-- dump date 20111121_013545 -- class Genbank::misc_feature -- table misc_feature_note -- id note 489653000001 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 489653000002 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 489653000003 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 489653000004 glycerate dehydrogenase; Provisional; Region: PRK06487 489653000005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653000006 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 489653000007 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 489653000008 active site 489653000009 HIGH motif; other site 489653000010 KMSKS motif; other site 489653000011 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 489653000012 tRNA binding surface [nucleotide binding]; other site 489653000013 anticodon binding site; other site 489653000014 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 489653000015 dimer interface [polypeptide binding]; other site 489653000016 putative tRNA-binding site [nucleotide binding]; other site 489653000017 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 489653000018 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...; Region: GFAT; cd00714 489653000019 glutaminase active site [active] 489653000020 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 489653000021 dimer interface [polypeptide binding]; other site 489653000022 active site 489653000023 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 489653000024 dimer interface [polypeptide binding]; other site 489653000025 active site 489653000026 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 489653000027 MltA specific insert domain; Region: MltA; pfam03562 489653000028 3D domain; Region: 3D; cl01439 489653000029 Iron permease FTR1 family; Region: FTR1; cl00475 489653000030 Imelysin; Region: Peptidase_M75; cl09159 489653000031 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 489653000032 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 489653000033 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 489653000034 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 489653000035 PhnA protein; Region: PhnA; pfam03831 489653000036 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 489653000037 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 489653000038 Substrate binding site [chemical binding]; other site 489653000039 Mg++ binding site [ion binding]; other site 489653000040 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 489653000041 active site 489653000042 substrate binding site [chemical binding]; other site 489653000043 CoA binding site [chemical binding]; other site 489653000044 hypothetical protein (pseudogene) 489653000045 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 489653000046 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 489653000047 Mechanosensitive ion channel; Region: MS_channel; pfam00924 489653000048 Competence-damaged protein; Region: CinA; cl00666 489653000049 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 489653000050 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...; Region: TlpA_like_family; cd02966 489653000051 catalytic residues [active] 489653000052 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 489653000053 SelR domain; Region: SelR; cl00369 489653000054 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 489653000055 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 489653000056 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 489653000057 P loop; other site 489653000058 GTP binding site [chemical binding]; other site 489653000059 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 489653000060 hypothetical membrane protein, TIGR01666; Region: YCCS 489653000061 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 489653000062 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 489653000063 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653000064 Walker A motif; other site 489653000065 ATP binding site [chemical binding]; other site 489653000066 Walker B motif; other site 489653000067 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 489653000068 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 489653000069 Walker A motif; other site 489653000070 ATP binding site [chemical binding]; other site 489653000071 Walker B motif; other site 489653000072 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 489653000073 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 489653000074 catalytic residue [active] 489653000075 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 489653000076 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 489653000077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653000078 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 489653000079 DNA transport competence protein (pseudogene) 489653000080 chaperone protein DnaJ; Provisional; Region: PRK10767 489653000081 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...; Region: DnaJ; cd06257 489653000082 HSP70 interaction site [polypeptide binding]; other site 489653000083 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 489653000084 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 489653000085 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 489653000086 OPT oligopeptide transporter protein; Region: OPT; cl14607 489653000087 putative oligopeptide transporter, OPT family; Region: TIGR00733 489653000088 Cupin domain; Region: Cupin_2; cl09118 489653000089 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 489653000090 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 489653000091 substrate binding site [chemical binding]; other site 489653000092 tetramer interface [polypeptide binding]; other site 489653000093 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 489653000094 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 489653000095 NAD binding site [chemical binding]; other site 489653000096 substrate binding site [chemical binding]; other site 489653000097 homodimer interface [polypeptide binding]; other site 489653000098 active site 489653000099 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 489653000100 UDP-glucose-4-epimerase; Region: galE; TIGR01179 489653000101 NAD binding site [chemical binding]; other site 489653000102 homodimer interface [polypeptide binding]; other site 489653000103 active site 489653000104 substrate binding site [chemical binding]; other site 489653000105 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 489653000106 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 489653000107 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 489653000108 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...; Region: S1_Tex; cd05685 489653000109 RNA binding site [nucleotide binding]; other site 489653000110 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 489653000111 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 489653000112 cyanate hydratase; Validated; Region: PRK02866 489653000113 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 489653000114 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 489653000115 pyruvate kinase; Provisional; Region: PRK05826 489653000116 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 489653000117 domain interfaces; other site 489653000118 active site 489653000119 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 489653000120 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 489653000121 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 489653000122 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 489653000123 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 489653000124 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 489653000125 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 489653000126 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 489653000127 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 489653000128 putative peptidoglycan binding site; other site 489653000129 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(...; Region: Pep_deformylase; cd00487 489653000130 active site 489653000131 catalytic residues [active] 489653000132 metal binding site [ion binding]; metal-binding site 489653000133 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 489653000134 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 489653000135 putative active site [active] 489653000136 substrate binding site [chemical binding]; other site 489653000137 putative cosubstrate binding site; other site 489653000138 catalytic site [active] 489653000139 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 489653000140 substrate binding site [chemical binding]; other site 489653000141 16S rRNA methyltransferase B; Provisional; Region: PRK10901 489653000142 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 489653000143 putative RNA binding site [nucleotide binding]; other site 489653000144 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 489653000145 S-adenosylmethionine binding site [chemical binding]; other site 489653000146 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 489653000147 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 connected by an extended linker. The...; Region: HAMP; cd06225 489653000148 dimerization interface [polypeptide binding]; other site 489653000149 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 trans-...; Region: HisKA; cl00080 489653000150 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 489653000151 ATP binding site [chemical binding]; other site 489653000152 Mg2+ binding site [ion binding]; other site 489653000153 G-X-G motif; other site 489653000154 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 489653000155 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 489653000156 active site 489653000157 phosphorylation site [posttranslational modification] 489653000158 intermolecular recognition site; other site 489653000159 dimerization interface [polypeptide binding]; other site 489653000160 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653000161 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 489653000162 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 489653000163 Protein of unknown function (DUF494); Region: DUF494; cl01103 489653000164 DNA topoisomerase I; Validated; Region: PRK06599 489653000165 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 489653000166 active site 489653000167 interdomain interaction site; other site 489653000168 putative metal-binding site [ion binding]; other site 489653000169 nucleotide binding site [chemical binding]; other site 489653000170 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...; Region: TOP1Ac; cd00186 489653000171 domain I; other site 489653000172 DNA binding groove [nucleotide binding] 489653000173 phosphate binding site [ion binding]; other site 489653000174 domain II; other site 489653000175 domain III; other site 489653000176 nucleotide binding site [chemical binding]; other site 489653000177 catalytic site [active] 489653000178 domain IV; other site 489653000179 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 489653000180 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 489653000181 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 489653000182 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 489653000183 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 489653000184 non-specific DNA binding site [nucleotide binding]; other site 489653000185 salt bridge; other site 489653000186 sequence-specific DNA binding site [nucleotide binding]; other site 489653000187 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 489653000188 S-adenosylmethionine binding site [chemical binding]; other site 489653000189 ferredoxin; Validated; Region: PRK07118 489653000190 elongation factor Tu; Reviewed; Region: PRK00049 489653000191 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 489653000192 G1 box; other site 489653000193 GEF interaction site [polypeptide binding]; other site 489653000194 GTP/Mg2+ binding site [chemical binding]; other site 489653000195 Switch I region; other site 489653000196 G2 box; other site 489653000197 G3 box; other site 489653000198 Switch II region; other site 489653000199 G4 box; other site 489653000200 G5 box; other site 489653000201 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 489653000202 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 489653000203 Antibiotic Binding Site [chemical binding]; other site 489653000204 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 489653000205 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 489653000206 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 489653000207 putative homodimer interface [polypeptide binding]; other site 489653000208 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 489653000209 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 489653000210 23S rRNA interface [nucleotide binding]; other site 489653000211 L7/L12 interface [polypeptide binding]; other site 489653000212 putative thiostrepton binding site; other site 489653000213 L25 interface [polypeptide binding]; other site 489653000214 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...; Region: Ribosomal_L1; cd00403 489653000215 mRNA/rRNA interface [nucleotide binding]; other site 489653000216 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...; Region: Ribosomal_L10; cd05797 489653000217 23S rRNA interface [nucleotide binding]; other site 489653000218 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 489653000219 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 489653000220 core dimer interface [polypeptide binding]; other site 489653000221 peripheral dimer interface [polypeptide binding]; other site 489653000222 L10 interface [polypeptide binding]; other site 489653000223 L11 interface [polypeptide binding]; other site 489653000224 putative EF-Tu interaction site [polypeptide binding]; other site 489653000225 putative EF-G interaction site [polypeptide binding]; other site 489653000226 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 489653000227 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 489653000228 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 489653000229 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 489653000230 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 489653000231 RPB11 interaction site [polypeptide binding]; other site 489653000232 RPB12 interaction site [polypeptide binding]; other site 489653000233 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 489653000234 RPB3 interaction site [polypeptide binding]; other site 489653000235 RPB1 interaction site [polypeptide binding]; other site 489653000236 RPB11 interaction site [polypeptide binding]; other site 489653000237 RPB10 interaction site [polypeptide binding]; other site 489653000238 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 489653000239 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 489653000240 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 489653000241 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 489653000242 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 489653000243 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 489653000244 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 489653000245 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 489653000246 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 489653000247 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 489653000248 DNA binding site [nucleotide binding] 489653000249 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 489653000250 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 489653000251 non-specific DNA binding site [nucleotide binding]; other site 489653000252 salt bridge; other site 489653000253 sequence-specific DNA binding site [nucleotide binding]; other site 489653000254 transcriptional regulator ICP4; Provisional; Region: PHA03307 489653000255 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 489653000256 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 489653000257 Protein of unknown function (DUF560); Region: DUF560; pfam04575 489653000258 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 489653000259 S17 interaction site [polypeptide binding]; other site 489653000260 S8 interaction site; other site 489653000261 16S rRNA interaction site [nucleotide binding]; other site 489653000262 streptomycin interaction site [chemical binding]; other site 489653000263 23S rRNA interaction site [nucleotide binding]; other site 489653000264 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 489653000265 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 489653000266 elongation factor G; Reviewed; Region: PRK00007 489653000267 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 489653000268 G1 box; other site 489653000269 putative GEF interaction site [polypeptide binding]; other site 489653000270 GTP/Mg2+ binding site [chemical binding]; other site 489653000271 Switch I region; other site 489653000272 G2 box; other site 489653000273 G3 box; other site 489653000274 Switch II region; other site 489653000275 G4 box; other site 489653000276 G5 box; other site 489653000277 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...; Region: EFG_mtEFG_II; cd04088 489653000278 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...; Region: EFG_mtEFG1_IV; cd01434 489653000279 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...; Region: EFG_mtEFG_C; cd03713 489653000280 elongation factor Tu; Reviewed; Region: PRK00049 489653000281 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 489653000282 G1 box; other site 489653000283 GEF interaction site [polypeptide binding]; other site 489653000284 GTP/Mg2+ binding site [chemical binding]; other site 489653000285 Switch I region; other site 489653000286 G2 box; other site 489653000287 G3 box; other site 489653000288 Switch II region; other site 489653000289 G4 box; other site 489653000290 G5 box; other site 489653000291 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 489653000292 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 489653000293 Antibiotic Binding Site [chemical binding]; other site 489653000294 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 489653000295 Predicted GTPase [General function prediction only]; Region: COG3596 489653000296 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 489653000297 G1 box; other site 489653000298 GTP/Mg2+ binding site [chemical binding]; other site 489653000299 G2 box; other site 489653000300 Switch I region; other site 489653000301 G3 box; other site 489653000302 Switch II region; other site 489653000303 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 489653000304 G1 box; other site 489653000305 GTP/Mg2+ binding site [chemical binding]; other site 489653000306 Switch I region; other site 489653000307 G2 box; other site 489653000308 Switch II region; other site 489653000309 G3 box; other site 489653000310 G4 box; other site 489653000311 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 489653000312 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 489653000313 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 489653000314 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 489653000315 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 489653000316 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 489653000317 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 489653000318 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 489653000319 putative translocon binding site; other site 489653000320 protein-rRNA interface [nucleotide binding]; other site 489653000321 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 489653000322 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...; Region: 30S_S3_KH; cd02412 489653000323 G-X-X-G motif; other site 489653000324 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 489653000325 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 489653000326 23S rRNA interface [nucleotide binding]; other site 489653000327 5S rRNA interface [nucleotide binding]; other site 489653000328 putative antibiotic binding site [chemical binding]; other site 489653000329 L25 interface [polypeptide binding]; other site 489653000330 L27 interface [polypeptide binding]; other site 489653000331 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...; Region: Ribosomal_L29_HIP; cd00427 489653000332 23S rRNA interface [nucleotide binding]; other site 489653000333 putative translocon interaction site; other site 489653000334 signal recognition particle (SRP54) interaction site; other site 489653000335 L23 interface [polypeptide binding]; other site 489653000336 trigger factor interaction site; other site 489653000337 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 489653000338 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 489653000339 KOW motif; Region: KOW; cl00354 489653000340 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 489653000341 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 489653000342 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 489653000343 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 489653000344 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 489653000345 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 489653000346 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 489653000347 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 489653000348 5S rRNA interface [nucleotide binding]; other site 489653000349 23S rRNA interface [nucleotide binding]; other site 489653000350 L5 interface [polypeptide binding]; other site 489653000351 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 489653000352 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 489653000353 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 489653000354 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...; Region: Ribosomal_L30; cd01658 489653000355 23S rRNA binding site [nucleotide binding]; other site 489653000356 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 489653000357 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 489653000358 SecY translocase; Region: SecY; pfam00344 489653000359 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 489653000360 rRNA binding site [nucleotide binding]; other site 489653000361 predicted 30S ribosome binding site; other site 489653000362 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 489653000363 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 489653000364 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 489653000365 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 489653000366 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 489653000367 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 489653000368 RNA binding surface [nucleotide binding]; other site 489653000369 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 489653000370 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 489653000371 alphaNTD homodimer interface [polypeptide binding]; other site 489653000372 alphaNTD - beta interaction site [polypeptide binding]; other site 489653000373 alphaNTD - beta' interaction site [polypeptide binding]; other site 489653000374 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 489653000375 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 489653000376 septum formation inhibitor; Reviewed; Region: minC; PRK04516 489653000377 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 489653000378 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 489653000379 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 489653000380 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...; Region: MinD; cd02036 489653000381 Switch I; other site 489653000382 Switch II; other site 489653000383 Septum formation topological specificity factor MinE; Region: MinE; cl00538 489653000384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 489653000385 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653000386 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 489653000387 dimerization interface [polypeptide binding]; other site 489653000388 transposase (fragment) 489653000389 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta)...; Region: PL_Passenger_AT; cl00185 489653000390 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 489653000391 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 489653000392 HIGH motif; other site 489653000393 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 489653000394 active site 489653000395 KMSKS motif; other site 489653000396 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 489653000397 tRNA binding surface [nucleotide binding]; other site 489653000398 anticodon binding site; other site 489653000399 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 489653000400 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 489653000401 active site 489653000402 ATP binding site [chemical binding]; other site 489653000403 substrate binding site [chemical binding]; other site 489653000404 activation loop (A-loop); other site 489653000405 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 489653000406 metal ion-dependent adhesion site (MIDAS); other site 489653000407 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 489653000408 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 489653000409 active site 489653000410 Abi-like protein; Region: Abi_2; cl01988 489653000411 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 489653000412 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 489653000413 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 489653000414 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-2,3-...; Region: LbH_LpxD; cd03352 489653000415 trimer interface [polypeptide binding]; other site 489653000416 active site 489653000417 UDP-GlcNAc binding site [chemical binding]; other site 489653000418 lipid binding site [chemical binding]; lipid-binding site 489653000419 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 489653000420 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 489653000421 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 489653000422 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 489653000423 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 489653000424 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 489653000425 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 489653000426 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 489653000427 Surface antigen; Region: Bac_surface_Ag; cl03097 489653000428 zinc metallopeptidase RseP; Provisional; Region: PRK10779 489653000429 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 489653000430 active site 489653000431 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...; Region: PDZ_metalloprotease; cd00989 489653000432 protein binding site [polypeptide binding]; other site 489653000433 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...; Region: PDZ_metalloprotease; cd00989 489653000434 protein binding site [polypeptide binding]; other site 489653000435 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 489653000436 putative substrate binding region [chemical binding]; other site 489653000437 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 489653000438 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 489653000439 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 489653000440 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 489653000441 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 489653000442 catalytic residue [active] 489653000443 putative FPP diphosphate binding site; other site 489653000444 putative FPP binding hydrophobic cleft; other site 489653000445 dimer interface [polypeptide binding]; other site 489653000446 putative IPP diphosphate binding site; other site 489653000447 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 489653000448 hinge region; other site 489653000449 Predicted membrane protein [Function unknown]; Region: COG1289 489653000450 Virulence-associated protein E; Region: VirE; pfam05272 489653000451 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 489653000452 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 489653000453 S-adenosylmethionine binding site [chemical binding]; other site 489653000454 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 489653000455 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...; Region: ParA; cd02042 489653000456 P-loop; other site 489653000457 Magnesium ion binding site [ion binding]; other site 489653000458 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 489653000459 DTAP/Switch II; other site 489653000460 Switch I; other site 489653000461 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...; Region: ParA; cd02042 489653000462 Magnesium ion binding site [ion binding]; other site 489653000463 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 489653000464 RNA/DNA hybrid binding site [nucleotide binding]; other site 489653000465 active site 489653000466 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 489653000467 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 489653000468 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 489653000469 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 489653000470 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 489653000471 ribonuclease E; Reviewed; Region: rne; PRK10811 489653000472 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 489653000473 homodimer interface [polypeptide binding]; other site 489653000474 oligonucleotide binding site [chemical binding]; other site 489653000475 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 489653000476 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 489653000477 RNA binding surface [nucleotide binding]; other site 489653000478 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 489653000479 active site 489653000480 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 489653000481 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 489653000482 dihydrodipicolinate reductase; Provisional; Region: PRK00048 489653000483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653000484 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 489653000485 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 489653000486 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 489653000487 metal binding site 2 [ion binding]; metal-binding site 489653000488 putative DNA binding helix; other site 489653000489 metal binding site 1 [ion binding]; metal-binding site 489653000490 dimer interface [polypeptide binding]; other site 489653000491 structural Zn2+ binding site [ion binding]; other site 489653000492 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 489653000493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653000494 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 489653000495 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 489653000496 electron transport complex protein RnfB; Provisional; Region: PRK05113 489653000497 Putative Fe-S cluster; Region: FeS; pfam04060 489653000498 4Fe-4S binding domain; Region: Fer4; cl02805 489653000499 electron transport complex protein RnfC; Provisional; Region: PRK05035 489653000500 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 489653000501 putative cation:proton antiport protein; Provisional; Region: PRK10669 489653000502 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 489653000503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653000504 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653000505 ICEA Protein; Region: ICEA; pfam05315 489653000506 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 489653000507 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 489653000508 EcoRII C terminal; Region: EcoRII-C; pfam09019 489653000509 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 489653000510 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 489653000511 cofactor binding site; other site 489653000512 DNA binding site [nucleotide binding] 489653000513 substrate interaction site [chemical binding]; other site 489653000514 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 489653000515 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 489653000516 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 489653000517 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 489653000518 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 489653000519 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 489653000520 anchoring element; other site 489653000521 dimer interface [polypeptide binding]; other site 489653000522 ATP binding site [chemical binding]; other site 489653000523 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 489653000524 active site 489653000525 putative metal-binding site [ion binding]; other site 489653000526 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 489653000527 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 489653000528 Mechanosensitive ion channel; Region: MS_channel; pfam00924 489653000529 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 489653000530 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 489653000531 active site 489653000532 Zn binding site [ion binding]; other site 489653000533 Predicted membrane protein [Function unknown]; Region: COG1971 489653000534 Domain of unknown function DUF; Region: DUF204; pfam02659 489653000535 Domain of unknown function DUF; Region: DUF204; pfam02659 489653000536 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 489653000537 Pilin (bacterial filament); Region: Pilin; pfam00114 489653000538 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 489653000539 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 489653000540 tetramer interface [polypeptide binding]; other site 489653000541 heme binding pocket [chemical binding]; other site 489653000542 NADPH binding site [chemical binding]; other site 489653000543 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 489653000544 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 489653000545 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 489653000546 additional locus_tag=NLA1810; glycosyltransferase (pseudogene) 489653000547 Major Facilitator Superfamily; Region: MFS_1; pfam07690 489653000548 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 489653000549 putative substrate translocation pore; other site 489653000550 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 489653000551 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 489653000552 dimer interface [polypeptide binding]; other site 489653000553 active site 489653000554 Phosphopantetheine attachment site; Region: PP-binding; cl09936 489653000555 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD...; Region: DHOD_2_like; cd04738 489653000556 quinone interaction residues [chemical binding]; other site 489653000557 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 489653000558 active site 489653000559 catalytic residues [active] 489653000560 FMN binding site [chemical binding]; other site 489653000561 substrate binding site [chemical binding]; other site 489653000562 insertion element IS1016 transposase (fragment) 489653000563 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 489653000564 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 489653000565 Uncharacterized protein conserved in bacteria (DUF2247); Region: DUF2247; cl01763 489653000566 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 489653000567 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 489653000568 metal binding triad; other site 489653000569 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 489653000570 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 489653000571 metal binding triad; other site 489653000572 DNA helicase II; Region: uvrD; TIGR01075 489653000573 UvrD/REP helicase; Region: UvrD-helicase; cl14126 489653000574 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 489653000575 transposase (fragment) 489653000576 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 489653000577 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653000578 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653000579 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653000580 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653000581 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 489653000582 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653000583 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653000584 Pyocin large subunit [General function prediction only]; Region: COG5529 489653000585 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653000586 IS1106 transposase (fragment) 489653000587 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 489653000588 putative nucleotide binding site [chemical binding]; other site 489653000589 uridine monophosphate binding site [chemical binding]; other site 489653000590 homohexameric interface [polypeptide binding]; other site 489653000591 elongation factor Ts; Provisional; Region: tsf; PRK09377 489653000592 Elongation factor TS; Region: EF_TS; pfam00889 489653000593 Elongation factor TS; Region: EF_TS; pfam00889 489653000594 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 489653000595 rRNA interaction site [nucleotide binding]; other site 489653000596 S8 interaction site; other site 489653000597 putative laminin-1 binding site; other site 489653000598 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 489653000599 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 489653000600 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 489653000601 Predicted dehydrogenase [General function prediction only]; Region: COG0579 489653000602 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 489653000603 non-specific DNA binding site [nucleotide binding]; other site 489653000604 salt bridge; other site 489653000605 sequence-specific DNA binding site [nucleotide binding]; other site 489653000606 methionine aminopeptidase; Reviewed; Region: PRK07281 489653000607 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 489653000608 active site 489653000609 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 489653000610 BON domain; Region: BON; cl02771 489653000611 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 489653000612 dimer interface [polypeptide binding]; other site 489653000613 active site 489653000614 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 489653000615 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 489653000616 Predicted methyltransferases [General function prediction only]; Region: COG0313 489653000617 GTPase CgtA; Reviewed; Region: obgE; PRK12299 489653000618 GTP1/OBG; Region: GTP1_OBG; pfam01018 489653000619 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 489653000620 G1 box; other site 489653000621 GTP/Mg2+ binding site [chemical binding]; other site 489653000622 Switch I region; other site 489653000623 G2 box; other site 489653000624 G3 box; other site 489653000625 Switch II region; other site 489653000626 G4 box; other site 489653000627 G5 box; other site 489653000628 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653000629 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 489653000630 ABC transporter signature motif; other site 489653000631 Walker B; other site 489653000632 D-loop; other site 489653000633 H-loop/switch region; other site 489653000634 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 489653000635 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 489653000636 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 489653000637 active site 489653000638 HIGH motif; other site 489653000639 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 489653000640 KMSKS motif; other site 489653000641 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 489653000642 tRNA binding surface [nucleotide binding]; other site 489653000643 anticodon binding site; other site 489653000644 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 489653000645 putative active site [active] 489653000646 putative DNA binding site [nucleotide binding]; other site 489653000647 putative phosphate binding site [ion binding]; other site 489653000648 putative catalytic site [active] 489653000649 metal binding site A [ion binding]; metal-binding site 489653000650 putative AP binding site [nucleotide binding]; other site 489653000651 putative metal binding site B [ion binding]; other site 489653000652 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 489653000653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653000654 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 489653000655 RDD family; Region: RDD; cl00746 489653000656 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 