other site 469604005894 L10 interface [polypeptide binding]; other site 469604005895 L11 interface [polypeptide binding]; other site 469604005896 putative EF-Tu interaction site [polypeptide binding]; other site 469604005897 putative EF-G interaction site [polypeptide binding]; other site 469604005898 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 469604005899 23S rRNA interface [nucleotide binding]; other site 469604005900 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 469604005901 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 469604005902 mRNA/rRNA interface [nucleotide binding]; other site 469604005903 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 469604005904 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 469604005905 23S rRNA interface [nucleotide binding]; other site 469604005906 L7/L12 interface [polypeptide binding]; other site 469604005907 putative thiostrepton binding site; other site 469604005908 L25 interface [polypeptide binding]; other site 469604005909 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 469604005910 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 469604005911 putative homodimer interface [polypeptide binding]; other site 469604005912 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 469604005913 heterodimer interface [polypeptide binding]; other site 469604005914 homodimer interface [polypeptide binding]; other site 469604005915 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 469604005916 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 469604005917 Tudor domain; Region: TUDOR; pfam00567 469604005918 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 469604005919 metal binding site 2 [ion binding]; metal-binding site 469604005920 putative DNA binding helix; other site 469604005921 metal binding site 1 [ion binding]; metal-binding site 469604005922 dimer interface [polypeptide binding]; other site 469604005923 structural Zn2+ binding site [ion binding]; other site 469604005924 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 469604005925 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 469604005926 Coenzyme A binding pocket [chemical binding]; other site 469604005927 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 469604005928 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 469604005929 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 469604005930 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 469604005931 active site 469604005932 dimer interface [polypeptide binding]; other site 469604005933 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 469604005934 dimer interface [polypeptide binding]; other site 469604005935 active site 469604005936 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 469604005937 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 469604005938 Autotransporter beta-domain; Region: Autotransporter; pfam03797 469604005939 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 469604005940 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 469604005941 ligand binding site [chemical binding]; other site 469604005942 Adhesion protein FadA; Region: FadA; pfam09403 469604005943 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 469604005944 non-specific DNA binding site [nucleotide binding]; other site 469604005945 salt bridge; other site 469604005946 sequence-specific DNA binding site [nucleotide binding]; other site 469604005947 Domain of unknown function (DUF955); Region: DUF955; cl01076 469604005948 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 469604005949 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 469604005950 catalytic residues [active] 469604005951 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 469604005952 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 469604005953 Zn2+ binding site [ion binding]; other site 469604005954 Mg2+ binding site [ion binding]; other site 469604005955 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 469604005956 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 469604005957 cobyric acid synthase; Provisional; Region: PRK00784 469604005958 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 469604005959 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 469604005960 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 469604005961 catalytic triad [active] 469604005962 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 469604005963 Late embryogenesis abundant protein; Region: LEA_4; pfam02987 469604005964 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 469604005965 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 469604005966 active site 469604005967 Zn binding site [ion binding]; other site 469604005968 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 469604005969 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 469604005970 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 469604005971 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 469604005972 trimerization site [polypeptide binding]; other site 469604005973 active site 469604005974 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 469604005975 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 469604005976 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 469604005977 catalytic residue [active] 469604005978 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 469604005979 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 469604005980 minor groove reading motif; other site 469604005981 helix-hairpin-helix signature motif; other site 469604005982 substrate binding pocket [chemical binding]; other site 469604005983 active site 469604005984 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 469604005985 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 469604005986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 469604005987 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 469604005988 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 469604005989 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 469604005990 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 469604005991 active site 469604005992 HIGH motif; other site 469604005993 dimer interface [polypeptide binding]; other site 469604005994 KMSKS motif; other site 469604005995 S4 domain; Region: S4; pfam01479 469604005996 RNA binding surface [nucleotide binding]; other site 469604005997 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 469604005998 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 469604005999 putative ArsC-like catalytic residues; other site 469604006000 putative TRX-like catalytic residues [active] 469604006001 FMN-binding domain; Region: FMN_bind; cl01081 469604006002 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 469604006003 L-aspartate oxidase; Provisional; Region: PRK06175 469604006004 Transposase IS200 like; Region: Y1_Tnp; pfam01797 469604006005 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 469604006006 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 469604006007 active site 469604006008 motif I; other site 469604006009 motif II; other site 469604006010 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 469604006011 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 469604006012 active site 469604006013 putative catalytic site [active] 469604006014 DNA binding site [nucleotide binding] 469604006015 putative phosphate binding site [ion binding]; other site 469604006016 metal binding site A [ion binding]; metal-binding site 469604006017 AP binding site [nucleotide binding]; other site 469604006018 metal binding site B [ion binding]; metal-binding site 469604006019 Dehydroquinase class II; Region: DHquinase_II; pfam01220 469604006020 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 469604006021 trimer interface [polypeptide binding]; other site 469604006022 active site 469604006023 dimer interface [polypeptide binding]; other site 469604006024 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 469604006025 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 469604006026 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 469604006027 shikimate binding site; other site 469604006028 NAD(P) binding site [chemical binding]; other site 469604006029 monofunctional chorismate mutase, gram positive-type, clade 2; Region: CM_mono_grmpos; TIGR01805 469604006030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604006031 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 469604006032 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 469604006033 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 469604006034 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 469604006035 putative dimer interface [polypeptide binding]; other site 469604006036 putative anticodon binding site; other site 469604006037 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 469604006038 homodimer interface [polypeptide binding]; other site 469604006039 motif 1; other site 469604006040 motif 2; other site 469604006041 active site 469604006042 motif 3; other site 469604006043 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 469604006044 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 469604006045 putative active site [active] 469604006046 putative metal binding site [ion binding]; other site 469604006047 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 469604006048 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 469604006049 Predicted membrane protein [Function unknown]; Region: COG2323 469604006050 Predicted membrane protein [Function unknown]; Region: COG2261 469604006051 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 469604006052 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 469604006053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 469604006054 hypothetical protein; Provisional; Region: PRK11588 469604006055 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 469604006056 Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]; Region: SpoVG; COG2088 469604006057 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 469604006058 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 469604006059 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 469604006060 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 469604006061 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 469604006062 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 469604006063 ATP binding site [chemical binding]; other site 469604006064 putative Mg++ binding site [ion binding]; other site 469604006065 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 469604006066 nucleotide binding region [chemical binding]; other site 469604006067 ATP-binding site [chemical binding]; other site 469604006068 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 469604006069 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 469604006070 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 469604006071 Protein of unknown function (DUF554); Region: DUF554; pfam04474 469604006072 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 469604006073 AAA domain; Region: AAA_17; pfam13207 469604006074 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 469604006075 HTH domain; Region: HTH_11; pfam08279 469604006076 3H domain; Region: 3H; pfam02829 469604006077 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 469604006078 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 469604006079 dimerization interface [polypeptide binding]; other site 469604006080 active site 469604006081 L-aspartate oxidase; Provisional; Region: PRK06175 469604006082 FAD binding domain; Region: FAD_binding_2; pfam00890 469604006083 Quinolinate synthetase A protein; Region: NadA; pfam02445 469604006084 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 469604006085 EamA-like transporter family; Region: EamA; pfam00892 469604006086 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 469604006087 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 469604006088 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 469604006089 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 469604006090 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 469604006091 trmE is a tRNA modification GTPase; Region: trmE; cd04164 469604006092 G1 box; other site 469604006093 GTP/Mg2+ binding site [chemical binding]; other site 469604006094 Switch I region; other site 469604006095 G2 box; other site 469604006096 Switch II region; other site 469604006097 G3 box; other site 469604006098 G4 box; other site 469604006099 G5 box; other site 469604006100 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 469604006101 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 469604006102 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 469604006103 G-X-X-G motif; other site 469604006104 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 469604006105 RxxxH motif; other site 469604006106 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 469604006107 Haemolytic domain; Region: Haemolytic; pfam01809 469604006108 Ribonuclease P; Region: Ribonuclease_P; pfam00825 469604006109 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399