489653000657 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 489653000658 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 489653000659 homodimer interface [polypeptide binding]; other site 489653000660 NADP binding site [chemical binding]; other site 489653000661 substrate binding site [chemical binding]; other site 489653000662 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 489653000663 active site 489653000664 nucleotide binding site [chemical binding]; other site 489653000665 HIGH motif; other site 489653000666 KMSKS motif; other site 489653000667 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 489653000668 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 489653000669 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 489653000670 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 489653000671 Sporulation related domain; Region: SPOR; cl10051 489653000672 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 489653000673 ThiS interaction site; other site 489653000674 putative active site [active] 489653000675 tetramer interface [polypeptide binding]; other site 489653000676 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 489653000677 thiS-thiF/thiG interaction site; other site 489653000678 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- (beta-...; Region: TMP_TenI; cd00564 489653000679 thiamine phosphate binding site [chemical binding]; other site 489653000680 active site 489653000681 pyrophosphate binding site [ion binding]; other site 489653000682 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 489653000683 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 489653000684 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 489653000685 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 489653000686 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...; Region: TM_PBP2; cd06261 489653000687 dimer interface [polypeptide binding]; other site 489653000688 conserved gate region; other site 489653000689 putative PBP binding loops; other site 489653000690 ABC-ATPase subunit interface; other site 489653000691 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...; Region: TM_PBP2; cd06261 489653000692 dimer interface [polypeptide binding]; other site 489653000693 conserved gate region; other site 489653000694 putative PBP binding loops; other site 489653000695 ABC-ATPase subunit interface; other site 489653000696 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 489653000697 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 489653000698 Walker A/P-loop; other site 489653000699 ATP binding site [chemical binding]; other site 489653000700 Q-loop/lid; other site 489653000701 ABC transporter signature motif; other site 489653000702 Walker B; other site 489653000703 D-loop; other site 489653000704 H-loop/switch region; other site 489653000705 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 489653000706 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...; Region: PBPb; cd00134 489653000707 substrate binding pocket [chemical binding]; other site 489653000708 membrane-bound complex binding site; other site 489653000709 hinge residues; other site 489653000710 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional; Region: PRK14966 489653000711 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 489653000712 S-adenosylmethionine binding site [chemical binding]; other site 489653000713 Predicted permease [General function prediction only]; Region: COG2056 489653000714 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653000715 SlyX; Region: SlyX; cl01090 489653000716 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 489653000717 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 489653000718 ATP binding site [chemical binding]; other site 489653000719 substrate interface [chemical binding]; other site 489653000720 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 489653000721 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 489653000722 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 489653000723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653000724 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 489653000725 TMPIT-like protein; Region: TMPIT; pfam07851 489653000726 Cell division protein ZapA; Region: ZapA; cl01146 489653000727 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 489653000728 23S rRNA interface [nucleotide binding]; other site 489653000729 L3 interface [polypeptide binding]; other site 489653000730 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 489653000731 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 489653000732 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653000733 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 489653000734 putative dimerization interface [polypeptide binding]; other site 489653000735 Uncharacterized conserved protein [Function unknown]; Region: COG0327 489653000736 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 489653000737 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 489653000738 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 489653000739 [2Fe-2S] cluster binding site [ion binding]; other site 489653000740 cytochrome b; Provisional; Region: CYTB; MTH00145 489653000741 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cd00284 489653000742 Qi binding site; other site 489653000743 intrachain domain interface; other site 489653000744 interchain domain interface [polypeptide binding]; other site 489653000745 heme bH binding site [chemical binding]; other site 489653000746 heme bL binding site [chemical binding]; other site 489653000747 Qo binding site; other site 489653000748 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: cytochrome_b_C; cl00193 489653000749 interchain domain interface [polypeptide binding]; other site 489653000750 intrachain domain interface; other site 489653000751 Qi binding site; other site 489653000752 Qo binding site; other site 489653000753 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 489653000754 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 489653000755 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 489653000756 RmuC family; Region: RmuC; pfam02646 489653000757 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 489653000758 DNA ligase; Provisional; Region: PRK09125 489653000759 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 489653000760 DNA binding site [nucleotide binding] 489653000761 active site 489653000762 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 489653000763 DNA binding site [nucleotide binding] 489653000764 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 489653000765 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_man; cd00006 489653000766 active pocket/dimerization site; other site 489653000767 active site 489653000768 phosphorylation site [posttranslational modification] 489653000769 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 489653000770 dimerization domain swap beta strand [polypeptide binding]; other site 489653000771 regulatory protein interface [polypeptide binding]; other site 489653000772 active site 489653000773 regulatory phosphorylation site [posttranslational modification]; other site 489653000774 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 489653000775 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 489653000776 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 489653000777 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 489653000778 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 489653000779 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 489653000780 Protein of unknown function (DUF935); Region: DUF935; pfam06074 489653000781 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 489653000782 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 489653000783 Terminase-like family; Region: Terminase_6; pfam03237 489653000784 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 489653000785 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 489653000786 Predicted lysozyme (DUF847); Region: DUF847; pfam05838 489653000787 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 489653000788 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 489653000789 non-specific DNA binding site [nucleotide binding]; other site 489653000790 salt bridge; other site 489653000791 sequence-specific DNA binding site [nucleotide binding]; other site 489653000792 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 (...; Region: S24_LexA-like; cd06529 489653000793 Catalytic site [active] 489653000794 Transcriptional regulator [Transcription]; Region: IclR; COG1414 489653000795 Integrase core domain; Region: rve; cl01316 489653000796 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 489653000797 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653000798 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 489653000799 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 higher-...; Region: HU_IHF; cd00591 489653000800 IHF dimer interface [polypeptide binding]; other site 489653000801 IHF - DNA interface [nucleotide binding]; other site 489653000802 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 489653000803 Mor transcription activator family; Region: Mor; cl02360 489653000804 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 489653000805 Gp37 protein; Region: Gp37; pfam09646 489653000806 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 489653000807 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 489653000808 Phage tail tube protein FII; Region: Phage_tube; cl01390 489653000809 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 489653000810 Phage-related protein [Function unknown]; Region: COG5412 489653000811 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 489653000812 Phage Tail Protein X; Region: Phage_tail_X; cl02088 489653000813 Phage protein D [General function prediction only]; Region: COG3500; cl12180 489653000814 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 489653000815 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 489653000816 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 489653000817 Baseplate J-like protein; Region: Baseplate_J; cl01294 489653000818 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 489653000819 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 489653000820 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 489653000821 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 489653000822 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 489653000823 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 489653000824 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 489653000825 Walker A/P-loop; other site 489653000826 ATP binding site [chemical binding]; other site 489653000827 Q-loop/lid; other site 489653000828 ABC transporter signature motif; other site 489653000829 Walker B; other site 489653000830 D-loop; other site 489653000831 H-loop/switch region; other site 489653000832 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 489653000833 nudix motif; other site 489653000834 ThiC family; Region: ThiC; cl08031 489653000835 Protein of unknown function DUF45; Region: DUF45; cl00636 489653000836 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 489653000837 putative acyl-acceptor binding pocket; other site 489653000838 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 489653000839 active site 489653000840 motif I; other site 489653000841 motif II; other site 489653000842 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 489653000843 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 489653000844 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 489653000845 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 489653000846 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 489653000847 S-adenosylmethionine binding site [chemical binding]; other site 489653000848 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 489653000849 Phosphotransferase enzyme family; Region: APH; pfam01636 489653000850 putative active site [active] 489653000851 putative substrate binding site [chemical binding]; other site 489653000852 ATP binding site [chemical binding]; other site 489653000853 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 489653000854 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...; Region: TM_PBP2; cd06261 489653000855 dimer interface [polypeptide binding]; other site 489653000856 conserved gate region; other site 489653000857 ABC-ATPase subunit interface; other site 489653000858 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...; Region: TM_PBP2; cl00427 489653000859 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 489653000860 active site clefts [active] 489653000861 zinc binding site [ion binding]; other site 489653000862 dimer interface [polypeptide binding]; other site 489653000863 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 489653000864 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 489653000865 active site 489653000866 (T/H)XGH motif; other site 489653000867 Domain of unknown function DUF143; Region: DUF143; cl00519 489653000868 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 489653000869 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 489653000870 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 489653000871 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 489653000872 active site 489653000873 (T/H)XGH motif; other site 489653000874 DNA transport competence protein (fragment) 489653000875 comEA protein; Region: comE; TIGR01259 489653000876 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 489653000877 NeuB family; Region: NeuB; cl00496 489653000878 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 489653000879 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 5,10-...; Region: DHFR; cd00209 489653000880 folate binding site [chemical binding]; other site 489653000881 NADP+ binding site [chemical binding]; other site 489653000882 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 489653000883 putative active site [active] 489653000884 putative metal binding residues [ion binding]; other site 489653000885 signature motif; other site 489653000886 putative dimer interface [polypeptide binding]; other site 489653000887 putative phosphate binding site [ion binding]; other site 489653000888 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 489653000889 Proteins involved in synaptic transmission and general secretion, Sec1 family [Intracellular trafficking and secretion]; Region: SEC1; COG5158 489653000890 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta)...; Region: PL_Passenger_AT; cd00253 489653000891 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 489653000892 Autotransporter beta-domain; Region: Autotransporter; cl02365 489653000893 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 489653000894 Protein of unknown function (DUF560); Region: DUF560; pfam04575 489653000895 Sulfatase; Region: Sulfatase; cl10460 489653000896 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 489653000897 Peptidase family M23; Region: Peptidase_M23; pfam01551 489653000898 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 489653000899 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 489653000900 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 489653000901 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 489653000902 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...; Region: Biotinyl_lipoyl_domains; cl11404 489653000903 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 489653000904 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 489653000905 putative substrate translocation pore; other site 489653000906 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 489653000907 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 489653000908 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653000909 hypothetical protein; Provisional; Region: PRK09126 489653000910 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 489653000911 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 489653000912 octaprenyl diphosphate synthase; Provisional; Region: PRK10888 489653000913 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 489653000914 substrate binding pocket [chemical binding]; other site 489653000915 chain length determination region; other site 489653000916 substrate-Mg2+ binding site; other site 489653000917 catalytic residues [active] 489653000918 aspartate-rich region 1; other site 489653000919 active site lid residues [active] 489653000920 aspartate-rich region 2; other site 489653000921 Protein of unknown function (DUF441); Region: DUF441; cl01041 489653000922 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 489653000923 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 489653000924 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 489653000925 Walker A motif; other site 489653000926 ATP binding site [chemical binding]; other site 489653000927 Walker B motif; other site 489653000928 Domain of unknown function (DUF329); Region: DUF329; cl01144 489653000929 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 489653000930 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 489653000931 CoA-binding site [chemical binding]; other site 489653000932 ATP-binding [chemical binding]; other site 489653000933 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 489653000934 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 489653000935 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 489653000936 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 489653000937 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 489653000938 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 489653000939 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 489653000940 active site 489653000941 dimer interface [polypeptide binding]; other site 489653000942 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 489653000943 dimer interface [polypeptide binding]; other site 489653000944 active site 489653000945 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 489653000946 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA...; Region: LbH_THP_succinylT; cd03350 489653000947 trimer interface [polypeptide binding]; other site 489653000948 active site 489653000949 substrate binding site [chemical binding]; other site 489653000950 CoA binding site [chemical binding]; other site 489653000951 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 489653000952 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 489653000953 NAD binding site [chemical binding]; other site 489653000954 homotetramer interface [polypeptide binding]; other site 489653000955 homodimer interface [polypeptide binding]; other site 489653000956 substrate binding site [chemical binding]; other site 489653000957 active site 489653000958 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 489653000959 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 489653000960 homodimer interface [polypeptide binding]; other site 489653000961 substrate-cofactor binding pocket; other site 489653000962 catalytic residue [active] 489653000963 LicD family; Region: LicD; cl01378 489653000964 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 489653000965 active site 489653000966 metal binding site [ion binding]; metal-binding site 489653000967 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 489653000968 active site 489653000969 ATP binding site [chemical binding]; other site 489653000970 Phosphotransferase enzyme family; Region: APH; pfam01636 489653000971 substrate binding site [chemical binding]; other site 489653000972 dimer interface [polypeptide binding]; other site 489653000973 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 489653000974 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 489653000975 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 489653000976 dimer interface [polypeptide binding]; other site 489653000977 active site 489653000978 glutathione binding site [chemical binding]; other site 489653000979 metal binding site [ion binding]; metal-binding site 489653000980 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 489653000981 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 489653000982 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 489653000983 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 489653000984 Intracellular septation protein A; Region: IspA; cl01098 489653000985 YCII-related domain; Region: YCII; cl00999 489653000986 BolA-like protein; Region: BolA; cl00386 489653000987 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 489653000988 periplasmic folding chaperone; Provisional; Region: PRK10788 489653000989 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...; Region: Dtyr_deacylase; cd00563 489653000990 putative active site [active] 489653000991 dimerization interface [polypeptide binding]; other site 489653000992 putative tRNAtyr binding site [nucleotide binding]; other site 489653000993 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 489653000994 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...; Region: DUS_like_FMN; cd02801 489653000995 FMN binding site [chemical binding]; other site 489653000996 active site 489653000997 catalytic residues [active] 489653000998 substrate binding site [chemical binding]; other site 489653000999 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 489653001000 active site 489653001001 HIGH motif; other site 489653001002 nucleotide binding site [chemical binding]; other site 489653001003 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 489653001004 active site 489653001005 KMSKS motif; other site 489653001006 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 489653001007 putative active site [active] 489653001008 transaldolase; Provisional; Region: PRK03903 489653001009 catalytic residue [active] 489653001010 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 489653001011 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 5-...; Region: SIS_Kpsf; cd05014 489653001012 putative active site [active] 489653001013 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 489653001014 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 489653001015 active site 489653001016 motif I; other site 489653001017 motif II; other site 489653001018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 489653001019 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 489653001020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 489653001021 OstA-like protein; Region: OstA; cl00844 489653001022 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 489653001023 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 489653001024 Walker A/P-loop; other site 489653001025 ATP binding site [chemical binding]; other site 489653001026 Q-loop/lid; other site 489653001027 ABC transporter signature motif; other site 489653001028 Walker B; other site 489653001029 D-loop; other site 489653001030 H-loop/switch region; other site 489653001031 Transglycosylase; Region: Transgly; cl07896 489653001032 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 489653001033 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 489653001034 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 489653001035 shikimate binding site; other site 489653001036 NAD(P) binding site [chemical binding]; other site 489653001037 glutamine synthetase; Provisional; Region: glnA; PRK09469 489653001038 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 489653001039 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 489653001040 muropeptide transporter; Reviewed; Region: ampG; PRK11902 489653001041 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; cl11420 489653001042 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 489653001043 Protein of unknown function (DUF1557); Region: DUF1557; pfam07591 489653001044 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cl12032 489653001045 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653001046 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 489653001047 Phosphate transporter family; Region: PHO4; cl00396 489653001048 Phosphate transporter family; Region: PHO4; cl00396 489653001049 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 489653001050 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 489653001051 FeS/SAM binding site; other site 489653001052 HemN C-terminal region; Region: HemN_C; pfam06969 489653001053 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 489653001054 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 489653001055 ligand binding site [chemical binding]; other site 489653001056 flexible hinge region; other site 489653001057 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 489653001058 putative switch regulator; other site 489653001059 non-specific DNA interactions [nucleotide binding]; other site 489653001060 DNA binding site [nucleotide binding] 489653001061 sequence specific DNA binding site [nucleotide binding]; other site 489653001062 putative cAMP binding site [chemical binding]; other site 489653001063 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 489653001064 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653001065 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 489653001066 substrate binding site [chemical binding]; other site 489653001067 dimerization interface [polypeptide binding]; other site 489653001068 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 489653001069 ligand binding site [chemical binding]; other site 489653001070 thiamine-monophosphate kinase; Region: thiL; TIGR01379 489653001071 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 489653001072 ATP binding site [chemical binding]; other site 489653001073 dimerization interface [polypeptide binding]; other site 489653001074 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 489653001075 tetramer interfaces [polypeptide binding]; other site 489653001076 binuclear metal-binding site [ion binding]; other site 489653001077 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 489653001078 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653001079 Walker A/P-loop; other site 489653001080 ATP binding site [chemical binding]; other site 489653001081 Q-loop/lid; other site 489653001082 ABC transporter signature motif; other site 489653001083 Walker B; other site 489653001084 D-loop; other site 489653001085 H-loop/switch region; other site 489653001086 ABC transporter; Region: ABC_tran_2; pfam12848 489653001087 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 489653001088 Major Facilitator Superfamily; Region: MFS_1; pfam07690 489653001089 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 489653001090 maltose phosphorylase; Provisional; Region: PRK13807 489653001091 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 489653001092 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 489653001093 beta-phosphoglucomutase; Region: bPGM; TIGR01990 489653001094 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 489653001095 motif II; other site 489653001096 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653001097 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 489653001098 domain; Region: Succ_DH_flav_C; pfam02910 489653001099 Quinolinate synthetase A protein; Region: NadA; cl00420 489653001100 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 489653001101 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 489653001102 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 5-...; Region: QPRTase; cd01572 489653001103 dimerization interface [polypeptide binding]; other site 489653001104 active site 489653001105 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 489653001106 dimerization interface [polypeptide binding]; other site 489653001107 putative DNA binding site [nucleotide binding]; other site 489653001108 putative Zn2+ binding site [ion binding]; other site 489653001109 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 489653001110 putative phosphate binding site [ion binding]; other site 489653001111 putative catalytic site [active] 489653001112 active site 489653001113 metal binding site A [ion binding]; metal-binding site 489653001114 DNA binding site [nucleotide binding] 489653001115 putative AP binding site [nucleotide binding]; other site 489653001116 putative metal binding site B [ion binding]; other site 489653001117 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 489653001118 Proline dehydrogenase; Region: Pro_dh; cl03282 489653001119 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 489653001120 Glutamate binding site [chemical binding]; other site 489653001121 NAD binding site [chemical binding]; other site 489653001122 catalytic residues [active] 489653001123 Sodium:solute symporter family; Region: SSF; cl00456 489653001124 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 489653001125 Membrane fusogenic activity; Region: BMFP; cl01115 489653001126 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 489653001127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653001128 cell division protein FtsN; Region: ftsN; TIGR02223 489653001129 Sporulation related domain; Region: SPOR; cl10051 489653001130 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 489653001131 catalytic residues [active] 489653001132 hinge region; other site 489653001133 alpha helical domain; other site 489653001134 Bacitracin resistance protein BacA; Region: BacA; cl00858 489653001135 Uncharacterized conserved protein [Function unknown]; Region: COG1565 489653001136 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 489653001137 cell division protein MraZ; Reviewed; Region: PRK00326 489653001138 MraZ protein; Region: MraZ; pfam02381 489653001139 MraZ protein; Region: MraZ; pfam02381 489653001140 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 489653001141 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; cl12011 489653001142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 489653001143 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 489653001144 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 489653001145 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 489653001146 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 489653001147 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 489653001148 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 489653001149 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 489653001150 GTP-binding protein; Provisional; Region: PTZ00258 489653001151 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 489653001152 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 489653001153 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 489653001154 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 489653001155 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 489653001156 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 489653001157 Mg++ binding site [ion binding]; other site 489653001158 putative catalytic motif [active] 489653001159 putative substrate binding site [chemical binding]; other site 489653001160 Sel1 repeat; Region: Sel1; cl02723 489653001161 Sel1 repeat; Region: Sel1; cl02723 489653001162 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04308 489653001163 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 489653001164 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 489653001165 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 489653001166 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 489653001167 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...; Region: GT1_MurG; cd03785 489653001168 active site 489653001169 homodimer interface [polypeptide binding]; other site 489653001170 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 489653001171 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 489653001172 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 489653001173 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 489653001174 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 489653001175 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 489653001176 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 489653001177 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 489653001178 Cell division protein FtsQ; Region: FtsQ; pfam03799 489653001179 cell division protein FtsA; Region: ftsA; TIGR01174 489653001180 Cell division protein FtsA; Region: FtsA; cl11496 489653001181 Cell division protein FtsA; Region: FtsA; cl11496 489653001182 cell division protein FtsZ; Validated; Region: PRK09330 489653001183 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...; Region: FtsZ_type1; cd02201 489653001184 nucleotide binding site [chemical binding]; other site 489653001185 SulA interaction site; other site 489653001186 Sulfate transporter family; Region: Sulfate_transp; cl00967 489653001187 Permease family; Region: Xan_ur_permease; pfam00860 489653001188 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 489653001189 Predicted transcriptional regulator [Transcription]; Region: COG1959 489653001190 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653001191 NnrS protein; Region: NnrS; cl01258 489653001192 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 489653001193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653001194 Predicted amidohydrolase [General function prediction only]; Region: COG0388 489653001195 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 489653001196 putative active site [active] 489653001197 catalytic triad [active] 489653001198 dimer interface [polypeptide binding]; other site 489653001199 EamA-like transporter family; Region: EamA; cl01037 489653001200 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 489653001201 EamA-like transporter family; Region: EamA; cl01037 489653001202 Surface antigen; Region: Surface_Ag_2; cl01155 489653001203 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 489653001204 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 489653001205 putative substrate translocation pore; other site 489653001206 Chorismate mutase type II; Region: CM_2; cl00693 489653001207 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 489653001208 Prephenate dehydratase; Region: PDT; pfam00800 489653001209 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 489653001210 putative L-Phe binding site [chemical binding]; other site 489653001211 Recombination protein O N terminal; Region: RecO_N; pfam11967 489653001212 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 489653001213 Recombination protein O C terminal; Region: RecO_C; pfam02565 489653001214 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 489653001215 active site 489653001216 hydrophilic channel; other site 489653001217 dimerization interface [polypeptide binding]; other site 489653001218 catalytic residues [active] 489653001219 active site lid [active] 489653001220 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 489653001221 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 489653001222 active site 489653001223 8-oxo-dGMP binding site [chemical binding]; other site 489653001224 nudix motif; other site 489653001225 metal binding site [ion binding]; metal-binding site 489653001226 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 489653001227 THUMP domain; Region: THUMP; cl12076 489653001228 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; cl12011 489653001229 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 489653001230 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 489653001231 active site 489653001232 metal binding site [ion binding]; metal-binding site 489653001233 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 489653001234 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 489653001235 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 489653001236 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 489653001237 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...; Region: OM_channels; cl00284 489653001238 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 489653001239 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 489653001240 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 489653001241 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 489653001242 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among Gram-...; Region: OMPLA; cd00541 489653001243 dimerization interface [polypeptide binding]; other site 489653001244 substrate binding site [chemical binding]; other site 489653001245 active site 489653001246 calcium binding site [ion binding]; other site 489653001247 Protein of unknown function (DUF502); Region: DUF502; cl01107 489653001248 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 489653001249 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 489653001250 dimer interface [polypeptide binding]; other site 489653001251 anticodon binding site; other site 489653001252 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 489653001253 homodimer interface [polypeptide binding]; other site 489653001254 motif 1; other site 489653001255 active site 489653001256 motif 2; other site 489653001257 GAD domain; Region: GAD; pfam02938 489653001258 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 489653001259 motif 3; other site 489653001260 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 489653001261 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 489653001262 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; cl12011 489653001263 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; cl12011 489653001264 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 489653001265 active site 489653001266 phosphorylation site [posttranslational modification] 489653001267 intermolecular recognition site; other site 489653001268 dimerization interface [polypeptide binding]; other site 489653001269 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cd00882 489653001270 G1 box; other site 489653001271 GTP/Mg2+ binding site [chemical binding]; other site 489653001272 G2 box; other site 489653001273 Switch I region; other site 489653001274 G3 box; other site 489653001275 Switch II region; other site 489653001276 G4 box; other site 489653001277 G5 box; other site 489653001278 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 489653001279 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 489653001280 MAPEG family; Region: MAPEG; cl09190 489653001281 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 489653001282 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 489653001283 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 489653001284 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 489653001285 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; cl11391 489653001286 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 489653001287 motif II; other site 489653001288 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-...; Region: ClC_like; cd01033 489653001289 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 489653001290 putative ion selectivity filter; other site 489653001291 putative pore gating glutamate residue; other site 489653001292 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 489653001293 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 489653001294 purine monophosphate binding site [chemical binding]; other site 489653001295 dimer interface [polypeptide binding]; other site 489653001296 putative catalytic residues [active] 489653001297 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 489653001298 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 489653001299 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 489653001300 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 489653001301 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 489653001302 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 489653001303 active site 489653001304 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 489653001305 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 489653001306 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-...; Region: LysRS_N; cd04322 489653001307 dimer interface [polypeptide binding]; other site 489653001308 putative anticodon binding site; other site 489653001309 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 489653001310 motif 1; other site 489653001311 active site 489653001312 motif 2; other site 489653001313 motif 3; other site 489653001314 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 489653001315 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653001316 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 489653001317 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 489653001318 ATP binding site [chemical binding]; other site 489653001319 Mg++ binding site [ion binding]; other site 489653001320 motif III; other site 489653001321 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 489653001322 nucleotide binding region [chemical binding]; other site 489653001323 ATP-binding site [chemical binding]; other site 489653001324 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 489653001325 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...; Region: DUS_like_FMN; cd02801 489653001326 FMN binding site [chemical binding]; other site 489653001327 active site 489653001328 catalytic residues [active] 489653001329 substrate binding site [chemical binding]; other site 489653001330 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 489653001331 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 489653001332 active site 489653001333 putative DNA-binding cleft [nucleotide binding]; other site 489653001334 dimer interface [polypeptide binding]; other site 489653001335 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 489653001336 putative acyl-acceptor binding pocket; other site 489653001337 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 489653001338 active site 489653001339 catalytic site [active] 489653001340 substrate binding site [chemical binding]; other site 489653001341 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 489653001342 aminopeptidase N; Provisional; Region: pepN; PRK14015 489653001343 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 489653001344 active site 489653001345 Zn binding site [ion binding]; other site 489653001346 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653001347 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653001348 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cd00081 489653001349 protein-splicing catalytic site; other site 489653001350 thioester formation/cholesterol transfer; other site 489653001351 Protein of unknown function (DUF1557); Region: DUF1557; pfam07591 489653001352 Protein of unknown function (DUF1557); Region: DUF1557; pfam07591 489653001353 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cd00081 489653001354 thioester formation/cholesterol transfer; other site 489653001355 protein-splicing catalytic site; other site 489653001356 Protein of unknown function (DUF1260); Region: DUF1260; cl01170 489653001357 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 489653001358 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 489653001359 synthetase active site [active] 489653001360 NTP binding site [chemical binding]; other site 489653001361 metal binding site [ion binding]; metal-binding site 489653001362 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...; Region: TGS_RelA_SpoT; cd01668 489653001363 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 489653001364 glutaredoxin 2; Provisional; Region: PRK10387 489653001365 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-...; Region: GST_N_GRX2; cd03037 489653001366 C-terminal domain interface [polypeptide binding]; other site 489653001367 GSH binding site (G-site) [chemical binding]; other site 489653001368 catalytic residues [active] 489653001369 putative dimer interface [polypeptide binding]; other site 489653001370 GST_C family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD (most GRXs range from 9-12kD). GRX2 adopts a GST fold containing an N-terminal thioredoxin-fold...; Region: GST_C_GRX2; cd03199 489653001371 putative dimer interface [polypeptide binding]; other site 489653001372 putative substrate binding pocket (H-site) [chemical binding]; other site 489653001373 N-terminal domain interface [polypeptide binding]; other site 489653001374 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 489653001375 active site 489653001376 putative substrate binding region [chemical binding]; other site 489653001377 Gram-negative bacterial tonB protein; Region: TonB; cl10048 489653001378 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 489653001379 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 489653001380 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 489653001381 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (; Region: PTPc; cl00053 489653001382 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 489653001383 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 489653001384 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated...; Region: PDZ; cl00117 489653001385 protein binding site [polypeptide binding]; other site 489653001386 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the...; Region: cbb3_Oxidase_I; cd01661 489653001387 Low-spin heme binding site [chemical binding]; other site 489653001388 Putative water exit pathway; other site 489653001389 Binuclear center (active site) [active] 489653001390 Putative proton exit pathway; other site 489653001391 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 489653001392 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of...; Region: cbb3_Oxidase_CcoQ; cl00282 489653001393 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 489653001394 Cytochrome c; Region: Cytochrom_C; cl11414 489653001395 Cytochrome c; Region: Cytochrom_C; cl11414 489653001396 Cytochrome c; Region: Cytochrom_C; cl11414 489653001397 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 489653001398 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 489653001399 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 489653001400 integral membrane protein fragment (pseudo) 489653001401 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 489653001402 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 489653001403 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 489653001404 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 489653001405 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 489653001406 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 489653001407 Outer membrane efflux protein; Region: OEP; pfam02321 489653001408 Outer membrane efflux protein; Region: OEP; pfam02321 489653001409 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 489653001410 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 489653001411 N-terminal plug; other site 489653001412 ligand-binding site [chemical binding]; other site 489653001413 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 489653001414 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 489653001415 N-terminal plug; other site 489653001416 ligand-binding site [chemical binding]; other site 489653001417 glycolate transporter; Provisional; Region: PRK09695 489653001418 L-lactate permease; Region: Lactate_perm; cl00701 489653001419 Transcriptional regulators [Transcription]; Region: FadR; COG2186 489653001420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 489653001421 DNA-binding site [nucleotide binding]; DNA binding site 489653001422 FCD domain; Region: FCD; cl11656 489653001423 glutamate dehydrogenase; Provisional; Region: PRK09414 489653001424 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 489653001425 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 489653001426 NAD(P) binding site [chemical binding]; other site 489653001427 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 489653001428 dimerization interface [polypeptide binding]; other site 489653001429 active site 489653001430 ApbE family; Region: ApbE; cl00643 489653001431 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 489653001432 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 489653001433 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 489653001434 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 489653001435 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 489653001436 putative metal binding site [ion binding]; other site 489653001437 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 489653001438 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 489653001439 dimer interface [polypeptide binding]; other site 489653001440 active site 489653001441 Predicted exporter [General function prediction only]; Region: COG4258 489653001442 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 489653001443 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...; Region: 4HBT; cd00586 489653001444 active site 489653001445 Predicted acyltransferase [General function prediction only]; Region: COG4261 489653001446 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 489653001447 putative acyl-acceptor binding pocket; other site 489653001448 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 489653001449 Ligand binding site [chemical binding]; other site 489653001450 Putative Catalytic site [active] 489653001451 DXD motif; other site 489653001452 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 489653001453 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; cl00509 489653001454 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 489653001455 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 489653001456 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 489653001457 dimer interface [polypeptide binding]; other site 489653001458 active site 489653001459 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 489653001460 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 489653001461 NAD(P) binding site [chemical binding]; other site 489653001462 homotetramer interface [polypeptide binding]; other site 489653001463 homodimer interface [polypeptide binding]; other site 489653001464 active site 489653001465 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 489653001466 putative active site 1 [active] 489653001467 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 489653001468 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 489653001469 putative acyl-acceptor binding pocket; other site 489653001470 Phosphopantetheine attachment site; Region: PP-binding; cl09936 489653001471 Phosphopantetheine attachment site; Region: PP-binding; cl09936 489653001472 Predicted membrane protein [Function unknown]; Region: COG4648 489653001473 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 489653001474 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 489653001475 AsmA family; Region: AsmA; pfam05170 489653001476 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 489653001477 dihydropteroate synthase; Region: DHPS; TIGR01496 489653001478 substrate binding pocket [chemical binding]; other site 489653001479 dimer interface [polypeptide binding]; other site 489653001480 inhibitor binding site; inhibition site 489653001481 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 489653001482 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 UDP-N-...; Region: GlmM; cd05802 489653001483 active site 489653001484 substrate binding site [chemical binding]; other site 489653001485 metal binding site [ion binding]; metal-binding site 489653001486 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 489653001487 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 489653001488 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 489653001489 active site/substrate binding site [active] 489653001490 tetramer interface [polypeptide binding]; other site 489653001491 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 489653001492 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 489653001493 active site 489653001494 peptide chain release factor 1; Validated; Region: prfA; PRK00591 489653001495 RF-1 domain; Region: RF-1; cl02875 489653001496 RF-1 domain; Region: RF-1; cl02875 489653001497 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 489653001498 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653001499 seryl-tRNA synthetase; Provisional; Region: PRK05431 489653001500 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 489653001501 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 489653001502 dimer interface [polypeptide binding]; other site 489653001503 active site 489653001504 motif 1; other site 489653001505 motif 2; other site 489653001506 motif 3; other site 489653001507 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where...; Region: Ap4A_hydrolase_plant_like; cd03671 489653001508 putative active site [active] 489653001509 Ap4A binding site [chemical binding]; other site 489653001510 nudix motif; other site 489653001511 putative metal binding site [ion binding]; other site 489653001512 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 489653001513 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 489653001514 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 489653001515 anchoring element; other site 489653001516 dimer interface [polypeptide binding]; other site 489653001517 ATP binding site [chemical binding]; other site 489653001518 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 489653001519 active site 489653001520 metal binding site [ion binding]; metal-binding site 489653001521 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 489653001522 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl00174 489653001523 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 489653001524 Tetramer interface [polypeptide binding]; other site 489653001525 Active site [active] 489653001526 FMN-binding site [chemical binding]; other site 489653001527 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; cl12011 489653001528 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 489653001529 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 489653001530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653001531 homodimer interface [polypeptide binding]; other site 489653001532 catalytic residue [active] 489653001533 Cytochrome c; Region: Cytochrom_C; cl11414 489653001534 Cytochrome c; Region: Cytochrom_C; cl11414 489653001535 glycine dehydrogenase; Provisional; Region: PRK05367 489653001536 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 489653001537 tetramer interface [polypeptide binding]; other site 489653001538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653001539 catalytic residue [active] 489653001540 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 489653001541 tetramer interface [polypeptide binding]; other site 489653001542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653001543 catalytic residue [active] 489653001544 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 489653001545 active site 489653001546 catalytic triad [active] 489653001547 oxyanion hole [active] 489653001548 switch loop; other site 489653001549 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 489653001550 Protein of unknown function (DUF330); Region: DUF330; cl01135 489653001551 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 489653001552 mce related protein; Region: MCE; cl03606 489653001553 mce related protein; Region: MCE; cl03606 489653001554 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 489653001555 Paraquat-inducible protein A; Region: PqiA; pfam04403 489653001556 Paraquat-inducible protein A; Region: PqiA; pfam04403 489653001557 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 489653001558 heme binding pocket [chemical binding]; other site 489653001559 heme ligand [chemical binding]; other site 489653001560 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 489653001561 Phd_YefM; Region: PhdYeFM; cl09153 489653001562 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 489653001563 putative active site [active] 489653001564 putative protease; Provisional; Region: PRK15452 489653001565 Peptidase family U32; Region: Peptidase_U32; cl03113 489653001566 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 489653001567 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 489653001568 active site 489653001569 motif I; other site 489653001570 motif II; other site 489653001571 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; cl11391 489653001572 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 489653001573 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...; Region: GMPK; cd00071 489653001574 catalytic site [active] 489653001575 G-X2-G-X-G-K; other site 489653001576 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 489653001577 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 489653001578 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 489653001579 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 489653001580 synthetase active site [active] 489653001581 NTP binding site [chemical binding]; other site 489653001582 metal binding site [ion binding]; metal-binding site 489653001583 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...; Region: TGS_RelA_SpoT; cd01668 489653001584 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 489653001585 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 489653001586 Flavoprotein; Region: Flavoprotein; cl08021 489653001587 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 489653001588 additional locus_tag=NLA6280; DNA transport competence protein (pseudogene) 489653001589 HemK family putative methylases; Region: hemK_fam; TIGR00536 489653001590 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 489653001591 S-adenosylmethionine binding site [chemical binding]; other site 489653001592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 489653001593 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 489653001594 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 489653001595 alanine racemase; Reviewed; Region: alr; PRK00053 489653001596 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 489653001597 active site 489653001598 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 489653001599 substrate binding site [chemical binding]; other site 489653001600 catalytic residues [active] 489653001601 dimer interface [polypeptide binding]; other site 489653001602 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 489653001603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653001604 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 489653001605 Domain of unknown function DUF28; Region: DUF28; cl00361 489653001606 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 489653001607 galactoside permease; Reviewed; Region: lacY; PRK09528 489653001608 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 489653001609 putative substrate translocation pore; other site 489653001610 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 489653001611 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 489653001612 domain; Region: Glyco_hydro_2; pfam00703 489653001613 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 489653001614 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 489653001615 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 489653001616 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 489653001617 G1 box; other site 489653001618 GTP/Mg2+ binding site [chemical binding]; other site 489653001619 Switch I region; other site 489653001620 G2 box; other site 489653001621 Switch II region; other site 489653001622 G3 box; other site 489653001623 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 489653001624 translation initiation factor IF-2; Validated; Region: infB; PRK05306 489653001625 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 489653001626 translation initiation factor IF-2; Region: IF-2; TIGR00487 489653001627 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 489653001628 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 489653001629 G1 box; other site 489653001630 putative GEF interaction site [polypeptide binding]; other site 489653001631 GTP/Mg2+ binding site [chemical binding]; other site 489653001632 Switch I region; other site 489653001633 G2 box; other site 489653001634 G3 box; other site 489653001635 Switch II region; other site 489653001636 G4 box; other site 489653001637 G5 box; other site 489653001638 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...; Region: IF2_mtIF2_II; cd03702 489653001639 Translation-initiation factor 2; Region: IF-2; pfam11987 489653001640 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...; Region: mtIF2_IVc; cd03692 489653001641 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 489653001642 NusA N-terminal domain; Region: NusA_N; pfam08529 489653001643 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...; Region: S1_NusA; cd04455 489653001644 RNA binding site [nucleotide binding]; other site 489653001645 homodimer interface [polypeptide binding]; other site 489653001646 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 489653001647 G-X-X-G motif; other site 489653001648 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 489653001649 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 489653001650 ribosome maturation protein RimP; Reviewed; Region: PRK00092 489653001651 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 489653001652 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 489653001653 Sm1 motif; other site 489653001654 predicted subunit interaction site [polypeptide binding]; other site 489653001655 RNA binding pocket [nucleotide binding]; other site 489653001656 Sm2 motif; other site 489653001657 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 489653001658 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active...; Region: PSAT_like; cd00611 489653001659 homodimer interface [polypeptide binding]; other site 489653001660 substrate-cofactor binding pocket; other site 489653001661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653001662 catalytic residue [active] 489653001663 putative metal dependent hydrolase; Provisional; Region: PRK11598 489653001664 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 489653001665 Sulfatase; Region: Sulfatase; cl10460 489653001666 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a beta-...; Region: Arsenite_oxidase; cd02135 489653001667 putative FMN binding site [chemical binding]; other site 489653001668 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 489653001669 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 489653001670 Multicopper oxidase; Region: Cu-oxidase; cl14658 489653001671 Multicopper oxidase; Region: Cu-oxidase; cl14658 489653001672 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 489653001673 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 489653001674 dimer interface [polypeptide binding]; other site 489653001675 catalytic triad [active] 489653001676 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 489653001677 nucleotide binding site/active site [active] 489653001678 HIT family signature motif; other site 489653001679 catalytic residue [active] 489653001680 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 489653001681 RNA/DNA hybrid binding site [nucleotide binding]; other site 489653001682 active site 489653001683 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 489653001684 tellurite resistance protein TehB; Provisional; Region: PRK12335 489653001685 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; cl12011 489653001686 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 489653001687 dimer interface [polypeptide binding]; other site 489653001688 substrate binding site [chemical binding]; other site 489653001689 ATP binding site [chemical binding]; other site 489653001690 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta)...; Region: PL_Passenger_AT; cl00185 489653001691 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 489653001692 Autotransporter beta-domain; Region: Autotransporter; cl02365 489653001693 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 489653001694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653001695 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653001696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653001697 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653001698 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 489653001699 Fumarase C-terminus; Region: Fumerase_C; cl00795 489653001700 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 489653001701 catalytic loop [active] 489653001702 iron binding site [ion binding]; other site 489653001703 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 alpha-; Region: HCP_like; cl14655 489653001704 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653001705 FAD binding domain; Region: FAD_binding_2; pfam00890 489653001706 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 489653001707 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 489653001708 SLBB domain; Region: SLBB; pfam10531 489653001709 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 489653001710 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 489653001711 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653001712 transmembrane helices; other site 489653001713 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 489653001714 chromosome segregation protein; Provisional; Region: PRK03918 489653001715 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta)...; Region: PL_Passenger_AT; cl00185 489653001716 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 489653001717 Autotransporter beta-domain; Region: Autotransporter; cl02365 489653001718 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 489653001719 Zonular occludens toxin (Zot); Region: Zot; cl01706 489653001720 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 489653001721 Transposase; Region: DEDD_Tnp_IS110; pfam01548 489653001722 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 489653001723 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...; Region: PBPb; cd00134 489653001724 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 489653001725 substrate binding pocket [chemical binding]; other site 489653001726 membrane-bound complex binding site; other site 489653001727 hinge residues; other site 489653001728 O-succinylhomoserine sulfhydrylase; Region: O_suc_HS_sulf; TIGR01325 489653001729 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 489653001730 homodimer interface [polypeptide binding]; other site 489653001731 substrate-cofactor binding pocket; other site 489653001732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653001733 catalytic residue [active] 489653001734 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 489653001735 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; cl12011 489653001736 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 489653001737 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 489653001738 active site 489653001739 phosphorylation site [posttranslational modification] 489653001740 intermolecular recognition site; other site 489653001741 dimerization interface [polypeptide binding]; other site 489653001742 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...; Region: AAA; cd00009 489653001743 Walker A motif; other site 489653001744 ATP binding site [chemical binding]; other site 489653001745 Walker B motif; other site 489653001746 arginine finger; other site 489653001747 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 489653001748 sensory histidine kinase AtoS; Provisional; Region: PRK11360 489653001749 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 trans-...; Region: HisKA; cd00082 489653001750 dimer interface [polypeptide binding]; other site 489653001751 phosphorylation site [posttranslational modification] 489653001752 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 489653001753 ATP binding site [chemical binding]; other site 489653001754 Mg2+ binding site [ion binding]; other site 489653001755 G-X-G motif; other site 489653001756 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 489653001757 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 489653001758 CAP-like domain; other site 489653001759 Active site [active] 489653001760 primary dimer interface [polypeptide binding]; other site 489653001761 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 489653001762 catalytic core [active] 489653001763 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 489653001764 Integrase core domain; Region: rve; cl01316 489653001765 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; cl01116 489653001766 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 489653001767 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 489653001768 cofactor binding site; other site 489653001769 DNA binding site [nucleotide binding] 489653001770 substrate interaction site [chemical binding]; other site 489653001771 additional locus_tag=NLA6880; hypothetical protein (pseudogene) 489653001772 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 489653001773 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 489653001774 motif 1; other site 489653001775 active site 489653001776 motif 2; other site 489653001777 motif 3; other site 489653001778 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 489653001779 DHHA1 domain; Region: DHHA1; pfam02272 489653001780 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 489653001781 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 489653001782 EamA-like transporter family; Region: EamA; cl01037 489653001783 Cupin domain; Region: Cupin_2; cl09118 489653001784 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 489653001785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 489653001786 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 489653001787 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 489653001788 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 489653001789 putative inner membrane peptidase; Provisional; Region: PRK11778 489653001790 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 489653001791 tandem repeat interface [polypeptide binding]; other site 489653001792 oligomer interface [polypeptide binding]; other site 489653001793 active site residues [active] 489653001794 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 489653001795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653001796 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 489653001797 putative active site pocket [active] 489653001798 4-fold oligomerization interface [polypeptide binding]; other site 489653001799 metal binding residues [ion binding]; metal-binding site 489653001800 3-fold/trimer interface [polypeptide binding]; other site 489653001801 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 489653001802 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 489653001803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653001804 homodimer interface [polypeptide binding]; other site 489653001805 catalytic residue [active] 489653001806 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 489653001807 E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 489653001808 NAD binding site [chemical binding]; other site 489653001809 dimerization interface [polypeptide binding]; other site 489653001810 product binding site; other site 489653001811 substrate binding site [chemical binding]; other site 489653001812 zinc binding site [ion binding]; other site 489653001813 catalytic residues [active] 489653001814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3680 489653001815 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 489653001816 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 489653001817 Cu(I) binding site [ion binding]; other site 489653001818 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 489653001819 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 489653001820 PYR/PP interface [polypeptide binding]; other site 489653001821 dimer interface [polypeptide binding]; other site 489653001822 TPP binding site [chemical binding]; other site 489653001823 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 489653001824 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 489653001825 TPP-binding site [chemical binding]; other site 489653001826 dimer interface [polypeptide binding]; other site 489653001827 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 489653001828 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 489653001829 putative valine binding site [chemical binding]; other site 489653001830 dimer interface [polypeptide binding]; other site 489653001831 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 489653001832 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 489653001833 ketol-acid reductoisomerase; Provisional; Region: PRK05479 489653001834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653001835 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 489653001836 ornithine carbamoyltransferase; Validated; Region: PRK02102 489653001837 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 489653001838 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 489653001839 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 489653001840 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change...; Region: AcnB_Swivel; cd01576 489653001841 substrate binding site [chemical binding]; other site 489653001842 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 489653001843 substrate binding site [chemical binding]; other site 489653001844 ligand binding site [chemical binding]; other site 489653001845 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 489653001846 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 489653001847 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 489653001848 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 489653001849 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...; Region: Peptidase_M17; cd00433 489653001850 interface (dimer of trimers) [polypeptide binding]; other site 489653001851 Substrate-binding/catalytic site; other site 489653001852 Zn-binding sites [ion binding]; other site 489653001853 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 489653001854 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 489653001855 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 489653001856 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 489653001857 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 489653001858 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 489653001859 active site 489653001860 substrate binding site [chemical binding]; other site 489653001861 cosubstrate binding site; other site 489653001862 catalytic site [active] 489653001863 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 489653001864 OsmC-like protein; Region: OsmC; cl00767 489653001865 Transcriptional regulators [Transcription]; Region: GntR; COG1802 489653001866 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 489653001867 DNA-binding site [nucleotide binding]; DNA binding site 489653001868 FCD domain; Region: FCD; cl11656 489653001869 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 489653001870 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 489653001871 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653001872 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 489653001873 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 489653001874 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 489653001875 active site 489653001876 HIGH motif; other site 489653001877 nucleotide binding site [chemical binding]; other site 489653001878 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 489653001879 KMSKS motif; other site 489653001880 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 489653001881 glutathione synthetase; Provisional; Region: PRK05246 489653001882 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 489653001883 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 489653001884 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 489653001885 Protein of unknown function (DUF461); Region: DUF461; cl01071 489653001886 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 489653001887 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 489653001888 Ligand Binding Site [chemical binding]; other site 489653001889 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 489653001890 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 489653001891 CTP synthetase; Validated; Region: pyrG; PRK05380 489653001892 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer...; Region: CTGs; cd03113 489653001893 Catalytic site [active] 489653001894 Active site [active] 489653001895 UTP binding site [chemical binding]; other site 489653001896 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 489653001897 active site 489653001898 putative oxyanion hole; other site 489653001899 catalytic triad [active] 489653001900 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 489653001901 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; cl14882 489653001902 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 489653001903 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 489653001904 Domain of unknown function DUF87; Region: DUF87; pfam01935 489653001905 AAA-like domain; Region: AAA_10; pfam12846 489653001906 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 489653001907 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 489653001908 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 489653001909 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 489653001910 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 489653001911 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 489653001912 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 489653001913 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 489653001914 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 489653001915 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 489653001916 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 489653001917 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 489653001918 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...; Region: Sigma70_r4; cd06171 489653001919 DNA binding residues [nucleotide binding] 489653001920 DNA primase; Validated; Region: dnaG; PRK05667 489653001921 CHC2 zinc finger; Region: zf-CHC2; cl02597 489653001922 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 489653001923 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 489653001924 active site 489653001925 metal binding site [ion binding]; metal-binding site 489653001926 interdomain interaction site; other site 489653001927 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 489653001928 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 489653001929 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 489653001930 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; cl14882 489653001931 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 489653001932 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 489653001933 SEC-C motif; Region: SEC-C; cl12132 489653001934 Protein of unknown function (DUF721); Region: DUF721; cl02324 489653001935 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 489653001936 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 489653001937 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 489653001938 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 489653001939 metal binding site [ion binding]; metal-binding site 489653001940 dimer interface [polypeptide binding]; other site 489653001941 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 489653001942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 489653001943 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 489653001944 substrate binding site [chemical binding]; other site 489653001945 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 489653001946 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 489653001947 DNA binding site [nucleotide binding] 489653001948 active site 489653001949 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 489653001950 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 489653001951 putative active site [active] 489653001952 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 489653001953 SmpB-tmRNA interface; other site 489653001954 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 489653001955 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 489653001956 FAD binding domain; Region: FAD_binding_4; pfam01565 489653001957 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 489653001958 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 489653001959 active site lid residues [active] 489653001960 substrate binding pocket [chemical binding]; other site 489653001961 catalytic residues [active] 489653001962 substrate-Mg2+ binding site; other site 489653001963 aspartate-rich region 1; other site 489653001964 aspartate-rich region 2; other site 489653001965 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 489653001966 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 489653001967 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 489653001968 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 489653001969 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 489653001970 DsbD alpha interface [polypeptide binding]; other site 489653001971 catalytic residues [active] 489653001972 Acetokinase family; Region: Acetate_kinase; cl01029 489653001973 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 489653001974 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 489653001975 Proteobacterial; Region: dnaQ_proteo; TIGR01406 489653001976 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 489653001977 active site 489653001978 substrate binding site [chemical binding]; other site 489653001979 catalytic site [active] 489653001980 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 489653001981 substrate binding site [chemical binding]; other site 489653001982 dimer interface [polypeptide binding]; other site 489653001983 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...; Region: MECDP_synthase; cd00554 489653001984 homotrimer interaction site [polypeptide binding]; other site 489653001985 zinc binding site [ion binding]; other site 489653001986 CDP-binding sites; other site 489653001987 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 489653001988 tetramer (dimer of dimers) interface [polypeptide binding]; other site 489653001989 active site 489653001990 dimer interface [polypeptide binding]; other site 489653001991 Staphylococcal nuclease homologues; Region: SNc; smart00318 489653001992 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 489653001993 Catalytic site; other site 489653001994 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...; Region: TM_PBP2; cd06261 489653001995 dimer interface [polypeptide binding]; other site 489653001996 conserved gate region; other site 489653001997 putative PBP binding loops; other site 489653001998 ABC-ATPase subunit interface; other site 489653001999 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 489653002000 Sulfatase; Region: Sulfatase; cl10460 489653002001 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 489653002002 arginine-tRNA ligase; Region: PLN02286 489653002003 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 489653002004 active site 489653002005 HIGH motif; other site 489653002006 KMSK motif region; other site 489653002007 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 489653002008 tRNA binding surface [nucleotide binding]; other site 489653002009 anticodon binding site; other site 489653002010 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 489653002011 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. 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...; Region: PncB_like; cd01401 489653002012 active site 489653002013 ScpA/B protein; Region: ScpA_ScpB; cl00598 489653002014 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 489653002015 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-...; Region: YgdL_like; cd00755 489653002016 putative ATP binding site [chemical binding]; other site 489653002017 putative substrate interface [chemical binding]; other site 489653002018 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 489653002019 Ligand Binding Site [chemical binding]; other site 489653002020 ribonuclease PH; Reviewed; Region: rph; PRK00173 489653002021 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 489653002022 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 489653002023 aspartate kinase; Reviewed; Region: PRK06635 489653002024 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 489653002025 putative nucleotide binding site [chemical binding]; other site 489653002026 putative catalytic residues [active] 489653002027 putative Mg ion binding site [ion binding]; other site 489653002028 putative aspartate binding site [chemical binding]; other site 489653002029 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 489653002030 putative allosteric regulatory site; other site 489653002031 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 489653002032 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 489653002033 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 489653002034 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...; Region: OM_channels; cl00284 489653002035 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-...; Region: PseudoU_synth_RluE; cd02566 489653002036 probable active site [active] 489653002037 Carbon starvation protein CstA; Region: CstA; cl00856 489653002038 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 489653002039 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 489653002040 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 489653002041 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 489653002042 tetramerization interface [polypeptide binding]; other site 489653002043 NAD(P) binding site [chemical binding]; other site 489653002044 catalytic residues [active] 489653002045 Integral membrane protein TerC family; Region: TerC; cl10468 489653002046 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 489653002047 Transporter associated domain; Region: CorC_HlyC; pfam03471 489653002048 Survival protein SurE; Region: SurE; cl00448 489653002049 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 489653002050 putative peptidoglycan binding site; other site 489653002051 Peptidase family M23; Region: Peptidase_M23; pfam01551 489653002052 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 489653002053 RecX family; Region: RecX; cl00936 489653002054 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 489653002055 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 489653002056 motif II; other site 489653002057 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 489653002058 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 489653002059 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 489653002060 NAD(P) binding site [chemical binding]; other site 489653002061 hypothetical protein 489653002062 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 489653002063 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 489653002064 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 489653002065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653002066 homodimer interface [polypeptide binding]; other site 489653002067 catalytic residue [active] 489653002068 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 489653002069 Clp amino terminal domain; Region: Clp_N; pfam02861 489653002070 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...; Region: AAA; cd00009 489653002071 Walker A motif; other site 489653002072 ATP binding site [chemical binding]; other site 489653002073 Walker B motif; other site 489653002074 arginine finger; other site 489653002075 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...; Region: AAA; cd00009 489653002076 Walker A motif; other site 489653002077 ATP binding site [chemical binding]; other site 489653002078 Walker B motif; other site 489653002079 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 489653002080 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 489653002081 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 489653002082 active site 489653002083 HIGH motif; other site 489653002084 dimer interface [polypeptide binding]; other site 489653002085 KMSKS motif; other site 489653002086 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 489653002087 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 489653002088 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 489653002089 Protein of unknown function (DUF560); Region: DUF560; pfam04575 489653002090 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 489653002091 non-specific DNA binding site [nucleotide binding]; other site 489653002092 salt bridge; other site 489653002093 sequence-specific DNA binding site [nucleotide binding]; other site 489653002094 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 489653002095 N-acetyl-D-glucosamine binding site [chemical binding]; other site 489653002096 catalytic residue [active] 489653002097 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 489653002098 Major Facilitator Superfamily; Region: MFS_1; pfam07690 489653002099 putative substrate translocation pore; other site 489653002100 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 489653002101 dimer interface [polypeptide binding]; other site 489653002102 ssDNA binding site [nucleotide binding]; other site 489653002103 tetramer (dimer of dimers) interface [polypeptide binding]; other site 489653002104 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 489653002105 DNA binding site [nucleotide binding] 489653002106 active site 489653002107 Int/Topo IB signature motif; other site 489653002108 catalytic residues [active] 489653002109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 489653002110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 489653002111 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 489653002112 active site 489653002113 metal binding site [ion binding]; metal-binding site 489653002114 transposase (fragment) 489653002115 transposase (fragment) 489653002116 Integrase core domain; Region: rve; cl01316 489653002117 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; cl01116 489653002118 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 489653002119 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 489653002120 Surface antigen; Region: Bac_surface_Ag; cl03097 489653002121 haemagglutination activity domain; Region: Haemagg_act; cl05436 489653002122 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 489653002123 adhesin (fragment) 489653002124 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 489653002125 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 489653002126 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 489653002127 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 489653002128 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...; Region: AAA; cd00009 489653002129 Walker A motif; other site 489653002130 ATP binding site [chemical binding]; other site 489653002131 Walker B motif; other site 489653002132 arginine finger; other site 489653002133 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 489653002134 active site 489653002135 catalytic triad [active] 489653002136 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 489653002137 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 489653002138 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 489653002139 ParB-like nuclease domain; Region: ParBc; cl02129 489653002140 RepB plasmid partitioning protein; Region: RepB; pfam07506 489653002141 RepB plasmid partitioning protein; Region: RepB; pfam07506 489653002142 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 489653002143 Integrase core domain; Region: rve; cl01316 489653002144 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; cl01116 489653002145 hypothetical protein (pseudogene) 489653002146 hypothetical protein (pseudogene) 489653002147 haemagglutination activity domain; Region: Haemagg_act; cl05436 489653002148 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 489653002149 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 489653002150 haemagglutination activity domain; Region: Haemagg_act; cl05436 489653002151 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 489653002152 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 489653002153 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 489653002154 Surface antigen; Region: Bac_surface_Ag; cl03097 489653002155 transposase for IS1106A3 (pseudogene) 489653002156 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 489653002157 EamA-like transporter family; Region: EamA; cl01037 489653002158 fumarate hydratase; Reviewed; Region: fumC; PRK00485 489653002159 Class II fumarases; Region: Fumarase_classII; cd01362 489653002160 active site 489653002161 tetramer interface [polypeptide binding]; other site 489653002162 Sulfatase; Region: Sulfatase; cl10460 489653002163 transketolase; Reviewed; Region: PRK12753 489653002164 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 489653002165 TPP-binding site [chemical binding]; other site 489653002166 dimer interface [polypeptide binding]; other site 489653002167 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 489653002168 PYR/PP interface [polypeptide binding]; other site 489653002169 dimer interface [polypeptide binding]; other site 489653002170 TPP binding site [chemical binding]; other site 489653002171 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 489653002172 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 489653002173 4Fe-4S binding domain; Region: Fer4_5; pfam12801 489653002174 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 489653002175 FixH; Region: FixH; cl01254 489653002176 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...; Region: NPD_like; cd04730 489653002177 FMN binding site [chemical binding]; other site 489653002178 substrate binding site [chemical binding]; other site 489653002179 putative catalytic residue [active] 489653002180 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 489653002181 active site 489653002182 substrate binding site [chemical binding]; other site 489653002183 catalytic site [active] 489653002184 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 489653002185 ferredoxin-NADP reductase; Provisional; Region: PRK10926 489653002186 FAD binding pocket [chemical binding]; other site 489653002187 FAD binding motif [chemical binding]; other site 489653002188 phosphate binding motif [ion binding]; other site 489653002189 beta-alpha-beta structure motif; other site 489653002190 NAD binding pocket [chemical binding]; other site 489653002191 hypothetical protein 489653002192 Integrase core domain; Region: rve; cl01316 489653002193 transposase (fragment) 489653002194 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 489653002195 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 489653002196 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 489653002197 haemagglutination activity domain; Region: Haemagg_act; cl05436 489653002198 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 489653002199 Protein of unknown function, DUF596; Region: DUF596; cl10492 489653002200 haemagglutinin/haemolysin-related protein (fragment) 489653002201 Protein of unknown function, DUF596; Region: DUF596; cl10492 489653002202 haemagglutinin/haemolysin-related protein (fragment) 489653002203 transposase (fragment) 489653002204 haemagglutinin/haemolysin-related protein (fragment) 489653002205 haemagglutinin/haemolysin-related protein (fragment) 489653002206 haemagglutinin/haemolysin-related protein (fragment) 489653002207 haemagglutinin/haemolysin-related protein (fragment) 489653002208 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 489653002209 haemagglutinin/haemolysin-related protein (fragment) 489653002210 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cl02529 489653002211 adenine glycosylase 489653002212 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 489653002213 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 489653002214 catalytic Zn binding site [ion binding]; other site 489653002215 structural Zn binding site [ion binding]; other site 489653002216 NAD(P) binding site [chemical binding]; other site 489653002217 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 489653002218 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 489653002219 active site 489653002220 intersubunit interface [polypeptide binding]; other site 489653002221 catalytic residue [active] 489653002222 Dehydratase family; Region: ILVD_EDD; cl00340 489653002223 6-phosphogluconate dehydratase; Region: edd; TIGR01196 489653002224 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 489653002225 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 489653002226 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 489653002227 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 489653002228 putative active site [active] 489653002229 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 489653002230 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 489653002231 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 489653002232 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 489653002233 putative active site [active] 489653002234 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 489653002235 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 489653002236 active site 489653002237 dimer interface [polypeptide binding]; other site 489653002238 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 489653002239 dimer interface [polypeptide binding]; other site 489653002240 active site 489653002241 Smr domain; Region: Smr; cl02619 489653002242 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 489653002243 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 489653002244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 489653002245 Coenzyme A binding pocket [chemical binding]; other site 489653002246 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 489653002247 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 489653002248 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 489653002249 anthranilate synthase component I; Provisional; Region: PRK13565 489653002250 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 489653002251 chorismate binding enzyme; Region: Chorismate_bind; cl10555 489653002252 ABC transporter ATPase component; Reviewed; Region: PRK11147 489653002253 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653002254 Walker A/P-loop; other site 489653002255 ATP binding site [chemical binding]; other site 489653002256 Q-loop/lid; other site 489653002257 ABC transporter signature motif; other site 489653002258 Walker B; other site 489653002259 D-loop; other site 489653002260 H-loop/switch region; other site 489653002261 ABC transporter; Region: ABC_tran_2; pfam12848 489653002262 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 489653002263 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 489653002264 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 489653002265 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of...; Region: SHMT; cd00378 489653002266 dimer interface [polypeptide binding]; other site 489653002267 glycine-pyridoxal phosphate binding site [chemical binding]; other site 489653002268 active site 489653002269 folate binding site [chemical binding]; other site 489653002270 Protein of unknown function (DUF465); Region: DUF465; cl01070 489653002271 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1,7-...; Region: FBPase; cd00354 489653002272 AMP binding site [chemical binding]; other site 489653002273 metal binding site [ion binding]; metal-binding site 489653002274 active site 489653002275 Protein of unknown function (DUF519); Region: DUF519; cl04492 489653002276 Domain of unknown function (DUF205); Region: DUF205; cl00410 489653002277 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...; Region: DHNA_DHNTPE; cd00534 489653002278 homooctamer interface [polypeptide binding]; other site 489653002279 active site 489653002280 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 489653002281 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...; Region: ADPRase_NUDT5; cd03424 489653002282 dimer interface [polypeptide binding]; other site 489653002283 ADP-ribose binding site [chemical binding]; other site 489653002284 active site 489653002285 nudix motif; other site 489653002286 metal binding site [ion binding]; metal-binding site 489653002287 CrcB-like protein; Region: CRCB; cl09114 489653002288 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 489653002289 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653002290 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 489653002291 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 489653002292 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 489653002293 putative catalytic cysteine [active] 489653002294 glutamate 5-kinase; Region: proB; TIGR01027 489653002295 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 489653002296 nucleotide binding site [chemical binding]; other site 489653002297 homotetrameric interface [polypeptide binding]; other site 489653002298 putative phosphate binding site [ion binding]; other site 489653002299 putative allosteric binding site; other site 489653002300 PUA domain; Region: PUA; cl00607 489653002301 2-isopropylmalate synthase; Validated; Region: PRK00915 489653002302 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 489653002303 active site 489653002304 catalytic residues [active] 489653002305 metal binding site [ion binding]; metal-binding site 489653002306 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 489653002307 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 489653002308 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 489653002309 SEC-C motif; Region: SEC-C; cl12132 489653002310 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 489653002311 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 489653002312 A bacterial subgroup of the Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP)-like proteins. The Peptidase M14 family of...; Region: M14_Nna1_like_1; cd06234 489653002313 putative active site [active] 489653002314 Zn-binding site [ion binding]; other site 489653002315 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using...; Region: AAK_NAGK-C; cd04250 489653002316 feedback inhibition sensing region; other site 489653002317 homohexameric interface [polypeptide binding]; other site 489653002318 nucleotide binding site [chemical binding]; other site 489653002319 N-acetyl-L-glutamate binding site [chemical binding]; other site 489653002320 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; cl11391 489653002321 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 489653002322 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653002323 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 489653002324 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 489653002325 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 489653002326 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 489653002327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 489653002328 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 489653002329 short chain dehydrogenase; Provisional; Region: PRK12939 489653002330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653002331 NAD(P) binding site [chemical binding]; other site 489653002332 active site 489653002333 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 489653002334 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653002335 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 489653002336 active site lid residues [active] 489653002337 substrate binding pocket [chemical binding]; other site 489653002338 catalytic residues [active] 489653002339 substrate-Mg2+ binding site; other site 489653002340 aspartate-rich region 1; other site 489653002341 aspartate-rich region 2; other site 489653002342 chaperone protein HscA; Provisional; Region: hscA; PRK05183 489653002343 T5orf172 domain; Region: T5orf172; pfam10544 489653002344 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; cl01543 489653002345 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 489653002346 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 489653002347 Protein of unknown function (DUF528); Region: DUF528; cl01123 489653002348 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 489653002349 RNA binding surface [nucleotide binding]; other site 489653002350 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 489653002351 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 489653002352 Ligand Binding Site [chemical binding]; other site 489653002353 TilS substrate binding domain; Region: TilS; pfam09179 489653002354 B3/4 domain; Region: B3_4; cl11458 489653002355 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 489653002356 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 489653002357 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 489653002358 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 489653002359 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 489653002360 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 489653002361 biotin synthase; Provisional; Region: PRK15108 489653002362 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 489653002363 FeS/SAM binding site; other site 489653002364 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 489653002365 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 489653002366 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 489653002367 putative active site [active] 489653002368 putative metal binding site [ion binding]; other site 489653002369 Dehydratase family; Region: ILVD_EDD; cl00340 489653002370 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 489653002371 sulfite reductase subunit beta; Provisional; Region: PRK13504 489653002372 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 489653002373 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 489653002374 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 489653002375 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 489653002376 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 489653002377 FAD binding pocket [chemical binding]; other site 489653002378 FAD binding motif [chemical binding]; other site 489653002379 catalytic residues [active] 489653002380 NAD binding pocket [chemical binding]; other site 489653002381 phosphate binding motif [ion binding]; other site 489653002382 beta-alpha-beta structure motif; other site 489653002383 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 489653002384 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 489653002385 CysD dimerization site [polypeptide binding]; other site 489653002386 G1 box; other site 489653002387 putative GEF interaction site [polypeptide binding]; other site 489653002388 GTP/Mg2+ binding site [chemical binding]; other site 489653002389 Switch I region; other site 489653002390 G2 box; other site 489653002391 G3 box; other site 489653002392 Switch II region; other site 489653002393 G4 box; other site 489653002394 G5 box; other site 489653002395 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NodQ_II; cd03695 489653002396 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NoDQ_III; cd04095 489653002397 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 489653002398 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 489653002399 Active Sites [active] 489653002400 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 489653002401 Active Sites [active] 489653002402 siroheme synthase; Provisional; Region: cysG; PRK10637 489653002403 precorrin-2 dehydrogenase; Validated; Region: PRK06719 489653002404 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 489653002405 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 489653002406 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cl00859 489653002407 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 489653002408 putative substrate binding site [chemical binding]; other site 489653002409 putative ATP binding site [chemical binding]; other site 489653002410 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 489653002411 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 489653002412 G1 box; other site 489653002413 putative GEF interaction site [polypeptide binding]; other site 489653002414 GTP/Mg2+ binding site [chemical binding]; other site 489653002415 Switch I region; other site 489653002416 G2 box; other site 489653002417 G3 box; other site 489653002418 Switch II region; other site 489653002419 G4 box; other site 489653002420 G5 box; other site 489653002421 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 489653002422 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...; Region: BipA_TypA_C; cd03710 489653002423 ribonuclease R; Region: RNase_R; TIGR02063 489653002424 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 489653002425 RNB domain; Region: RNB; pfam00773 489653002426 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 489653002427 RNA binding site [nucleotide binding]; other site 489653002428 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 489653002429 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 489653002430 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 key...; Region: CBS_pair_IMPDH; cd04601 489653002431 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 489653002432 active site 489653002433 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 489653002434 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 489653002435 metal binding triad; other site 489653002436 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 489653002437 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 489653002438 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 489653002439 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 489653002440 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 489653002441 non-specific DNA binding site [nucleotide binding]; other site 489653002442 salt bridge; other site 489653002443 sequence-specific DNA binding site [nucleotide binding]; other site 489653002444 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 489653002445 Ferritin-like domain; Region: Ferritin; pfam00210 489653002446 heme binding site [chemical binding]; other site 489653002447 ferroxidase pore; other site 489653002448 ferroxidase diiron center [ion binding]; other site 489653002449 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 489653002450 Ferritin-like domain; Region: Ferritin; pfam00210 489653002451 heme binding site [chemical binding]; other site 489653002452 ferroxidase pore; other site 489653002453 ferroxidase diiron center [ion binding]; other site 489653002454 RTX toxin acyltransferase family; Region: HlyC; cl01131 489653002455 haemagglutination activity domain; Region: Haemagg_act; cl05436 489653002456 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 489653002457 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 489653002458 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 489653002459 Integrase core domain; Region: rve; cl01316 489653002460 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 489653002461 Bacterial TniB protein; Region: TniB; pfam05621 489653002462 TniQ; Region: TniQ; pfam06527 489653002463 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 489653002464 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 489653002465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 489653002466 lipoyl synthase; Provisional; Region: PRK05481 489653002467 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 489653002468 FeS/SAM binding site; other site 489653002469 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 489653002470 Protein of unknown function (DUF493); Region: DUF493; cl01102 489653002471 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 489653002472 Domain of unknown function DUF20; Region: UPF0118; cl00465 489653002473 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 489653002474 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 489653002475 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 489653002476 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 489653002477 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653002478 Walker A/P-loop; other site 489653002479 ATP binding site [chemical binding]; other site 489653002480 Q-loop/lid; other site 489653002481 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 489653002482 ABC transporter signature motif; other site 489653002483 Walker B; other site 489653002484 D-loop; other site 489653002485 ABC transporter; Region: ABC_tran_2; pfam12848 489653002486 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 489653002487 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as...; Region: Mth938-like; cd00248 489653002488 homoserine dehydrogenase; Provisional; Region: PRK06349 489653002489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653002490 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 489653002491 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 489653002492 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 higher-...; Region: HU_IHF; cd00591 489653002493 IHF dimer interface [polypeptide binding]; other site 489653002494 IHF - DNA interface [nucleotide binding]; other site 489653002495 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 489653002496 Found in ATP-dependent protease La (LON); Region: LON; cl01056 489653002497 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...; Region: AAA; cd00009 489653002498 Walker A motif; other site 489653002499 ATP binding site [chemical binding]; other site 489653002500 Walker B motif; other site 489653002501 arginine finger; other site 489653002502 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 489653002503 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 489653002504 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 489653002505 S-adenosylmethionine binding site [chemical binding]; other site 489653002506 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 489653002507 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 489653002508 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 489653002509 Walker A/P-loop; other site 489653002510 ATP binding site [chemical binding]; other site 489653002511 Q-loop/lid; other site 489653002512 ABC transporter signature motif; other site 489653002513 Walker B; other site 489653002514 D-loop; other site 489653002515 H-loop/switch region; other site 489653002516 LolC/E family; Region: lolCE; TIGR02212 489653002517 FtsX-like permease family; Region: FtsX; pfam02687 489653002518 RecR protein; Region: RecR; pfam02132 489653002519 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 489653002520 putative active site [active] 489653002521 putative metal-binding site [ion binding]; other site 489653002522 tetramer interface [polypeptide binding]; other site 489653002523 periplasmic folding chaperone; Provisional; Region: PRK10788 489653002524 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 489653002525 putative catalytic residues [active] 489653002526 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 489653002527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653002528 Walker A/P-loop; other site 489653002529 ATP binding site [chemical binding]; other site 489653002530 ABC transporter signature motif; other site 489653002531 Walker B; other site 489653002532 D-loop; other site 489653002533 H-loop/switch region; other site 489653002534 ABC transporter; Region: ABC_tran_2; pfam12848 489653002535 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 489653002536 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 489653002537 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 489653002538 active site 489653002539 NTP binding site [chemical binding]; other site 489653002540 metal binding triad [ion binding]; metal-binding site 489653002541 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 489653002542 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 489653002543 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 489653002544 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...; Region: AAA; cd00009 489653002545 Walker A motif; other site 489653002546 ATP binding site [chemical binding]; other site 489653002547 Walker B motif; other site 489653002548 arginine finger; other site 489653002549 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 489653002550 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...; Region: RPE; cd00429 489653002551 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 489653002552 substrate binding site [chemical binding]; other site 489653002553 hexamer interface [polypeptide binding]; other site 489653002554 metal binding site [ion binding]; metal-binding site 489653002555 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 489653002556 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 489653002557 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...; Region: AAA; cd00009 489653002558 Walker A motif; other site 489653002559 ATP binding site [chemical binding]; other site 489653002560 Walker B motif; other site 489653002561 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 489653002562 Lumazine binding domain; Region: Lum_binding; pfam00677 489653002563 Lumazine binding domain; Region: Lum_binding; pfam00677 489653002564 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 489653002565 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 489653002566 GTP binding site [chemical binding]; other site 489653002567 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 489653002568 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 connected by an extended linker. The...; Region: HAMP; cl01054 489653002569 Histidine kinase; Region: HisKA_3; pfam07730 489653002570 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 489653002571 ATP binding site [chemical binding]; other site 489653002572 Mg2+ binding site [ion binding]; other site 489653002573 G-X-G motif; other site 489653002574 transcriptional regulator NarL; Provisional; Region: PRK10651 489653002575 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 489653002576 active site 489653002577 phosphorylation site [posttranslational modification] 489653002578 intermolecular recognition site; other site 489653002579 dimerization interface [polypeptide binding]; other site 489653002580 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 489653002581 DNA binding residues [nucleotide binding] 489653002582 dimerization interface [polypeptide binding]; other site 489653002583 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43...; Region: PL2_Passenger_AT; cd01344 489653002584 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 489653002585 Autotransporter beta-domain; Region: Autotransporter; cl02365 489653002586 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 489653002587 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...; Region: PurM; cd02196 489653002588 dimerization interface [polypeptide binding]; other site 489653002589 putative ATP binding site [chemical binding]; other site 489653002590 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 489653002591 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 489653002592 dimerization interface [polypeptide binding]; other site 489653002593 active site 489653002594 glycosyltransferase (pseudogene) 489653002595 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 489653002596 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 489653002597 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; cl00522 489653002598 dimerization interface [polypeptide binding]; other site 489653002599 active site 489653002600 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 489653002601 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 489653002602 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 489653002603 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 489653002604 Virulence protein [General function prediction only]; Region: COG3943 489653002605 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 489653002606 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 489653002607 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; cl14882 489653002608 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 489653002609 nucleotide binding region [chemical binding]; other site 489653002610 ATP-binding site [chemical binding]; other site 489653002611 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 489653002612 recombination factor protein RarA; Reviewed; Region: PRK13342 489653002613 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...; Region: AAA; cd00009 489653002614 Walker A motif; other site 489653002615 ATP binding site [chemical binding]; other site 489653002616 Walker B motif; other site 489653002617 arginine finger; other site 489653002618 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 489653002619 hypothetical protein (pseudogene) 489653002620 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 489653002621 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants...; Region: Thr-synth_2; cd01560 489653002622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653002623 catalytic residue [active] 489653002624 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 489653002625 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 489653002626 FAD binding pocket [chemical binding]; other site 489653002627 FAD binding motif [chemical binding]; other site 489653002628 phosphate binding motif [ion binding]; other site 489653002629 beta-alpha-beta structure motif; other site 489653002630 NAD binding pocket [chemical binding]; other site 489653002631 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 489653002632 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 489653002633 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 489653002634 metal-binding site [ion binding] 489653002635 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 489653002636 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; cl11391 489653002637 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 489653002638 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 489653002639 G1 box; other site 489653002640 GTP/Mg2+ binding site [chemical binding]; other site 489653002641 Switch I region; other site 489653002642 G2 box; other site 489653002643 G3 box; other site 489653002644 Switch II region; other site 489653002645 G4 box; other site 489653002646 G5 box; other site 489653002647 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 489653002648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 489653002649 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 489653002650 hypothetical protein; Reviewed; Region: PRK00024 489653002651 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 489653002652 MPN+ (JAMM) motif; other site 489653002653 Zinc-binding site [ion binding]; other site 489653002654 Glutamate-cysteine ligase; Region: GshA; pfam08886 489653002655 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 489653002656 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 489653002657 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 489653002658 substrate binding site [chemical binding]; other site 489653002659 ligand binding site [chemical binding]; other site 489653002660 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-...; Region: IPMI_Swivel; cd01577 489653002661 substrate binding site [chemical binding]; other site 489653002662 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 489653002663 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 489653002664 cofactor binding site; other site 489653002665 DNA binding site [nucleotide binding] 489653002666 substrate interaction site [chemical binding]; other site 489653002667 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; cl12011 489653002668 NgoBV restriction endonuclease; Region: RE_NgoBV; pfam09564 489653002669 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 489653002670 isocitrate dehydrogenase; Validated; Region: PRK06451 489653002671 YceI-like domain; Region: YceI; cl01001 489653002672 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 489653002673 Aspartase; Region: Aspartase; cd01357 489653002674 active sites [active] 489653002675 tetramer interface [polypeptide binding]; other site 489653002676 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...; Region: DnaJ; cd06257 489653002677 HSP70 interaction site [polypeptide binding]; other site 489653002678 Predicted membrane protein [Function unknown]; Region: COG3671 489653002679 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 489653002680 putative deacylase active site [active] 489653002681 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_2; cd06150 489653002682 homotrimer interaction site [polypeptide binding]; other site 489653002683 putative active site [active] 489653002684 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 489653002685 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 489653002686 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 489653002687 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...; Region: Alpha_ANH_like_II; cd01993 489653002688 Ligand Binding Site [chemical binding]; other site 489653002689 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 489653002690 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; cl12011 489653002691 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; cl12011 489653002692 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 489653002693 substrate binding site [chemical binding]; other site 489653002694 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 489653002695 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 489653002696 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 489653002697 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653002698 metal binding site 2 [ion binding]; metal-binding site 489653002699 putative DNA binding helix; other site 489653002700 metal binding site 1 [ion binding]; metal-binding site 489653002701 dimer interface [polypeptide binding]; other site 489653002702 structural Zn2+ binding site [ion binding]; other site 489653002703 Low molecular weight phosphatase family; Region: LMWPc; cd00115 489653002704 Active site [active] 489653002705 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 489653002706 S-adenosylmethionine binding site [chemical binding]; other site 489653002707 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 489653002708 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 489653002709 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 489653002710 active site 489653002711 substrate binding site [chemical binding]; other site 489653002712 catalytic site [active] 489653002713 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 489653002714 ATP binding site [chemical binding]; other site 489653002715 putative Mg++ binding site [ion binding]; other site 489653002716 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 489653002717 nucleotide binding region [chemical binding]; other site 489653002718 ATP-binding site [chemical binding]; other site 489653002719 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 489653002720 UvrD/REP helicase; Region: UvrD-helicase; cl14126 489653002721 UvrD/REP helicase; Region: UvrD-helicase; cl14126 489653002722 UvrD/REP helicase; Region: UvrD-helicase; cl14126 489653002723 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 489653002724 metal-binding site [ion binding] 489653002725 putative arabinose transporter; Provisional; Region: PRK03545 489653002726 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 489653002727 putative substrate translocation pore; other site 489653002728 MBOAT family; Region: MBOAT; cl00738 489653002729 SGNH_peri2; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri2; cd01829 489653002730 active site 489653002731 catalytic triad [active] 489653002732 oxyanion hole [active] 489653002733 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 489653002734 SGNH_peri1; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri1; cd01825 489653002735 active site 489653002736 oxyanion hole [active] 489653002737 catalytic triad [active] 489653002738 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 489653002739 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 489653002740 BCCT family transporter; Region: BCCT; cl00569 489653002741 choline transport protein BetT; Provisional; Region: PRK09928 489653002742 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 489653002743 Site-specific recombinase; Region: SpecificRecomb; pfam10136 489653002744 lytic murein transglycosylase; Region: MltB_2; TIGR02283 489653002745 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 489653002746 N-acetyl-D-glucosamine binding site [chemical binding]; other site 489653002747 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 489653002748 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 489653002749 active site 489653002750 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 489653002751 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 489653002752 FeS/SAM binding site; other site 489653002753 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 489653002754 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 489653002755 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 489653002756 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 489653002757 ATP binding site [chemical binding]; other site 489653002758 putative Mg++ binding site [ion binding]; other site 489653002759 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 489653002760 nucleotide binding region [chemical binding]; other site 489653002761 ATP-binding site [chemical binding]; other site 489653002762 TRCF domain; Region: TRCF; pfam03461 489653002763 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 489653002764 tetramerization interface [polypeptide binding]; other site 489653002765 active site 489653002766 NeuB family; Region: NeuB; cl00496 489653002767 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 489653002768 enolase; Provisional; Region: eno; PRK00077 489653002769 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 489653002770 dimer interface [polypeptide binding]; other site 489653002771 metal binding site [ion binding]; metal-binding site 489653002772 substrate binding pocket [chemical binding]; other site 489653002773 Septum formation initiator; Region: DivIC; cl11433 489653002774 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 489653002775 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 489653002776 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 489653002777 dimer interface [polypeptide binding]; other site 489653002778 putative radical transfer pathway; other site 489653002779 diiron center [ion binding]; other site 489653002780 tyrosyl radical; other site 489653002781 Abi-like protein; Region: Abi_2; cl01988 489653002782 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 489653002783 ATP cone domain; Region: ATP-cone; pfam03477 489653002784 Class I ribonucleotide reductase; Region: RNR_I; cd01679 489653002785 active site 489653002786 dimer interface [polypeptide binding]; other site 489653002787 catalytic residues [active] 489653002788 effector binding site; other site 489653002789 R2 peptide binding site; other site 489653002790 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 489653002791 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 489653002792 putative acyl-acceptor binding pocket; other site 489653002793 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 489653002794 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 489653002795 DNA binding site [nucleotide binding] 489653002796 catalytic residue [active] 489653002797 H2TH interface [polypeptide binding]; other site 489653002798 putative catalytic residues [active] 489653002799 turnover-facilitating residue; other site 489653002800 intercalation triad [nucleotide binding]; other site 489653002801 8OG recognition residue [nucleotide binding]; other site 489653002802 putative reading head residues; other site 489653002803 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 489653002804 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 489653002805 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; cl12011 489653002806 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 489653002807 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 489653002808 N-acetyl-D-glucosamine binding site [chemical binding]; other site 489653002809 catalytic residue [active] 489653002810 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 489653002811 putative peptidoglycan binding site; other site 489653002812 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 489653002813 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 489653002814 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 489653002815 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 489653002816 RNA binding surface [nucleotide binding]; other site 489653002817 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 489653002818 active site 489653002819 uracil binding [chemical binding]; other site 489653002820 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 489653002821 cytidylate kinase; Provisional; Region: cmk; PRK00023 489653002822 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 489653002823 CMP-binding site; other site 489653002824 The sites determining sugar specificity; other site 489653002825 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 489653002826 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 489653002827 RNA binding site [nucleotide binding]; other site 489653002828 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 489653002829 RNA binding site [nucleotide binding]; other site 489653002830 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 489653002831 RNA binding site [nucleotide binding]; other site 489653002832 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 489653002833 RNA binding site [nucleotide binding]; other site 489653002834 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 489653002835 RNA binding site [nucleotide binding]; other site 489653002836 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 489653002837 RNA binding site [nucleotide binding]; other site 489653002838 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 higher-...; Region: HU_IHF; cd00591 489653002839 IHF dimer interface [polypeptide binding]; other site 489653002840 IHF - DNA interface [nucleotide binding]; other site 489653002841 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 489653002842 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 489653002843 DNA binding residues [nucleotide binding] 489653002844 putative dimer interface [polypeptide binding]; other site 489653002845 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 489653002846 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 489653002847 substrate binding site [chemical binding]; other site 489653002848 catalytic Zn binding site [ion binding]; other site 489653002849 NAD binding site [chemical binding]; other site 489653002850 structural Zn binding site [ion binding]; other site 489653002851 dimer interface [polypeptide binding]; other site 489653002852 Predicted esterase [General function prediction only]; Region: COG0627 489653002853 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 489653002854 Predicted ATPase [General function prediction only]; Region: COG1485 489653002855 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 489653002856 active site 489653002857 multimer interface [polypeptide binding]; other site 489653002858 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 489653002859 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 489653002860 FeS/SAM binding site; other site 489653002861 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 489653002862 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 489653002863 binding surface 489653002864 TPR motif; other site 489653002865 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 489653002866 TPR motif; other site 489653002867 binding surface 489653002868 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 489653002869 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 489653002870 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 489653002871 oligomer interface [polypeptide binding]; other site 489653002872 active site residues [active] 489653002873 trigger factor; Provisional; Region: tig; PRK01490 489653002874 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 489653002875 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 489653002876 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 489653002877 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653002878 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 489653002879 Sulfate transporter family; Region: Sulfate_transp; cl00967 489653002880 Permease family; Region: Xan_ur_permease; pfam00860 489653002881 additional locus_tag=NLA11510; hypothetical protein 489653002882 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 489653002883 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 489653002884 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 489653002885 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 489653002886 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 489653002887 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 489653002888 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 489653002889 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 489653002890 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 489653002891 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653002892 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 489653002893 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 489653002894 metal-binding site [ion binding] 489653002895 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 489653002896 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; cl11391 489653002897 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 489653002898 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 489653002899 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 489653002900 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 489653002901 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 489653002902 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 489653002903 Sel1 repeat; Region: Sel1; cl02723 489653002904 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; cl12011 489653002905 excinuclease ABC subunit B; Provisional; Region: PRK05298 489653002906 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 489653002907 ATP binding site [chemical binding]; other site 489653002908 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 489653002909 nucleotide binding region [chemical binding]; other site 489653002910 ATP-binding site [chemical binding]; other site 489653002911 Ultra-violet resistance protein B; Region: UvrB; pfam12344 489653002912 UvrB/uvrC motif; Region: UVR; pfam02151 489653002913 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 489653002914 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 489653002915 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 489653002916 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 489653002917 protein binding site [polypeptide binding]; other site 489653002918 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 489653002919 Catalytic dyad [active] 489653002920 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 489653002921 Peptidase family M23; Region: Peptidase_M23; pfam01551 489653002922 CreA protein; Region: CreA; cl01154 489653002923 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 489653002924 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 489653002925 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 489653002926 prolyl-tRNA synthetase; Provisional; Region: PRK09194 489653002927 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 489653002928 dimer interface [polypeptide binding]; other site 489653002929 motif 1; other site 489653002930 active site 489653002931 motif 2; other site 489653002932 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 single-...; Region: ProRS-INS; cd04334 489653002933 putative deacylase active site [active] 489653002934 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 489653002935 active site 489653002936 motif 3; other site 489653002937 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-...; Region: ProRS_anticodon_short; cd00861 489653002938 anticodon binding site; other site 489653002939 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 489653002940 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 489653002941 dimer interface [polypeptide binding]; other site 489653002942 TPP-binding site [chemical binding]; other site 489653002943 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 489653002944 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 489653002945 E3 interaction surface; other site 489653002946 lipoyl attachment site [posttranslational modification]; other site 489653002947 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 489653002948 E3 interaction surface; other site 489653002949 lipoyl attachment site [posttranslational modification]; other site 489653002950 e3 binding domain; Region: E3_binding; pfam02817 489653002951 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 489653002952 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 489653002953 E3 interaction surface; other site 489653002954 lipoyl attachment site [posttranslational modification]; other site 489653002955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653002956 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 489653002957 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653002958 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 489653002959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 489653002960 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 489653002961 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 489653002962 N-terminal plug; other site 489653002963 ligand-binding site [chemical binding]; other site 489653002964 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 489653002965 active site 489653002966 dimerization interface [polypeptide binding]; other site 489653002967 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 489653002968 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 489653002969 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 489653002970 16S rRNA methyltransferase B; Provisional; Region: PRK10901 489653002971 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; cl12011 489653002972 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 489653002973 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 489653002974 NAD(P) binding site [chemical binding]; other site 489653002975 catalytic residues [active] 489653002976 MarC family integral membrane protein; Region: MarC; cl00919 489653002977 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 489653002978 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 489653002979 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 489653002980 Protein of unknown function (DUF535); Region: DUF535; cl01128 489653002981 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 489653002982 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 489653002983 GatB domain; Region: GatB_Yqey; cl11497 489653002984 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 489653002985 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 489653002986 catalytic loop [active] 489653002987 iron binding site [ion binding]; other site 489653002988 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD...; Region: flavin_oxioreductase; cd06189 489653002989 FAD binding pocket [chemical binding]; other site 489653002990 FAD binding motif [chemical binding]; other site 489653002991 phosphate binding motif [ion binding]; other site 489653002992 beta-alpha-beta structure motif; other site 489653002993 NAD binding pocket [chemical binding]; other site 489653002994 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 489653002995 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 489653002996 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 489653002997 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 489653002998 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 489653002999 RNA binding surface [nucleotide binding]; other site 489653003000 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 489653003001 probable active site [active] 489653003002 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 489653003003 non-specific DNA binding site [nucleotide binding]; other site 489653003004 salt bridge; other site 489653003005 sequence-specific DNA binding site [nucleotide binding]; other site 489653003006 Predicted transcriptional regulator [Transcription]; Region: COG2378 489653003007 AAA-like domain; Region: AAA_10; pfam12846 489653003008 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 489653003009 E3 interaction surface; other site 489653003010 lipoyl attachment site [posttranslational modification]; other site 489653003011 RelB antitoxin; Region: RelB; cl01171 489653003012 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 489653003013 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 489653003014 Major Facilitator Superfamily; Region: MFS_1; pfam07690 489653003015 putative substrate translocation pore; other site 489653003016 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 489653003017 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 489653003018 generic binding surface II; other site 489653003019 generic binding surface I; other site 489653003020 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 489653003021 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...; Region: NAD_synthase; cd00553 489653003022 homodimer interface [polypeptide binding]; other site 489653003023 NAD binding pocket [chemical binding]; other site 489653003024 ATP binding pocket [chemical binding]; other site 489653003025 Mg binding site [ion binding]; other site 489653003026 active-site loop [active] 489653003027 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 489653003028 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 489653003029 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 489653003030 catalytic residues [active] 489653003031 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 489653003032 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; cl12011 489653003033 helicase 45; Provisional; Region: PTZ00424 489653003034 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 489653003035 ATP binding site [chemical binding]; other site 489653003036 Mg++ binding site [ion binding]; other site 489653003037 motif III; other site 489653003038 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 489653003039 nucleotide binding region [chemical binding]; other site 489653003040 ATP-binding site [chemical binding]; other site 489653003041 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 489653003042 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 489653003043 inhibitor-cofactor binding pocket; inhibition site 489653003044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653003045 catalytic residue [active] 489653003046 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 489653003047 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 489653003048 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...; Region: AAA; cd00009 489653003049 Walker A motif; other site 489653003050 ATP binding site [chemical binding]; other site 489653003051 Walker B motif; other site 489653003052 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 489653003053 Ribosome-binding factor A; Region: RBFA; cl00542 489653003054 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 489653003055 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 489653003056 RNA binding site [nucleotide binding]; other site 489653003057 active site 489653003058 type III restriction/modification system modification methylase (fragment) 489653003059 DNA methylase (fragment) 489653003060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 489653003061 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 489653003062 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 489653003063 phosphate binding site [ion binding]; other site 489653003064 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653003065 Rrf2 family protein; Region: rrf2_super; TIGR00738 489653003066 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 489653003067 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 489653003068 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 489653003069 catalytic residue [active] 489653003070 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 489653003071 trimerization site [polypeptide binding]; other site 489653003072 active site 489653003073 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 489653003074 co-chaperone HscB; Provisional; Region: hscB; PRK03578 489653003075 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...; Region: DnaJ; cl02542 489653003076 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 489653003077 DNA gyrase subunit A; Validated; Region: PRK05560 489653003078 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 489653003079 CAP-like domain; other site 489653003080 Active site [active] 489653003081 primary dimer interface [polypeptide binding]; other site 489653003082 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 489653003083 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 489653003084 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 489653003085 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 489653003086 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 489653003087 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 489653003088 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 489653003089 N-terminal plug; other site 489653003090 ligand-binding site [chemical binding]; other site 489653003091 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 489653003092 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 489653003093 YadA-like C-terminal region; Region: YadA; pfam03895 489653003094 Rubredoxin [Energy production and conversion]; Region: COG1773 489653003095 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...; Region: rubredoxin; cd00730 489653003096 iron binding site [ion binding]; other site 489653003097 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 489653003098 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 489653003099 active site 489653003100 Uncharacterized conserved protein [Function unknown]; Region: COG2128 489653003101 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 489653003102 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 489653003103 D-lactate dehydrogenase; Provisional; Region: PRK11183 489653003104 FAD binding domain; Region: FAD_binding_4; pfam01565 489653003105 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 489653003106 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 489653003107 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 489653003108 FAD binding domain; Region: FAD_binding_4; pfam01565 489653003109 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 489653003110 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 489653003111 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 489653003112 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 489653003113 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...; Region: DUS_like_FMN; cd02801 489653003114 FMN binding site [chemical binding]; other site 489653003115 active site 489653003116 catalytic residues [active] 489653003117 substrate binding site [chemical binding]; other site 489653003118 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 489653003119 domain; Region: GreA_GreB_N; pfam03449 489653003120 C-term; Region: GreA_GreB; pfam01272 489653003121 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 489653003122 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 489653003123 hinge; other site 489653003124 active site 489653003125 NlpC/P60 family; Region: NLPC_P60; cl11438 489653003126 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 489653003127 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 489653003128 putative active site [active] 489653003129 catalytic site [active] 489653003130 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 489653003131 putative active site [active] 489653003132 catalytic site [active] 489653003133 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 489653003134 putative transporter; Provisional; Region: PRK10504 489653003135 putative substrate translocation pore; other site 489653003136 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 489653003137 Cysteine-rich domain; Region: CCG; pfam02754 489653003138 Cysteine-rich domain; Region: CCG; pfam02754 489653003139 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 489653003140 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 489653003141 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; cl14882 489653003142 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 489653003143 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 alpha-; Region: HCP_like; cl14655 489653003144 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 489653003145 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 489653003146 putative active site [active] 489653003147 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 489653003148 AIR carboxylase; Region: AIRC; cl00310 489653003149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 489653003150 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 489653003151 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; cl12011 489653003152 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 489653003153 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 489653003154 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 489653003155 ATP binding site [chemical binding]; other site 489653003156 Mg2+ binding site [ion binding]; other site 489653003157 G-X-G motif; other site 489653003158 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 489653003159 ATP binding site [chemical binding]; other site 489653003160 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 489653003161 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 489653003162 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...; Region: AAA; cd00009 489653003163 Walker A motif; other site 489653003164 ATP binding site [chemical binding]; other site 489653003165 Walker B motif; other site 489653003166 arginine finger; other site 489653003167 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 489653003168 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 489653003169 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 489653003170 YadA-like C-terminal region; Region: YadA; pfam03895 489653003171 recombinase A; Provisional; Region: recA; PRK09354 489653003172 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 489653003173 hexamer interface [polypeptide binding]; other site 489653003174 Walker A motif; other site 489653003175 ATP binding site [chemical binding]; other site 489653003176 Walker B motif; other site 489653003177 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 489653003178 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 489653003179 active site 489653003180 catalytic residue [active] 489653003181 dimer interface [polypeptide binding]; other site 489653003182 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 489653003183 UvrD/REP helicase; Region: UvrD-helicase; cl14126 489653003184 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 489653003185 active site 489653003186 DNA polymerase IV; Validated; Region: PRK02406 489653003187 DNA binding site [nucleotide binding] 489653003188 TonB-dependent siderophore receptor (fragment) 489653003189 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; cl01116 489653003190 Integrase core domain; Region: rve; cl01316 489653003191 hypothetical protein 489653003192 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 489653003193 putative active site [active] 489653003194 catalytic triad [active] 489653003195 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 489653003196 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta)...; Region: PL_Passenger_AT; cl00185 489653003197 Autotransporter beta-domain; Region: Autotransporter; cl02365 489653003198 Possible hemagglutinin (DUF638); Region: DUF638; pfam04829 489653003199 Integrase core domain; Region: rve; cl01316 489653003200 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; cl01116 489653003201 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 489653003202 Possible hemagglutinin (DUF638); Region: DUF638; pfam04829 489653003203 Possible hemagglutinin (DUF638); Region: DUF638; pfam04829 489653003204 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 489653003205 Replication initiation factor; Region: Rep_trans; pfam02486 489653003206 Protein of unknown function (DUF1132); Region: DUF1132; pfam06575 489653003207 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 489653003208 Zonular occludens toxin (Zot); Region: Zot; cl01706 489653003209 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 489653003210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 489653003211 Transposase; Region: DEDD_Tnp_IS110; pfam01548 489653003212 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 489653003213 haemagglutination activity domain; Region: Haemagg_act; cl05436 489653003214 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 489653003215 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 489653003216 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 489653003217 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 489653003218 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 489653003219 glutamine binding [chemical binding]; other site 489653003220 catalytic triad [active] 489653003221 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 489653003222 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 489653003223 N-terminal plug; other site 489653003224 ligand-binding site [chemical binding]; other site 489653003225 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 489653003226 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 489653003227 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 489653003228 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 489653003229 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 489653003230 Eco29kI restriction endonuclease; Region: RE_Eco29kI; pfam09517 489653003231 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; cl12011 489653003232 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 489653003233 cofactor binding site; other site 489653003234 DNA binding site [nucleotide binding] 489653003235 substrate interaction site [chemical binding]; other site 489653003236 Transposase IS200 like; Region: Y1_Tnp; cl00848 489653003237 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 489653003238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653003239 CoA-ligase; Region: Ligase_CoA; pfam00549 489653003240 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 489653003241 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 489653003242 CoA-ligase; Region: Ligase_CoA; pfam00549 489653003243 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 489653003244 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653003245 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653003246 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 489653003247 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 489653003248 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 489653003249 E3 interaction surface; other site 489653003250 lipoyl attachment site [posttranslational modification]; other site 489653003251 e3 binding domain; Region: E3_binding; pfam02817 489653003252 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 489653003253 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 489653003254 TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 489653003255 TPP-binding site [chemical binding]; other site 489653003256 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 489653003257 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 489653003258 dimer interface [polypeptide binding]; other site 489653003259 Citrate synthase; Region: Citrate_synt; pfam00285 489653003260 active site 489653003261 citrylCoA binding site [chemical binding]; other site 489653003262 NADH binding [chemical binding]; other site 489653003263 cationic pore residues; other site 489653003264 oxalacetate/citrate binding site [chemical binding]; other site 489653003265 coenzyme A binding site [chemical binding]; other site 489653003266 catalytic triad [active] 489653003267 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 489653003268 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 489653003269 E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 489653003270 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653003271 domain; Region: Succ_DH_flav_C; pfam02910 489653003272 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 489653003273 SdhC subunit interface [polypeptide binding]; other site 489653003274 proximal heme binding site [chemical binding]; other site 489653003275 cardiolipin binding site; other site 489653003276 Iron-sulfur protein interface; other site 489653003277 proximal quinone binding site [chemical binding]; other site 489653003278 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 489653003279 Iron-sulfur protein interface; other site 489653003280 proximal quinone binding site [chemical binding]; other site 489653003281 SdhD (CybS) interface [polypeptide binding]; other site 489653003282 proximal heme binding site [chemical binding]; other site 489653003283 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 489653003284 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653003285 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 489653003286 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 489653003287 catalytic triad [active] 489653003288 dimer interface [polypeptide binding]; other site 489653003289 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 489653003290 GSH binding site [chemical binding]; other site 489653003291 catalytic residues [active] 489653003292 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 489653003293 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 489653003294 THF binding site; other site 489653003295 C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 489653003296 substrate binding site [chemical binding]; other site 489653003297 THF binding site; other site 489653003298 zinc-binding site [ion binding]; other site 489653003299 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 489653003300 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine...; Region: MTHFR; cd00537 489653003301 FAD binding site [chemical binding]; other site 489653003302 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 489653003303 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 489653003304 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 489653003305 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 489653003306 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 489653003307 S-adenosylmethionine binding site [chemical binding]; other site 489653003308 elongation factor P; Validated; Region: PRK00529 489653003309 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 489653003310 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 489653003311 RNA binding site [nucleotide binding]; other site 489653003312 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 489653003313 RNA binding site [nucleotide binding]; other site 489653003314 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 489653003315 IPP transferase; Region: IPPT; cl00403 489653003316 TfoX N-terminal domain; Region: TfoX_N; cl01167 489653003317 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 489653003318 nucleoside/Zn binding site; other site 489653003319 dimer interface [polypeptide binding]; other site 489653003320 catalytic motif [active] 489653003321 Protein of unknown function (DUF456); Region: DUF456; cl01069 489653003322 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 489653003323 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 489653003324 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 489653003325 Permease family; Region: Xan_ur_permease; pfam00860 489653003326 Sulfate transporter family; Region: Sulfate_transp; cl00967 489653003327 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 489653003328 dihydrodipicolinate synthase; Region: dapA; TIGR00674 489653003329 dimer interface [polypeptide binding]; other site 489653003330 active site 489653003331 catalytic residue [active] 489653003332 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 489653003333 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 489653003334 Serine carboxypeptidase S28; Region: Peptidase_S28; pfam05577 489653003335 Surface antigen; Region: Surface_Ag_2; cl01155 489653003336 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 489653003337 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 489653003338 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 489653003339 putative NAD(P) binding site [chemical binding]; other site 489653003340 homotetramer interface [polypeptide binding]; other site 489653003341 homodimer interface [polypeptide binding]; other site 489653003342 active site 489653003343 Cytochrome C'; Region: Cytochrom_C_2; cl01610 489653003344 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 489653003345 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 489653003346 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 489653003347 Protein of unknown function (DUF328); Region: DUF328; cl01143 489653003348 aspartate aminotransferase; Provisional; Region: PRK08361 489653003349 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 489653003350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653003351 homodimer interface [polypeptide binding]; other site 489653003352 catalytic residue [active] 489653003353 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 489653003354 trimer interface [polypeptide binding]; other site 489653003355 active site 489653003356 AzlC protein; Region: AzlC; cl00570 489653003357 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 489653003358 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 489653003359 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 489653003360 Minor type IV pilin, PilX; Region: Pilin_PilX; pfam11530 489653003361 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 489653003362 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 489653003363 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 489653003364 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 489653003365 Type II transport protein GspH; Region: GspH; pfam12019 489653003366 replicative DNA helicase; Region: DnaB; TIGR00665 489653003367 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 489653003368 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 489653003369 Walker A motif; other site 489653003370 ATP binding site [chemical binding]; other site 489653003371 Walker B motif; other site 489653003372 DNA binding loops [nucleotide binding] 489653003373 superoxide dismutase; Provisional; Region: PRK10543 489653003374 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 489653003375 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 489653003376 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 489653003377 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...; Region: TM_PBP2; cd06261 489653003378 dimer interface [polypeptide binding]; other site 489653003379 conserved gate region; other site 489653003380 putative PBP binding loops; other site 489653003381 ABC-ATPase subunit interface; other site 489653003382 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...; Region: TM_PBP2; cd06261 489653003383 dimer interface [polypeptide binding]; other site 489653003384 conserved gate region; other site 489653003385 putative PBP binding loops; other site 489653003386 ABC-ATPase subunit interface; other site 489653003387 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 489653003388 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-...; Region: ABC_CysA_sulfate_importer; cd03296 489653003389 Walker A/P-loop; other site 489653003390 ATP binding site [chemical binding]; other site 489653003391 Q-loop/lid; other site 489653003392 ABC transporter signature motif; other site 489653003393 Walker B; other site 489653003394 D-loop; other site 489653003395 H-loop/switch region; other site 489653003396 threonine dehydratase; Reviewed; Region: PRK09224 489653003397 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 489653003398 tetramer interface [polypeptide binding]; other site 489653003399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653003400 catalytic residue [active] 489653003401 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 489653003402 putative Ile/Val binding site [chemical binding]; other site 489653003403 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 489653003404 putative Ile/Val binding site [chemical binding]; other site 489653003405 Beta-lactamase; Region: Beta-lactamase; cl01009 489653003406 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 489653003407 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 489653003408 Restriction endonuclease [Defense mechanisms]; Region: COG3587 489653003409 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; cl14882 489653003410 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; cl12011 489653003411 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; cl12011 489653003412 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 489653003413 5S rRNA interface [nucleotide binding]; other site 489653003414 CTC domain interface; other site 489653003415 L16 interface [polypeptide binding]; other site 489653003416 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK04923 489653003417 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 489653003418 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 489653003419 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 489653003420 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 489653003421 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 489653003422 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 489653003423 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 489653003424 binding surface 489653003425 TPR motif; other site 489653003426 Pantoate-beta-alanine ligase; Region: PanC; cd00560 489653003427 active site 489653003428 ATP-binding site [chemical binding]; other site 489653003429 pantoate-binding site; other site 489653003430 HXXH motif; other site 489653003431 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 489653003432 oligomerization interface [polypeptide binding]; other site 489653003433 active site 489653003434 metal binding site [ion binding]; metal-binding site 489653003435 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; cl12011 489653003436 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 489653003437 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 489653003438 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 489653003439 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 489653003440 probable active site [active] 489653003441 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: dapD; TIGR00965 489653003442 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 489653003443 putative active site [active] 489653003444 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 489653003445 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 489653003446 dimer interface [polypeptide binding]; other site 489653003447 motif 1; other site 489653003448 active site 489653003449 motif 2; other site 489653003450 motif 3; other site 489653003451 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 489653003452 anticodon binding site; other site 489653003453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 489653003454 GTP-binding protein Der; Reviewed; Region: PRK00093 489653003455 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 489653003456 G1 box; other site 489653003457 GTP/Mg2+ binding site [chemical binding]; other site 489653003458 Switch I region; other site 489653003459 G2 box; other site 489653003460 Switch II region; other site 489653003461 G3 box; other site 489653003462 G4 box; other site 489653003463 G5 box; other site 489653003464 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 489653003465 G1 box; other site 489653003466 GTP/Mg2+ binding site [chemical binding]; other site 489653003467 Switch I region; other site 489653003468 G2 box; other site 489653003469 G3 box; other site 489653003470 Switch II region; other site 489653003471 G4 box; other site 489653003472 G5 box; other site 489653003473 Putative exonuclease, RdgC; Region: RdgC; cl01122 489653003474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 489653003475 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 489653003476 trimer interface [polypeptide binding]; other site 489653003477 active site 489653003478 Protein of unknown function (DUF541); Region: SIMPL; cl01077 489653003479 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 489653003480 PhoH-like protein; Region: PhoH; cl12134 489653003481 poly(A) polymerase; Region: pcnB; TIGR01942 489653003482 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 489653003483 active site 489653003484 NTP binding site [chemical binding]; other site 489653003485 metal binding triad [ion binding]; metal-binding site 489653003486 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 489653003487 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 489653003488 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 489653003489 DHH family; Region: DHH; pfam01368 489653003490 DHHA1 domain; Region: DHHA1; pfam02272 489653003491 Protein of unknown function (DUF615); Region: DUF615; cl01147 489653003492 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 489653003493 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 489653003494 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 protein...; Region: CSP_CDS; cd04458 489653003495 DNA-binding site [nucleotide binding]; DNA binding site 489653003496 RNA-binding motif; other site 489653003497 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 489653003498 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 489653003499 Clp amino terminal domain; Region: Clp_N; pfam02861 489653003500 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...; Region: AAA; cd00009 489653003501 Walker A motif; other site 489653003502 ATP binding site [chemical binding]; other site 489653003503 Walker B motif; other site 489653003504 arginine finger; other site 489653003505 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...; Region: AAA; cd00009 489653003506 Walker A motif; other site 489653003507 ATP binding site [chemical binding]; other site 489653003508 Walker B motif; other site 489653003509 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 489653003510 additional locus_tag=NLA13990; type I site-specific deoxyribonuclease 489653003511 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 489653003512 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 489653003513 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 489653003514 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 489653003515 HsdM N-terminal domain; Region: HsdM_N; pfam12161 489653003516 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; cl12011 489653003517 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 489653003518 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 489653003519 NADP binding site [chemical binding]; other site 489653003520 homopentamer interface [polypeptide binding]; other site 489653003521 substrate binding site [chemical binding]; other site 489653003522 active site 489653003523 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 489653003524 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 489653003525 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 489653003526 cofactor binding site; other site 489653003527 DNA binding site [nucleotide binding] 489653003528 substrate interaction site [chemical binding]; other site 489653003529 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; cl12011 489653003530 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 489653003531 putative ribose interaction site [chemical binding]; other site 489653003532 putative ADP binding site [chemical binding]; other site 489653003533 Protein of unknown function (DUF2185); Region: DUF2185; cl02019 489653003534 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 contains two...; Region: OMP_decarboxylase_like; cd04725 489653003535 active site 489653003536 dimer interface [polypeptide binding]; other site 489653003537 adenylate kinase; Reviewed; Region: adk; PRK00279 489653003538 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 489653003539 AMP-binding site [chemical binding]; other site 489653003540 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 489653003541 Peptidase family M48; Region: Peptidase_M48; cl12018 489653003542 adenylosuccinate synthetase; Provisional; Region: PRK01117 489653003543 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 r-...; Region: AdSS; cd03108 489653003544 GDP-binding site [chemical binding]; other site 489653003545 ACT binding site; other site 489653003546 IMP binding site; other site 489653003547 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 489653003548 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 489653003549 dimer interface [polypeptide binding]; other site 489653003550 motif 1; other site 489653003551 active site 489653003552 motif 2; other site 489653003553 multidrug efflux protein; Reviewed; Region: PRK01766 489653003554 MatE; Region: MatE; pfam01554 489653003555 MatE; Region: MatE; pfam01554 489653003556 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 489653003557 FAD binding domain; Region: FAD_binding_4; pfam01565 489653003558 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 489653003559 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 489653003560 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 489653003561 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 489653003562 putative NAD(P) binding site [chemical binding]; other site 489653003563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 489653003564 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 489653003565 ATP-NAD kinase; Region: NAD_kinase; pfam01513 489653003566 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 489653003567 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 489653003568 RNA binding surface [nucleotide binding]; other site 489653003569 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSSA_1; cd02555 489653003570 active site 489653003571 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 489653003572 dimer interface [polypeptide binding]; other site 489653003573 FMN binding site [chemical binding]; other site 489653003574 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 489653003575 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 489653003576 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 489653003577 homodimer interface [polypeptide binding]; other site 489653003578 substrate-cofactor binding pocket; other site 489653003579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653003580 catalytic residue [active] 489653003581 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 489653003582 dimer interface [polypeptide binding]; other site 489653003583 active site 489653003584 aspartate-rich active site metal binding site; other site 489653003585 allosteric magnesium binding site [ion binding]; other site 489653003586 Schiff base residues; other site 489653003587 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 489653003588 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; cl12011 489653003589 FtsH Extracellular; Region: FtsH_ext; pfam06480 489653003590 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 489653003591 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...; Region: AAA; cd00009 489653003592 Walker A motif; other site 489653003593 ATP binding site [chemical binding]; other site 489653003594 Walker B motif; other site 489653003595 arginine finger; other site 489653003596 Peptidase family M41; Region: Peptidase_M41; pfam01434 489653003597 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 489653003598 putative coenzyme Q binding site [chemical binding]; other site 489653003599 Uncharacterised protein family (UPF0125); Region: UPF0125; cl01096 489653003600 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 489653003601 putative active site [active] 489653003602 catalytic residue [active] 489653003603 VanZ like family; Region: VanZ; cl01971 489653003604 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 489653003605 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653003606 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653003607 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; cl00197 489653003608 active site 489653003609 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 489653003610 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 489653003611 active site 489653003612 substrate binding site [chemical binding]; other site 489653003613 metal binding site [ion binding]; metal-binding site 489653003614 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 489653003615 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 489653003616 Walker A/P-loop; other site 489653003617 ATP binding site [chemical binding]; other site 489653003618 Q-loop/lid; other site 489653003619 ABC transporter signature motif; other site 489653003620 Walker B; other site 489653003621 D-loop; other site 489653003622 H-loop/switch region; other site 489653003623 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 489653003624 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...; Region: TM_PBP2; cd06261 489653003625 dimer interface [polypeptide binding]; other site 489653003626 conserved gate region; other site 489653003627 putative PBP binding loops; other site 489653003628 ABC-ATPase subunit interface; other site 489653003629 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 489653003630 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...; Region: PBPb; cd00134 489653003631 substrate binding pocket [chemical binding]; other site 489653003632 membrane-bound complex binding site; other site 489653003633 hinge residues; other site 489653003634 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 489653003635 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 489653003636 UvrD/REP helicase; Region: UvrD-helicase; cl14126 489653003637 UvrD/REP helicase; Region: UvrD-helicase; cl14126 489653003638 UvrD/REP helicase; Region: UvrD-helicase; cl14126 489653003639 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 489653003640 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 489653003641 active site residue [active] 489653003642 Domain of unknown function DUF302; Region: DUF302; cl01364 489653003643 DNA repair protein RadA; Provisional; Region: PRK11823 489653003644 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 489653003645 Walker A motif/ATP binding site; other site 489653003646 ATP binding site [chemical binding]; other site 489653003647 Walker B motif; other site 489653003648 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 489653003649 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This...; Region: URO-D; cd00717 489653003650 substrate binding site [chemical binding]; other site 489653003651 active site 489653003652 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 489653003653 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 489653003654 HemX; Region: HemX; cl14667 489653003655 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 489653003656 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...; Region: HemD; cd06578 489653003657 active site 489653003658 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 489653003659 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 489653003660 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 489653003661 putative GSH binding site [chemical binding]; other site 489653003662 catalytic residues [active] 489653003663 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 489653003664 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 489653003665 active site 489653003666 PilZ domain; Region: PilZ; cl01260 489653003667 DNA polymerase III subunit delta'; Validated; Region: PRK08699 489653003668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653003669 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 489653003670 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 489653003671 Walker A motif; other site 489653003672 ATP binding site [chemical binding]; other site 489653003673 Walker B motif; other site 489653003674 5'-methylthioadenosine nucleosidase; Region: PLN02584 489653003675 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 489653003676 GTP-binding protein LepA; Provisional; Region: PRK05433 489653003677 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 489653003678 G1 box; other site 489653003679 putative GEF interaction site [polypeptide binding]; other site 489653003680 GTP/Mg2+ binding site [chemical binding]; other site 489653003681 Switch I region; other site 489653003682 G2 box; other site 489653003683 G3 box; other site 489653003684 Switch II region; other site 489653003685 G4 box; other site 489653003686 G5 box; other site 489653003687 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-...; Region: lepA_II; cd03699 489653003688 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 489653003689 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 489653003690 signal peptidase I; Provisional; Region: PRK10861 489653003691 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 489653003692 Catalytic site [active] 489653003693 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 489653003694 EamA-like transporter family; Region: EamA; cl01037 489653003695 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 489653003696 cysteine synthases; Region: cysKM; TIGR01136 489653003697 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 489653003698 dimer interface [polypeptide binding]; other site 489653003699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653003700 catalytic residue [active] 489653003701 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 489653003702 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 489653003703 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 489653003704 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 489653003705 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 489653003706 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 489653003707 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 489653003708 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 489653003709 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 489653003710 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 489653003711 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 489653003712 putative nucleic acid binding region [nucleotide binding]; other site 489653003713 G-X-X-G motif; other site 489653003714 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 489653003715 RNA binding site [nucleotide binding]; other site 489653003716 domain interface; other site 489653003717 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 489653003718 ATP binding site [chemical binding]; other site 489653003719 active site 489653003720 substrate binding site [chemical binding]; other site 489653003721 dTDP-4-dehydrorhamnose reductase; Region: rmlD; TIGR01214 489653003722 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 489653003723 NADP binding site [chemical binding]; other site 489653003724 active site 489653003725 putative substrate binding site [chemical binding]; other site 489653003726 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 489653003727 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 489653003728 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 489653003729 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 489653003730 Int/Topo IB signature motif; other site 489653003731 active site 489653003732 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by...; Region: PRX_BCP; cd03017 489653003733 catalytic triad [active] 489653003734 Beta-lactamase; Region: Beta-lactamase; cl01009 489653003735 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 489653003736 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 489653003737 Sm1 motif; other site 489653003738 intra - hexamer interaction site; other site 489653003739 inter - hexamer interaction site [polypeptide binding]; other site 489653003740 nucleotide binding pocket [chemical binding]; other site 489653003741 Sm2 motif; other site 489653003742 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; cl12011 489653003743 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 489653003744 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 489653003745 catalytic center binding site [active] 489653003746 ATP binding site [chemical binding]; other site 489653003747 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 489653003748 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 489653003749 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 489653003750 S-adenosylmethionine binding site [chemical binding]; other site 489653003751 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; cl12011 489653003752 Protein of unknown function (DUF971); Region: DUF971; cl01414 489653003753 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 489653003754 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 489653003755 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 489653003756 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 489653003757 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 489653003758 Walker A/P-loop; other site 489653003759 ATP binding site [chemical binding]; other site 489653003760 Q-loop/lid; other site 489653003761 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 489653003762 ABC transporter signature motif; other site 489653003763 Walker B; other site 489653003764 D-loop; other site 489653003765 H-loop/switch region; other site 489653003766 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 489653003767 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 489653003768 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 489653003769 GTP/Mg2+ binding site [chemical binding]; other site 489653003770 G4 box; other site 489653003771 G5 box; other site 489653003772 G1 box; other site 489653003773 Switch I region; other site 489653003774 G2 box; other site 489653003775 G3 box; other site 489653003776 Switch II region; other site 489653003777 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 489653003778 HPr kinase/phosphorylase; Provisional; Region: PRK05428 489653003779 DRTGG domain; Region: DRTGG; cl12147 489653003780 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-...; Region: HprK_C; cd01918 489653003781 Hpr binding site; other site 489653003782 active site 489653003783 homohexamer subunit interaction site [polypeptide binding]; other site 489653003784 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 489653003785 active site 489653003786 phosphorylation site [posttranslational modification] 489653003787 UbiA prenyltransferase family; Region: UbiA; cl00337 489653003788 Chorismate lyase; Region: Chor_lyase; cl01230 489653003789 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 489653003790 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 489653003791 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 489653003792 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 489653003793 inhibitor-cofactor binding pocket; inhibition site 489653003794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653003795 catalytic residue [active] 489653003796 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 489653003797 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 higher-...; Region: HU_IHF; cd00591 489653003798 IHF - DNA interface [nucleotide binding]; other site 489653003799 IHF dimer interface [polypeptide binding]; other site 489653003800 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 489653003801 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 489653003802 putative tRNA-binding site [nucleotide binding]; other site 489653003803 B3/4 domain; Region: B3_4; cl11458 489653003804 tRNA synthetase B5 domain; Region: B5; cl08394 489653003805 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 489653003806 dimer interface [polypeptide binding]; other site 489653003807 motif 1; other site 489653003808 motif 3; other site 489653003809 motif 2; other site 489653003810 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 489653003811 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 489653003812 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 489653003813 cofactor binding site; other site 489653003814 DNA binding site [nucleotide binding] 489653003815 substrate interaction site [chemical binding]; other site 489653003816 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 489653003817 additional DNA contacts [nucleotide binding]; other site 489653003818 mismatch recognition site; other site 489653003819 active site 489653003820 zinc binding site [ion binding]; other site 489653003821 DNA intercalation site [nucleotide binding]; other site 489653003822 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 489653003823 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 489653003824 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 489653003825 dimer interface [polypeptide binding]; other site 489653003826 motif 1; other site 489653003827 active site 489653003828 motif 2; other site 489653003829 motif 3; other site 489653003830 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 489653003831 23S rRNA binding site [nucleotide binding]; other site 489653003832 L21 binding site [polypeptide binding]; other site 489653003833 L13 binding site [polypeptide binding]; other site 489653003834 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 489653003835 translation initiation factor IF-3; Region: infC; TIGR00168 489653003836 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 489653003837 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 489653003838 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 489653003839 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...; Region: TGS_ThrRS_N; cd01667 489653003840 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 489653003841 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 489653003842 active site 489653003843 dimer interface [polypeptide binding]; other site 489653003844 motif 1; other site 489653003845 motif 2; other site 489653003846 motif 3; other site 489653003847 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 489653003848 anticodon binding site; other site 489653003849 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 489653003850 ferrochelatase; Reviewed; Region: hemH; PRK00035 489653003851 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 489653003852 C-terminal domain interface [polypeptide binding]; other site 489653003853 active site 489653003854 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 489653003855 active site 489653003856 N-terminal domain interface [polypeptide binding]; other site 489653003857 hypothetical protein (pseudogene) 489653003858 Cytochrome c; Region: Cytochrom_C; cl11414 489653003859 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 489653003860 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 489653003861 putative active site [active] 489653003862 catalytic triad [active] 489653003863 putative dimer interface [polypeptide binding]; other site 489653003864 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 489653003865 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 489653003866 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 489653003867 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...; Region: Sigma70_r4; cd06171 489653003868 DNA binding residues [nucleotide binding] 489653003869 hypothetical protein; Provisional; Region: PRK11820 489653003870 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 489653003871 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 489653003872 RDD family; Region: RDD; cl00746 489653003873 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 489653003874 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 489653003875 Lipopolysaccharide-assembly; Region: LptE; cl01125 489653003876 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 489653003877 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 489653003878 Membrane transport protein; Region: Mem_trans; cl09117 489653003879 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 489653003880 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 489653003881 RNA binding surface [nucleotide binding]; other site 489653003882 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 489653003883 active site 489653003884 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 489653003885 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 489653003886 Competence protein; Region: Competence; cl00471 489653003887 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 489653003888 tryptophan synthase, beta chain; Region: PLN02618 489653003889 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 489653003890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653003891 catalytic residue [active] 489653003892 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 489653003893 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; cl12011 489653003894 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cl11966 489653003895 metal binding triad [ion binding]; metal-binding site 489653003896 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 489653003897 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 489653003898 Walker A/P-loop; other site 489653003899 ATP binding site [chemical binding]; other site 489653003900 Q-loop/lid; other site 489653003901 ABC transporter signature motif; other site 489653003902 Walker B; other site 489653003903 D-loop; other site 489653003904 H-loop/switch region; other site 489653003905 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 489653003906 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 489653003907 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 489653003908 cell division protein FtsN; Region: ftsN; TIGR02223 489653003909 Sporulation related domain; Region: SPOR; cl10051 489653003910 Colicin V production protein; Region: Colicin_V; cl00567 489653003911 amidophosphoribosyltransferase; Provisional; Region: PRK09246 489653003912 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 489653003913 active site 489653003914 tetramer interface [polypeptide binding]; other site 489653003915 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 489653003916 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 489653003917 domain; Region: GreA_GreB_N; pfam03449 489653003918 C-term; Region: GreA_GreB; pfam01272 489653003919 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 489653003920 active site 489653003921 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 489653003922 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...; Region: OM_channels; cl00284 489653003923 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 489653003924 ligand-binding site [chemical binding]; other site 489653003925 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 489653003926 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 489653003927 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 489653003928 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 489653003929 GTPase Era; Reviewed; Region: era; PRK00089 489653003930 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 489653003931 G1 box; other site 489653003932 GTP/Mg2+ binding site [chemical binding]; other site 489653003933 Switch I region; other site 489653003934 G2 box; other site 489653003935 Switch II region; other site 489653003936 G3 box; other site 489653003937 G4 box; other site 489653003938 G5 box; other site 489653003939 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 489653003940 ribonuclease III; Reviewed; Region: rnc; PRK00102 489653003941 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 post-...; Region: RIBOc; cd00593 489653003942 dimerization interface [polypeptide binding]; other site 489653003943 active site 489653003944 metal binding site [ion binding]; metal-binding site 489653003945 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...; Region: DSRM; cd00048 489653003946 dsRNA binding site [nucleotide binding]; other site 489653003947 Protein of unknown function (DUF2185); Region: DUF2185; cl02019 489653003948 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 489653003949 homopentamer interface [polypeptide binding]; other site 489653003950 active site 489653003951 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 489653003952 putative RNA binding site [nucleotide binding]; other site 489653003953 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 489653003954 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 489653003955 active site 489653003956 substrate binding pocket [chemical binding]; other site 489653003957 dimer interface [polypeptide binding]; other site 489653003958 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 two-...; Region: SirA_YedF_YeeD; cd00291 489653003959 CPxP motif; other site 489653003960 CNP1-like family; Region: CNP1; pfam08750 489653003961 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 489653003962 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 489653003963 tryptophan synthase; Region: PLN02591 489653003964 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are...; Region: Tryptophan_synthase_alpha; cd04724 489653003965 substrate binding site [chemical binding]; other site 489653003966 active site 489653003967 catalytic residues [active] 489653003968 heterodimer interface [polypeptide binding]; other site 489653003969 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 489653003970 Ligand binding site [chemical binding]; other site 489653003971 oligomer interface [polypeptide binding]; other site 489653003972 Trm112p-like protein; Region: Trm112p; cl01066 489653003973 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 489653003974 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 489653003975 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 489653003976 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 489653003977 Malic enzyme, N-terminal domain; Region: malic; pfam00390 489653003978 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 489653003979 putative NAD(P) binding site [chemical binding]; other site 489653003980 thymidylate kinase; Validated; Region: tmk; PRK00698 489653003981 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting...; Region: TMPK; cd01672 489653003982 TMP-binding site; other site 489653003983 ATP-binding site [chemical binding]; other site 489653003984 YceG-like family; Region: YceG; pfam02618 489653003985 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 489653003986 dimerization interface [polypeptide binding]; other site 489653003987 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 489653003988 amidase catalytic site [active] 489653003989 Zn binding residues [ion binding]; other site 489653003990 substrate binding site [chemical binding]; other site 489653003991 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 489653003992 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 489653003993 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 489653003994 nucleotide binding pocket [chemical binding]; other site 489653003995 K-X-D-G motif; other site 489653003996 catalytic site [active] 489653003997 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 489653003998 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 489653003999 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 489653004000 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 489653004001 Dimer interface [polypeptide binding]; other site 489653004002 BRCT sequence motif; other site 489653004003 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 489653004004 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 489653004005 FeS/SAM binding site; other site 489653004006 HemN C-terminal region; Region: HemN_C; pfam06969 489653004007 Surface antigen; Region: Surface_Ag_2; cl01155 489653004008 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 489653004009 homotrimer interaction site [polypeptide binding]; other site 489653004010 putative active site [active] 489653004011 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 489653004012 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 489653004013 active site 489653004014 metal binding site [ion binding]; metal-binding site 489653004015 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 489653004016 Cation transport protein; Region: TrkH; cl10514 489653004017 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653004018 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 489653004019 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 489653004020 nudix motif; other site 489653004021 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 489653004022 dimer interface [polypeptide binding]; other site 489653004023 substrate binding site [chemical binding]; other site 489653004024 metal binding sites [ion binding]; metal-binding site 489653004025 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 Ham1-...; Region: HAM1; cd00515 489653004026 active site 489653004027 dimerization interface [polypeptide binding]; other site 489653004028 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 489653004029 active site 489653004030 tetramer interface [polypeptide binding]; other site 489653004031 argininosuccinate lyase; Provisional; Region: PRK00855 489653004032 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 489653004033 active sites [active] 489653004034 tetramer interface [polypeptide binding]; other site 489653004035 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 489653004036 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...; Region: TM_PBP2; cd06261 489653004037 dimer interface [polypeptide binding]; other site 489653004038 conserved gate region; other site 489653004039 putative PBP binding loops; other site 489653004040 ABC-ATPase subunit interface; other site 489653004041 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 489653004042 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...; Region: TM_PBP2; cd06261 489653004043 dimer interface [polypeptide binding]; other site 489653004044 conserved gate region; other site 489653004045 putative PBP binding loops; other site 489653004046 ABC-ATPase subunit interface; other site 489653004047 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 489653004048 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 489653004049 Walker A/P-loop; other site 489653004050 ATP binding site [chemical binding]; other site 489653004051 Q-loop/lid; other site 489653004052 ABC transporter signature motif; other site 489653004053 Walker B; other site 489653004054 D-loop; other site 489653004055 H-loop/switch region; other site 489653004056 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 489653004057 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 489653004058 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 489653004059 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 489653004060 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 489653004061 putative active site [active] 489653004062 oxyanion strand; other site 489653004063 catalytic triad [active] 489653004064 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 489653004065 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-...; Region: HisA; cd04732 489653004066 catalytic residues [active] 489653004067 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 489653004068 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-; Region: HisF; cd04731 489653004069 substrate binding site [chemical binding]; other site 489653004070 glutamase interaction surface [polypeptide binding]; other site 489653004071 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 489653004072 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 489653004073 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 489653004074 G1 box; other site 489653004075 putative GEF interaction site [polypeptide binding]; other site 489653004076 GTP/Mg2+ binding site [chemical binding]; other site 489653004077 Switch I region; other site 489653004078 G2 box; other site 489653004079 G3 box; other site 489653004080 Switch II region; other site 489653004081 G4 box; other site 489653004082 G5 box; other site 489653004083 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 489653004084 Domain of unknown function (DUF305); Region: DUF305; pfam03713 489653004085 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 489653004086 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 489653004087 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 489653004088 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 489653004089 trimer interface [polypeptide binding]; other site 489653004090 putative metal binding site [ion binding]; other site 489653004091 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 489653004092 active site 489653004093 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 489653004094 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 489653004095 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 489653004096 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 489653004097 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 489653004098 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 489653004099 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 489653004100 dinuclear metal binding motif [ion binding]; other site 489653004101 Cation efflux family; Region: Cation_efflux; cl00316 489653004102 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 489653004103 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 489653004104 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 489653004105 motif II; other site 489653004106 Domain of unknown function (DUF299); Region: DUF299; cl00780 489653004107 phosphoenolpyruvate synthase; Validated; Region: PRK06464 489653004108 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 489653004109 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 489653004110 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 489653004111 transcription termination factor Rho; Provisional; Region: rho; PRK09376 489653004112 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 489653004113 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...; Region: Rho_CSD; cd04459 489653004114 RNA binding site [nucleotide binding]; other site 489653004115 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of...; Region: rho_factor; cd01128 489653004116 multimer interface [polypeptide binding]; other site 489653004117 Walker A motif; other site 489653004118 ATP binding site [chemical binding]; other site 489653004119 Walker B motif; other site 489653004120 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 489653004121 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 489653004122 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 489653004123 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 489653004124 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...; Region: TM_PBP2; cd06261 489653004125 dimer interface [polypeptide binding]; other site 489653004126 conserved gate region; other site 489653004127 putative PBP binding loops; other site 489653004128 ABC-ATPase subunit interface; other site 489653004129 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...; Region: TM_PBP2; cd06261 489653004130 dimer interface [polypeptide binding]; other site 489653004131 conserved gate region; other site 489653004132 putative PBP binding loops; other site 489653004133 ABC-ATPase subunit interface; other site 489653004134 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 489653004135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653004136 Walker A/P-loop; other site 489653004137 ATP binding site [chemical binding]; other site 489653004138 Q-loop/lid; other site 489653004139 ABC transporter signature motif; other site 489653004140 Walker B; other site 489653004141 D-loop; other site 489653004142 H-loop/switch region; other site 489653004143 TOBE domain; Region: TOBE_2; cl01440 489653004144 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...; Region: Ribosomal_S15p_S13e; cd00353 489653004145 16S/18S rRNA binding site [nucleotide binding]; other site 489653004146 S13e-L30e interaction site [polypeptide binding]; other site 489653004147 25S rRNA binding site [nucleotide binding]; other site 489653004148 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 489653004149 Protein export membrane protein; Region: SecD_SecF; cl14618 489653004150 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 489653004151 Protein export membrane protein; Region: SecD_SecF; cl14618 489653004152 Preprotein translocase subunit; Region: YajC; cl00806 489653004153 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 489653004154 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 489653004155 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 489653004156 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 489653004157 putative NAD(P) binding site [chemical binding]; other site 489653004158 catalytic Zn binding site [ion binding]; other site 489653004159 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 489653004160 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 489653004161 nucleotide binding site/active site [active] 489653004162 HIT family signature motif; other site 489653004163 catalytic residue [active] 489653004164 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 489653004165 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 489653004166 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 489653004167 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 489653004168 active site 489653004169 dimer interface [polypeptide binding]; other site 489653004170 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 489653004171 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 489653004172 O-Antigen ligase; Region: Wzy_C; cl04850 489653004173 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 489653004174 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 489653004175 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 489653004176 active site 489653004177 phosphorylation site [posttranslational modification] 489653004178 intermolecular recognition site; other site 489653004179 dimerization interface [polypeptide binding]; other site 489653004180 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...; Region: trans_reg_C; cd00383 489653004181 DNA binding site [nucleotide binding] 489653004182 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 connected by an extended linker. The...; Region: HAMP; cl01054 489653004183 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 trans-...; Region: HisKA; cd00082 489653004184 dimer interface [polypeptide binding]; other site 489653004185 phosphorylation site [posttranslational modification] 489653004186 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 489653004187 ATP binding site [chemical binding]; other site 489653004188 Mg2+ binding site [ion binding]; other site 489653004189 G-X-G motif; other site 489653004190 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 489653004191 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 489653004192 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 489653004193 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 489653004194 RimM N-terminal domain; Region: RimM; pfam01782 489653004195 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 489653004196 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 489653004197 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 489653004198 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 489653004199 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 489653004200 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...; Region: TM_ABC_iron-siderophores_like; cd06550 489653004201 ABC-ATPase subunit interface; other site 489653004202 dimer interface [polypeptide binding]; other site 489653004203 putative PBP binding regions; other site 489653004204 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 489653004205 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 489653004206 metal binding site [ion binding]; metal-binding site 489653004207 YadA-like C-terminal region; Region: YadA; pfam03895 489653004208 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 489653004209 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 489653004210 active site 489653004211 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 489653004212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 489653004213 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 489653004214 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 489653004215 NosL; Region: NosL; cl01769 489653004216 ABC-2 type transporter; Region: ABC2_membrane; cl11417 489653004217 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 489653004218 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 489653004219 Walker A/P-loop; other site 489653004220 ATP binding site [chemical binding]; other site 489653004221 Q-loop/lid; other site 489653004222 ABC transporter signature motif; other site 489653004223 Walker B; other site 489653004224 D-loop; other site 489653004225 H-loop/switch region; other site 489653004226 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 489653004227 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 489653004228 nitrous-oxide reductase; Validated; Region: PRK02888 489653004229 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 489653004230 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 489653004231 FMN-binding domain; Region: FMN_bind; cl01081 489653004232 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 489653004233 4Fe-4S binding domain; Region: Fer4_5; pfam12801 489653004234 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 489653004235 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 489653004236 tRNA; other site 489653004237 putative tRNA binding site [nucleotide binding]; other site 489653004238 putative NADP binding site [chemical binding]; other site 489653004239 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 489653004240 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L-...; Region: GCS_H; cd06848 489653004241 lipoyl attachment site [posttranslational modification]; other site 489653004242 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 489653004243 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 489653004244 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 489653004245 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 489653004246 putative DNA binding site [nucleotide binding]; other site 489653004247 putative Zn2+ binding site [ion binding]; other site 489653004248 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653004249 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 489653004250 Protein of unknown function (DUF454); Region: DUF454; cl01063 489653004251 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653004252 transmembrane helices; other site 489653004253 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 489653004254 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 489653004255 E3 interaction surface; other site 489653004256 lipoyl attachment site [posttranslational modification]; other site 489653004257 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 489653004258 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 489653004259 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 489653004260 FMN-binding domain; Region: FMN_bind; cl01081 489653004261 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 489653004262 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 489653004263 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 489653004264 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 489653004265 catalytic loop [active] 489653004266 iron binding site [ion binding]; other site 489653004267 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+...; Region: NADH_quinone_reductase; cd06188 489653004268 FAD binding pocket [chemical binding]; other site 489653004269 FAD binding motif [chemical binding]; other site 489653004270 phosphate binding motif [ion binding]; other site 489653004271 beta-alpha-beta structure motif; other site 489653004272 NAD binding pocket [chemical binding]; other site 489653004273 ApbE family; Region: ApbE; cl00643 489653004274 Protein of unknown function (DUF539); Region: DUF539; cl01129 489653004275 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 489653004276 dimer interface [polypeptide binding]; other site 489653004277 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 489653004278 serine acetyltransferase; Provisional; Region: cysE; PRK11132 489653004279 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 489653004280 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of L-...; Region: LbH_SAT; cd03354 489653004281 trimer interface [polypeptide binding]; other site 489653004282 active site 489653004283 substrate binding site [chemical binding]; other site 489653004284 CoA binding site [chemical binding]; other site 489653004285 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 489653004286 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 489653004287 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 489653004288 Predicted transcriptional regulator [Transcription]; Region: COG2932 489653004289 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 (...; Region: S24_LexA-like; cd06529 489653004290 Catalytic site [active] 489653004291 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 489653004292 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...; Region: OM_channels; cl00284 489653004293 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 489653004294 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 489653004295 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 489653004296 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...; Region: TM_PBP2; cl00427 489653004297 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 489653004298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653004299 Walker A/P-loop; other site 489653004300 ATP binding site [chemical binding]; other site 489653004301 Q-loop/lid; other site 489653004302 ABC transporter signature motif; other site 489653004303 Walker B; other site 489653004304 D-loop; other site 489653004305 H-loop/switch region; other site 489653004306 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar; cd05142 489653004307 RNAase interaction site [polypeptide binding]; other site 489653004308 NnrS protein; Region: NnrS; cl01258 489653004309 primosome assembly protein PriA; Validated; Region: PRK05580 489653004310 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 489653004311 ATP binding site [chemical binding]; other site 489653004312 putative Mg++ binding site [ion binding]; other site 489653004313 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; cl14882 489653004314 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 489653004315 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide...; Region: DsbA_DsbC_DsbG; cd03020 489653004316 dimerization domain [polypeptide binding]; other site 489653004317 dimer interface [polypeptide binding]; other site 489653004318 catalytic residues [active] 489653004319 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 489653004320 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 489653004321 Walker A/P-loop; other site 489653004322 ATP binding site [chemical binding]; other site 489653004323 Q-loop/lid; other site 489653004324 ABC transporter signature motif; other site 489653004325 Walker B; other site 489653004326 D-loop; other site 489653004327 H-loop/switch region; other site 489653004328 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 489653004329 FtsX-like permease family; Region: FtsX; pfam02687 489653004330 macrolide transporter subunit MacA; Provisional; Region: PRK11578 489653004331 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 489653004332 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 489653004333 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 489653004334 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 489653004335 NAD binding site [chemical binding]; other site 489653004336 substrate binding site [chemical binding]; other site 489653004337 catalytic Zn binding site [ion binding]; other site 489653004338 tetramer interface [polypeptide binding]; other site 489653004339 structural Zn binding site [ion binding]; other site 489653004340 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 489653004341 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 489653004342 Walker A/P-loop; other site 489653004343 ATP binding site [chemical binding]; other site 489653004344 Q-loop/lid; other site 489653004345 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 489653004346 ABC transporter signature motif; other site 489653004347 Walker B; other site 489653004348 D-loop; other site 489653004349 H-loop/switch region; other site 489653004350 Haemagglutinin; Region: HIM; pfam05662 489653004351 YadA-like C-terminal region; Region: YadA; pfam03895 489653004352 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 489653004353 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 489653004354 putative active site [active] 489653004355 putative metal binding site [ion binding]; other site 489653004356 L-lactate permease; Region: Lactate_perm; cl00701 489653004357 glycolate transporter; Provisional; Region: PRK09695 489653004358 Zinc-finger domain; Region: zf-CHCC; cl01821 489653004359 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 489653004360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653004361 homodimer interface [polypeptide binding]; other site 489653004362 catalytic residue [active] 489653004363 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 489653004364 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 489653004365 domain interfaces; other site 489653004366 active site 489653004367 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 489653004368 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 489653004369 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 489653004370 Transporter associated domain; Region: CorC_HlyC; pfam03471 489653004371 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653004372 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 489653004373 endonuclease III; Provisional; Region: PRK10702 489653004374 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 489653004375 minor groove reading motif; other site 489653004376 helix-hairpin-helix signature motif; other site 489653004377 substrate binding pocket [chemical binding]; other site 489653004378 active site 489653004379 FES domain; Region: FES; smart00525 489653004380 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 489653004381 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 489653004382 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 489653004383 protein binding site [polypeptide binding]; other site 489653004384 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...; Region: PDZ_metalloprotease; cd00989 489653004385 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 489653004386 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 489653004387 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 489653004388 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 489653004389 FeS/SAM binding site; other site 489653004390 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 489653004391 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 489653004392 active site 489653004393 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 489653004394 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 489653004395 Ligand Binding Site [chemical binding]; other site 489653004396 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 489653004397 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 489653004398 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 489653004399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653004400 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 489653004401 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 489653004402 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 four-...; Region: RecG_wedge_OBF; cd04488 489653004403 generic binding surface II; other site 489653004404 ssDNA binding site; other site 489653004405 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 489653004406 ATP binding site [chemical binding]; other site 489653004407 putative Mg++ binding site [ion binding]; other site 489653004408 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 489653004409 nucleotide binding region [chemical binding]; other site 489653004410 ATP-binding site [chemical binding]; other site 489653004411 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 489653004412 SecA binding site; other site 489653004413 Preprotein binding site; other site 489653004414 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 489653004415 GSH binding site [chemical binding]; other site 489653004416 catalytic residues [active] 489653004417 ribonuclease G; Provisional; Region: PRK11712 489653004418 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 489653004419 homodimer interface [polypeptide binding]; other site 489653004420 oligonucleotide binding site [chemical binding]; other site 489653004421 Transposase domain (DUF772); Region: DUF772; cl12084 489653004422 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 489653004423 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 489653004424 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 489653004425 putative active site [active] 489653004426 metal binding site [ion binding]; metal-binding site 489653004427 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 489653004428 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 489653004429 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 489653004430 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 489653004431 Beta-lactamase; Region: Beta-lactamase; cl01009 489653004432 S-adenosylmethionine synthetase; Validated; Region: PRK05250 489653004433 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 489653004434 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 489653004435 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 489653004436 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 489653004437 putative acyl-acceptor binding pocket; other site 489653004438 UGMP family protein; Validated; Region: PRK09604 489653004439 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 489653004440 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 489653004441 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 489653004442 Cytochrome c; Region: Cytochrom_C; cl11414 489653004443 Cytochrome c; Region: Cytochrom_C; cl11414 489653004444 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 489653004445 G1 box; other site 489653004446 GTP/Mg2+ binding site [chemical binding]; other site 489653004447 Switch I region; other site 489653004448 G2 box; other site 489653004449 G3 box; other site 489653004450 Switch II region; other site 489653004451 G4 box; other site 489653004452 G5 box; other site 489653004453 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 489653004454 Transglycosylase; Region: Transgly; cl07896 489653004455 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 489653004456 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 489653004457 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 489653004458 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 489653004459 Pilus assembly protein, PilO; Region: PilO; cl01234 489653004460 Pilus assembly protein, PilP; Region: PilP; cl01235 489653004461 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 489653004462 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 489653004463 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 489653004464 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 489653004465 shikimate kinase; Reviewed; Region: aroK; PRK00131 489653004466 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...; Region: SK; cd00464 489653004467 ADP binding site [chemical binding]; other site 489653004468 magnesium binding site [ion binding]; other site 489653004469 putative shikimate binding site; other site 489653004470 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 489653004471 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 489653004472 active site 489653004473 dimer interface [polypeptide binding]; other site 489653004474 metal binding site [ion binding]; metal-binding site 489653004475 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 489653004476 putative active site [active] 489653004477 putative dimer interface [polypeptide binding]; other site 489653004478 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 489653004479 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 489653004480 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 489653004481 catalytic motif [active] 489653004482 Zn binding site [ion binding]; other site 489653004483 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 5,10-...; Region: DHFR; cl00161 489653004484 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 489653004485 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 489653004486 Bacterial sugar transferase; Region: Bac_transf; cl00939 489653004487 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 489653004488 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 489653004489 putative trimer interface [polypeptide binding]; other site 489653004490 putative CoA binding site [chemical binding]; other site 489653004491 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 489653004492 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 489653004493 inhibitor-cofactor binding pocket; inhibition site 489653004494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653004495 catalytic residue [active] 489653004496 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 489653004497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653004498 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 489653004499 NAD(P) binding site [chemical binding]; other site 489653004500 homodimer interface [polypeptide binding]; other site 489653004501 substrate binding site [chemical binding]; other site 489653004502 active site 489653004503 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 489653004504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653004505 homodimer interface [polypeptide binding]; other site 489653004506 catalytic residue [active] 489653004507 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 489653004508 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 489653004509 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 489653004510 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 489653004511 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 489653004512 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 489653004513 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli...; Region: DnaE_OBF; cd04485 489653004514 generic binding surface II; other site 489653004515 generic binding surface I; other site 489653004516 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 489653004517 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 489653004518 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 489653004519 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 489653004520 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 489653004521 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 489653004522 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 489653004523 N-terminal plug; other site 489653004524 ligand-binding site [chemical binding]; other site 489653004525 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 489653004526 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 489653004527 motif II; other site 489653004528 LytB protein; Region: LYTB; cl00507 489653004529 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 489653004530 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 489653004531 lipoprotein signal peptidase; Provisional; Region: PRK14787 489653004532 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 489653004533 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 489653004534 active site 489653004535 HIGH motif; other site 489653004536 nucleotide binding site [chemical binding]; other site 489653004537 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 489653004538 active site 489653004539 KMSKS motif; other site 489653004540 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 489653004541 tRNA binding surface [nucleotide binding]; other site 489653004542 anticodon binding site; other site 489653004543 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 489653004544 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 489653004545 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 489653004546 active site 489653004547 Riboflavin kinase; Region: Flavokinase; pfam01687 489653004548 Surface antigen; Region: Surface_Ag_2; cl01155 489653004549 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 489653004550 trimer interface [polypeptide binding]; other site 489653004551 eyelet of channel; other site 489653004552 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 489653004553 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 489653004554 dimerization interface 3.5A [polypeptide binding]; other site 489653004555 active site 489653004556 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 489653004557 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 489653004558 active site 489653004559 HIGH motif; other site 489653004560 dimer interface [polypeptide binding]; other site 489653004561 KMSKS motif; other site 489653004562 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 489653004563 GTP-binding protein YchF; Reviewed; Region: PRK09601 489653004564 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 489653004565 G1 box; other site 489653004566 GTP/Mg2+ binding site [chemical binding]; other site 489653004567 Switch I region; other site 489653004568 G2 box; other site 489653004569 Switch II region; other site 489653004570 G3 box; other site 489653004571 G4 box; other site 489653004572 G5 box; other site 489653004573 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 489653004574 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 489653004575 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 489653004576 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 489653004577 Potassium binding sites [ion binding]; other site 489653004578 Cesium cation binding sites [ion binding]; other site 489653004579 EamA-like transporter family; Region: EamA; cl01037 489653004580 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 489653004581 Substrate binding site [chemical binding]; other site 489653004582 metal binding site [ion binding]; metal-binding site 489653004583 Flavin Reductases; Region: FlaRed; cl00801 489653004584 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653004585 Transcriptional regulators [Transcription]; Region: MarR; COG1846 489653004586 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 489653004587 antiporter inner membrane protein; Provisional; Region: PRK11670 489653004588 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 489653004589 Neisseria PilC protein; Region: Neisseria_PilC; pfam05567 489653004590 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 489653004591 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 489653004592 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 489653004593 catalytic site [active] 489653004594 subunit interface [polypeptide binding]; other site 489653004595 PQ loop repeat; Region: PQ-loop; cl12056 489653004596 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 489653004597 putative active site [active] 489653004598 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 489653004599 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 489653004600 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 489653004601 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 489653004602 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 489653004603 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 489653004604 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 489653004605 IMP binding site; other site 489653004606 dimer interface [polypeptide binding]; other site 489653004607 interdomain contacts; other site 489653004608 partial ornithine binding site; other site 489653004609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 489653004610 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653004611 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 489653004612 putative effector binding pocket; other site 489653004613 dimerization interface [polypeptide binding]; other site 489653004614 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 489653004615 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 489653004616 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 489653004617 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 489653004618 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 489653004619 carboxyltransferase (CT) interaction site; other site 489653004620 biotinylation site [posttranslational modification]; other site 489653004621 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 489653004622 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 489653004623 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 489653004624 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 489653004625 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 489653004626 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; cl12011 489653004627 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 489653004628 S-adenosylmethionine binding site [chemical binding]; other site 489653004629 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 489653004630 putative active site [active] 489653004631 putative substrate binding site [chemical binding]; other site 489653004632 catalytic site [active] 489653004633 dimer interface [polypeptide binding]; other site 489653004634 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 489653004635 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 489653004636 inhibitor-cofactor binding pocket; inhibition site 489653004637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653004638 catalytic residue [active] 489653004639 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 489653004640 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 489653004641 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; cl14056 489653004642 TRAM domain; Region: TRAM; cl01282 489653004643 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 489653004644 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 489653004645 TPP-binding site; other site 489653004646 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cl01629 489653004647 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 489653004648 PYR/PP interface [polypeptide binding]; other site 489653004649 dimer interface [polypeptide binding]; other site 489653004650 TPP binding site [chemical binding]; other site 489653004651 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 489653004652 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 489653004653 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 489653004654 Int/Topo IB signature motif; other site 489653004655 active site 489653004656 hypothetical protein; Provisional; Region: PRK08185 489653004657 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose...; Region: TBP_aldolase_IIB; cd00947 489653004658 intersubunit interface [polypeptide binding]; other site 489653004659 active site 489653004660 zinc binding site [ion binding]; other site 489653004661 Na+ binding site [ion binding]; other site 489653004662 Surface antigen; Region: Surface_Ag_2; cl01155 489653004663 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 489653004664 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 489653004665 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 489653004666 Coenzyme A binding pocket [chemical binding]; other site 489653004667 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 489653004668 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 489653004669 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 489653004670 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 489653004671 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an N-...; Region: AAK_NAGS-ABP; cd04237 489653004672 putative feedback inhibition sensing region; other site 489653004673 putative nucleotide binding site [chemical binding]; other site 489653004674 putative substrate binding site [chemical binding]; other site 489653004675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 489653004676 Coenzyme A binding pocket [chemical binding]; other site 489653004677 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 489653004678 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 489653004679 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 489653004680 active site residue [active] 489653004681 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; cl12011 489653004682 GAF domain; Region: GAF; cl00853 489653004683 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 489653004684 substrate binding site [chemical binding]; other site 489653004685 dimer interface [polypeptide binding]; other site 489653004686 catalytic triad [active] 489653004687 Peptidase family M48; Region: Peptidase_M48; cl12018 489653004688 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 489653004689 Dam-replacing family; Region: DRP; pfam06044 489653004690 Integrase core domain; Region: rve; cl01316 489653004691 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; cl01116 489653004692 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 489653004693 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 489653004694 HIGH motif; other site 489653004695 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 489653004696 active site 489653004697 KMSKS motif; other site 489653004698 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 489653004699 tRNA binding surface [nucleotide binding]; other site 489653004700 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 489653004701 polyphosphate kinase; Provisional; Region: PRK05443 489653004702 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 489653004703 putative domain interface [polypeptide binding]; other site 489653004704 putative active site [active] 489653004705 catalytic site [active] 489653004706 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 489653004707 putative domain interface [polypeptide binding]; other site 489653004708 putative active site [active] 489653004709 catalytic site [active] 489653004710 transposase (fragment) 489653004711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653004712 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 489653004713 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 489653004714 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653004715 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 489653004716 Active Sites [active] 489653004717 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 489653004718 sequence-specific DNA binding site [nucleotide binding]; other site 489653004719 salt bridge; other site 489653004720 DNA polymerase III subunit beta; Validated; Region: PRK05643 489653004721 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...; Region: beta_clamp; cd00140 489653004722 putative DNA binding surface [nucleotide binding]; other site 489653004723 dimer interface [polypeptide binding]; other site 489653004724 beta-clamp/clamp loader binding surface; other site 489653004725 beta-clamp/translesion DNA polymerase binding surface; other site 489653004726 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 489653004727 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...; Region: AAA; cd00009 489653004728 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 489653004729 Walker A motif; other site 489653004730 ATP binding site [chemical binding]; other site 489653004731 Walker B motif; other site 489653004732 arginine finger; other site 489653004733 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 489653004734 DnaA box-binding interface [nucleotide binding]; other site 489653004735 Ribonuclease P; Region: Ribonuclease_P; cl00457 489653004736 Domain of unknown function DUF37; Region: DUF37; cl00506 489653004737 membrane protein insertase; Provisional; Region: PRK01318 489653004738 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 489653004739 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 489653004740 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 489653004741 active site 489653004742 dimer interface [polypeptide binding]; other site 489653004743 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 489653004744 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 489653004745 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 489653004746 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 489653004747 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 489653004748 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 489653004749 dimer interface [polypeptide binding]; other site 489653004750 active site 489653004751 CoA binding pocket [chemical binding]; other site 489653004752 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 489653004753 Acyl transferase domain; Region: Acyl_transf_1; cl08282 489653004754 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 489653004755 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 489653004756 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 489653004757 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 489653004758 Walker A/P-loop; other site 489653004759 ATP binding site [chemical binding]; other site 489653004760 Q-loop/lid; other site 489653004761 ABC transporter signature motif; other site 489653004762 Walker B; other site 489653004763 D-loop; other site 489653004764 H-loop/switch region; other site 489653004765 GMP synthase; Reviewed; Region: guaA; PRK00074 489653004766 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 489653004767 AMP/PPi binding site [chemical binding]; other site 489653004768 candidate oxyanion hole; other site 489653004769 catalytic triad [active] 489653004770 potential glutamine specificity residues [chemical binding]; other site 489653004771 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 489653004772 ATP Binding subdomain [chemical binding]; other site 489653004773 Ligand Binding sites [chemical binding]; other site 489653004774 Dimerization subdomain; other site 489653004775 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 489653004776 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 489653004777 NAD(P) binding site [chemical binding]; other site 489653004778 homotetramer interface [polypeptide binding]; other site 489653004779 homodimer interface [polypeptide binding]; other site 489653004780 active site 489653004781 hypothetical protein; Provisional; Region: PRK01752 489653004782 SEC-C motif; Region: SEC-C; cl12132 489653004783 SEC-C motif; Region: SEC-C; cl12132 489653004784 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1,6-; Region: IMPase_like; cd01637 489653004785 active site 489653004786 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 489653004787 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 489653004788 additional locus_tag=NLA18730; LgtA (pseudogene) 489653004789 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 489653004790 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 489653004791 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 489653004792 Protein with unknown function (DUF469); Region: DUF469; cl01237 489653004793 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 489653004794 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 489653004795 dimer interface [polypeptide binding]; other site 489653004796 motif 1; other site 489653004797 active site 489653004798 motif 2; other site 489653004799 motif 3; other site 489653004800 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 489653004801 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 489653004802 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 489653004803 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 489653004804 alpha subunit interaction interface [polypeptide binding]; other site 489653004805 Walker A motif; other site 489653004806 ATP binding site [chemical binding]; other site 489653004807 Walker B motif; other site 489653004808 inhibitor binding site; inhibition site 489653004809 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 489653004810 ATP synthase; Region: ATP-synt; cl00365 489653004811 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 489653004812 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 489653004813 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 489653004814 beta subunit interaction interface [polypeptide binding]; other site 489653004815 Walker A motif; other site 489653004816 ATP binding site [chemical binding]; other site 489653004817 Walker B motif; other site 489653004818 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 489653004819 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 489653004820 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 489653004821 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 489653004822 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 489653004823 ATP synthase subunit C; Region: ATP-synt_C; cl00466 489653004824 ATP synthase A chain; Region: ATP-synt_A; cl00413 489653004825 ATP synthase I chain; Region: ATP_synt_I; cl09170 489653004826 ParB-like partition proteins; Region: parB_part; TIGR00180 489653004827 ParB-like nuclease domain; Region: ParBc; cl02129 489653004828 KorB domain; Region: KorB; pfam08535 489653004829 aromatic acid decarboxylase; Validated; Region: PRK05920 489653004830 Flavoprotein; Region: Flavoprotein; cl08021 489653004831 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 489653004832 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 489653004833 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...; Region: TM_PBP2; cl00427 489653004834 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 489653004835 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 489653004836 Walker A/P-loop; other site 489653004837 ATP binding site [chemical binding]; other site 489653004838 Q-loop/lid; other site 489653004839 ABC transporter signature motif; other site 489653004840 Walker B; other site 489653004841 D-loop; other site 489653004842 H-loop/switch region; other site 489653004843 lytic murein transglycosylase; Provisional; Region: PRK11619 489653004844 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 489653004845 N-acetyl-D-glucosamine binding site [chemical binding]; other site 489653004846 catalytic residue [active] 489653004847 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 489653004848 GatB domain; Region: GatB_Yqey; cl11497 489653004849 Stringent starvation protein B; Region: SspB; cl01120 489653004850 stringent starvation protein A; Provisional; Region: sspA; PRK09481 489653004851 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 489653004852 C-terminal domain interface [polypeptide binding]; other site 489653004853 putative GSH binding site (G-site) [chemical binding]; other site 489653004854 dimer interface [polypeptide binding]; other site 489653004855 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_C_SspA; cd03186 489653004856 dimer interface [polypeptide binding]; other site 489653004857 N-terminal domain interface [polypeptide binding]; other site 489653004858 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 489653004859 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 489653004860 Cadmium resistance transporter; Region: Cad; cl04177 489653004861 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 489653004862 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...; Region: TlpA_like_family; cd02966 489653004863 catalytic residues [active] 489653004864 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...; Region: 4HBT; cd00586 489653004865 active site 489653004866 VacJ like lipoprotein; Region: VacJ; cl01073 489653004867 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 489653004868 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 489653004869 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 489653004870 mce related protein; Region: MCE; cl03606 489653004871 Domain of unknown function DUF140; Region: DUF140; cl00510 489653004872 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 489653004873 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 489653004874 Walker A/P-loop; other site 489653004875 ATP binding site [chemical binding]; other site 489653004876 Q-loop/lid; other site 489653004877 ABC transporter signature motif; other site 489653004878 Walker B; other site 489653004879 D-loop; other site 489653004880 H-loop/switch region; other site 489653004881 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 489653004882 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 489653004883 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 489653004884 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 489653004885 NAD binding site [chemical binding]; other site 489653004886 catalytic residues [active] 489653004887 substrate binding site [chemical binding]; other site 489653004888 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 489653004889 chorismate binding enzyme; Region: Chorismate_bind; cl10555 489653004890 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 489653004891 homodimer interface [polypeptide binding]; other site 489653004892 substrate-cofactor binding pocket; other site 489653004893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 489653004894 catalytic residue [active] 489653004895 Protein of unknown function (DUF560); Region: DUF560; pfam04575 489653004896 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 489653004897 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 489653004898 N-terminal plug; other site 489653004899 ligand-binding site [chemical binding]; other site 489653004900 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 489653004901 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 489653004902 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 489653004903 G1 box; other site 489653004904 GTP/Mg2+ binding site [chemical binding]; other site 489653004905 Switch I region; other site 489653004906 G2 box; other site 489653004907 Switch II region; other site 489653004908 G3 box; other site 489653004909 G4 box; other site 489653004910 G5 box; other site 489653004911 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 489653004912 Predicted membrane protein (DUF2335); Region: DUF2335; cl02210 489653004913 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 489653004914 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases...; Region: PL1_Passenger_AT; cd01343 489653004915 Autotransporter beta-domain; Region: Autotransporter; cl02365 489653004916 DNA polymerase I; Provisional; Region: PRK05755 489653004917 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 489653004918 active site 489653004919 metal binding site 1 [ion binding]; metal-binding site 489653004920 putative 5' ssDNA interaction site; other site 489653004921 metal binding site 3; metal-binding site 489653004922 metal binding site 2 [ion binding]; metal-binding site 489653004923 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 489653004924 putative DNA binding site [nucleotide binding]; other site 489653004925 putative metal binding site [ion binding]; other site 489653004926 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 489653004927 active site 489653004928 catalytic site [active] 489653004929 substrate binding site [chemical binding]; other site 489653004930 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 489653004931 active site 489653004932 DNA binding site [nucleotide binding] 489653004933 catalytic site [active] 489653004934 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 489653004935 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; cl01770 489653004936 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 489653004937 putative iron binding site [ion binding]; other site 489653004938 diaminopimelate decarboxylase; Region: lysA; TIGR01048 489653004939 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 489653004940 active site 489653004941 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 489653004942 substrate binding site [chemical binding]; other site 489653004943 catalytic residues [active] 489653004944 dimer interface [polypeptide binding]; other site 489653004945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 489653004946 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 489653004947 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 489653004948 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 489653004949 ring oligomerisation interface [polypeptide binding]; other site 489653004950 ATP/Mg binding site [chemical binding]; other site 489653004951 stacking interactions; other site 489653004952 hinge regions; other site 489653004953 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...; Region: cpn10; cd00320 489653004954 oligomerisation interface [polypeptide binding]; other site 489653004955 mobile loop; other site 489653004956 roof hairpin; other site 489653004957 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...; Region: OM_channels; cl00284 489653004958 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 489653004959 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 489653004960 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 489653004961 putative ligand binding residues [chemical binding]; other site 489653004962 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 489653004963 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...; Region: TM_ABC_iron-siderophores_like; cd06550 489653004964 ABC-ATPase subunit interface; other site 489653004965 dimer interface [polypeptide binding]; other site 489653004966 putative PBP binding regions; other site 489653004967 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 489653004968 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...; Region: TM_ABC_iron-siderophores_like; cd06550 489653004969 ABC-ATPase subunit interface; other site 489653004970 dimer interface [polypeptide binding]; other site 489653004971 putative PBP binding regions; other site 489653004972 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 489653004973 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 489653004974 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 489653004975 Walker A/P-loop; other site 489653004976 ATP binding site [chemical binding]; other site 489653004977 Q-loop/lid; other site 489653004978 ABC transporter signature motif; other site 489653004979 Walker B; other site 489653004980 D-loop; other site 489653004981 H-loop/switch region; other site 489653004982 Nitrogen regulatory protein P-II; Region: P-II; cl00412 489653004983 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 489653004984 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 489653004985 dimerization interface [polypeptide binding]; other site 489653004986 ATP binding site [chemical binding]; other site 489653004987 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 489653004988 dimerization interface [polypeptide binding]; other site 489653004989 ATP binding site [chemical binding]; other site 489653004990 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 489653004991 putative active site [active] 489653004992 catalytic triad [active] 489653004993 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 489653004994 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 489653004995 MgtE intracellular N domain; Region: MgtE_N; cl15244 489653004996 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 489653004997 Divalent cation transporter; Region: MgtE; cl00786 489653004998 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 489653004999 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 489653005000 dimerization interface [polypeptide binding]; other site 489653005001 domain crossover interface; other site 489653005002 redox-dependent activation switch; other site 489653005003 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 489653005004 NlpC/P60 family; Region: NLPC_P60; cl11438 489653005005 LrgA family; Region: LrgA; cl00608 489653005006 LrgB-like family; Region: LrgB; cl00596 489653005007 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group...; Region: OAT; cd02152 489653005008 heterotetramer interface [polypeptide binding]; other site 489653005009 active site pocket [active] 489653005010 cleavage site 489653005011 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 489653005012 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 489653005013 putative ion selectivity filter; other site 489653005014 putative pore gating glutamate residue; other site 489653005015 putative H+/Cl- coupling transport residue; other site 489653005016 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 489653005017 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 489653005018 ATP binding site [chemical binding]; other site 489653005019 putative Mg++ binding site [ion binding]; other site 489653005020 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; cl14882 489653005021 HindVP restriction endonuclease; Region: RE_HindVP; pfam09519 489653005022 HindVP restriction endonuclease; Region: RE_HindVP; pfam09519 489653005023 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 489653005024 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 489653005025 cofactor binding site; other site 489653005026 DNA binding site [nucleotide binding] 489653005027 substrate interaction site [chemical binding]; other site 489653005028 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 489653005029 Helicase associated domain (HA2); Region: HA2; cl04503 489653005030 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 489653005031 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 489653005032 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 489653005033 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 489653005034 insertion element IS1106A3 transposase (pseudogene) 489653005035 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 489653005036 additional locus_tag=NLA19580; DNA transport competence protein (pseudo) 489653005037 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 489653005038 signal recognition particle protein; Provisional; Region: PRK10867 489653005039 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 489653005040 P loop; other site 489653005041 GTP binding site [chemical binding]; other site 489653005042 Signal peptide binding domain; Region: SRP_SPB; pfam02978 489653005043 Nitroreductase-like family 4. 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_4; cd02140 489653005044 dimer interface [polypeptide binding]; other site 489653005045 FMN binding site [chemical binding]; other site 489653005046 DoxX; Region: DoxX; cl00976 489653005047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 489653005048 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 489653005049 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 489653005050 putative effector binding pocket; other site 489653005051 dimerization interface [polypeptide binding]; other site 489653005052 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 489653005053 DNA photolyase; Region: DNA_photolyase; pfam00875 489653005054 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 489653005055 Integrase core domain; Region: rve; cl01316 489653005056 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; cl01116 489653005057 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 489653005058 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 489653005059 non-specific DNA binding site [nucleotide binding]; other site 489653005060 salt bridge; other site 489653005061 sequence-specific DNA binding site [nucleotide binding]; other site 489653005062 transposase (fragment) 489653005063 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 489653005064 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; cl14882 489653005065 DEAD_2; Region: DEAD_2; cl14887 489653005066 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 489653005067 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 489653005068 putative metal binding site [ion binding]; other site 489653005069 inner membrane trans-acylase protein (pseudogene) 489653005070 adenylosuccinate lyase; Provisional; Region: PRK09285 489653005071 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 489653005072 tetramer interface [polypeptide binding]; other site 489653005073 active site 489653005074 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 489653005075 Exoribonuclease R [Transcription]; Region: VacB; COG0557 489653005076 RNB domain; Region: RNB; pfam00773 489653005077 SurA N-terminal domain; Region: SurA_N; pfam09312 489653005078 PPIC-type PPIASE domain; Region: Rotamase; cl08278 489653005079 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 489653005080 OstA-like protein; Region: OstA; cl00844 489653005081 Organic solvent tolerance protein; Region: OstA_C; pfam04453 489653005082 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 489653005083 Phosphotransferase enzyme family; Region: APH; pfam01636 489653005084 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 489653005085 catalytic residues [active] 489653005086 hinge region; other site 489653005087 alpha helical domain; other site 489653005088 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 489653005089 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 489653005090 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 489653005091 active site 489653005092 ribulose/triose binding site [chemical binding]; other site 489653005093 phosphate binding site [ion binding]; other site 489653005094 substrate (anthranilate) binding pocket [chemical binding]; other site 489653005095 product (indole) binding pocket [chemical binding]; other site 489653005096 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 489653005097 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 489653005098 ATP binding site [chemical binding]; other site 489653005099 putative Mg++ binding site [ion binding]; other site 489653005100 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 489653005101 nucleotide binding region [chemical binding]; other site 489653005102 ATP-binding site [chemical binding]; other site 489653005103 RQC domain; Region: RQC; pfam09382 489653005104 HRDC domain; Region: HRDC; cl02578 489653005105 HRDC domain; Region: HRDC; cl02578 489653005106 HRDC domain; Region: HRDC; cl02578 489653005107 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 489653005108 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 489653005109 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 489653005110 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 489653005111 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 489653005112 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 489653005113 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 489653005114 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 489653005115 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 489653005116 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 489653005117 RuvA N terminal domain; Region: RuvA_N; pfam01330 489653005118 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 489653005119 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 489653005120 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 489653005121 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 489653005122 Walker A/P-loop; other site 489653005123 ATP binding site [chemical binding]; other site 489653005124 Q-loop/lid; other site 489653005125 ABC transporter signature motif; other site 489653005126 Walker B; other site 489653005127 D-loop; other site 489653005128 H-loop/switch region; other site 489653005129 GTPase RsgA; Reviewed; Region: PRK00098 489653005130 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 489653005131 GTPase/OB domain interface [polypeptide binding]; other site 489653005132 GTPase/Zn-binding domain interface [polypeptide binding]; other site 489653005133 GTP/Mg2+ binding site [chemical binding]; other site 489653005134 G4 box; other site 489653005135 G5 box; other site 489653005136 G1 box; other site 489653005137 Switch I region; other site 489653005138 G2 box; other site 489653005139 G3 box; other site 489653005140 Switch II region; other site 489653005141 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 489653005142 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 489653005143 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 489653005144 substrate binding pocket [chemical binding]; other site 489653005145 chain length determination region; other site 489653005146 substrate-Mg2+ binding site; other site 489653005147 catalytic residues [active] 489653005148 aspartate-rich region 1; other site 489653005149 active site lid residues [active] 489653005150 aspartate-rich region 2; other site 489653005151 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 489653005152 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 489653005153 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 489653005154 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 489653005155 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 489653005156 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 489653005157 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 489653005158 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 489653005159 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 489653005160 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 489653005161 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 489653005162 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 489653005163 4Fe-4S binding domain; Region: Fer4; cl02805 489653005164 NADH dehydrogenase; Region: NADHdh; cl00469 489653005165 NADH dehydrogenase subunit G; Validated; Region: PRK09129 489653005166 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 489653005167 catalytic loop [active] 489653005168 iron binding site [ion binding]; other site 489653005169 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 489653005170 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions...; Region: MopB_NDH-1_NuoG2; cd02772 489653005171 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-; Region: MopB_CT; cl09929 489653005172 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 489653005173 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 489653005174 SLBB domain; Region: SLBB; pfam10531 489653005175 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 489653005176 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 protein...; Region: CSP_CDS; cd04458 489653005177 DNA-binding site [nucleotide binding]; DNA binding site 489653005178 RNA-binding motif; other site 489653005179 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 489653005180 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 489653005181 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of...; Region: TRX_Fd_NuoE; cd03064 489653005182 putative dimer interface [polypeptide binding]; other site 489653005183 [2Fe-2S] cluster binding site [ion binding]; other site 489653005184 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 489653005185 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 489653005186 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 489653005187 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 489653005188 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 489653005189 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 489653005190 tandem repeat interface [polypeptide binding]; other site 489653005191 oligomer interface [polypeptide binding]; other site 489653005192 active site residues [active] 489653005193 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 489653005194 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 489653005195 putative MPT binding site; other site 489653005196 argininosuccinate synthase; Region: argG; TIGR00032 489653005197 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 489653005198 Ligand Binding Site [chemical binding]; other site 489653005199 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 489653005200 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 489653005201 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 489653005202 Surface antigen; Region: Bac_surface_Ag; cl03097 489653005203 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 489653005204 Family of unknown function (DUF490); Region: DUF490; pfam04357 489653005205 Family of unknown function (DUF490); Region: DUF490; pfam04357 489653005206 Family of unknown function (DUF490); Region: DUF490; pfam04357 489653005207 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; cl11420 489653005208 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 489653005209 peptide chain release factor 2; Validated; Region: prfB; PRK00578 489653005210 RF-1 domain; Region: RF-1; cl02875 489653005211 RF-1 domain; Region: RF-1; cl02875 489653005212 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 489653005213 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 489653005214 active site 489653005215 nucleophile elbow; other site 489653005216 DoxX; Region: DoxX; cl00976 489653005217 hypothetical protein; Provisional; Region: PRK05409 489653005218 Protein of unknown function (DUF692); Region: DUF692; cl01263 489653005219 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 489653005220 RNA polymerase sigma factor; Provisional; Region: PRK12532 489653005221 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 489653005222 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...; Region: Sigma70_r4; cd06171 489653005223 DNA binding residues [nucleotide binding] 489653005224 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 489653005225 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 489653005226 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 489653005227 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 489653005228 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 489653005229 Uncharacterized conserved protein [Function unknown]; Region: COG1739 489653005230 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 489653005231 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 489653005232 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 489653005233 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 489653005234 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 489653005235 Ligand binding site [chemical binding]; other site 489653005236 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 489653005237 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 489653005238 putative active site [active] 489653005239 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 489653005240 Isochorismatase family; Region: Isochorismatase; pfam00857 489653005241 catalytic triad [active] 489653005242 metal binding site [ion binding]; metal-binding site 489653005243 conserved cis-peptide bond; other site 489653005244 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 489653005245 homodimer interaction site [polypeptide binding]; other site 489653005246 cofactor binding site; other site 489653005247 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 489653005248 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 489653005249 NAD(P) binding site [chemical binding]; other site 489653005250 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 489653005251 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 489653005252 MutS domain I; Region: MutS_I; pfam01624 489653005253 MutS domain II; Region: MutS_II; pfam05188 489653005254 MutS family domain IV; Region: MutS_IV; pfam05190 489653005255 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 489653005256 Walker A/P-loop; other site 489653005257 ATP binding site [chemical binding]; other site 489653005258 Q-loop/lid; other site 489653005259 ABC transporter signature motif; other site 489653005260 Walker B; other site 489653005261 D-loop; other site 489653005262 H-loop/switch region; other site 489653005263 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 489653005264 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 489653005265 active site 489653005266 HIGH motif; other site 489653005267 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 489653005268 active site 489653005269 KMSKS motif; other site 489653005270 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 489653005271 putative active site [active] 489653005272 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 489653005273 catalytic residues [active] 489653005274 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...; Region: TlpA_like_family; cd02966 489653005275 catalytic residues [active] 489653005276 Type II (General) Secretory Pathway (IISP) Family protein; Region: 3a0501s02; TIGR00960 489653005277 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 489653005278 Walker A/P-loop; other site 489653005279 ATP binding site [chemical binding]; other site 489653005280 Q-loop/lid; other site 489653005281 ABC transporter signature motif; other site 489653005282 Walker B; other site 489653005283 D-loop; other site 489653005284 H-loop/switch region; other site 489653005285 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 489653005286 FtsX-like permease family; Region: FtsX; pfam02687 489653005287 BolA-like protein; Region: BolA; cl00386 489653005288 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; cl00198 489653005289 substrate binding site [chemical binding]; other site 489653005290 hinge regions; other site 489653005291 ADP binding site [chemical binding]; other site 489653005292 catalytic site [active] 489653005293 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 489653005294 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 489653005295 hinge; other site 489653005296 active site 489653005297 Integral membrane protein TerC family; Region: TerC; cl10468 489653005298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 489653005299 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 489653005300 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 489653005301 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 489653005302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 489653005303 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 489653005304 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393