-- dump date 20140619_105017 -- class Genbank::misc_feature -- table misc_feature_note -- id note 205914000001 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 205914000002 Initiator Replication protein; Region: Rep_3; pfam01051 205914000003 Initiator Replication protein; Region: Rep_3; pfam01051 205914000004 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 205914000005 FIC domain binding interface [polypeptide binding]; other site 205914000006 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 205914000007 Putative helicase; Region: TraI_2; pfam07514 205914000008 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 205914000009 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 205914000010 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 205914000011 active site 205914000012 catalytic residues [active] 205914000013 DNA binding site [nucleotide binding] 205914000014 Int/Topo IB signature motif; other site 205914000015 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 205914000016 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 205914000017 active site 205914000018 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205914000019 active site 205914000020 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 205914000021 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 205914000022 metal binding site [ion binding]; metal-binding site 205914000023 dimer interface [polypeptide binding]; other site 205914000024 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 205914000025 MutS domain I; Region: MutS_I; pfam01624 205914000026 MutS domain II; Region: MutS_II; pfam05188 205914000027 MutS domain III; Region: MutS_III; pfam05192 205914000028 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 205914000029 Walker A/P-loop; other site 205914000030 ATP binding site [chemical binding]; other site 205914000031 Q-loop/lid; other site 205914000032 ABC transporter signature motif; other site 205914000033 Walker B; other site 205914000034 D-loop; other site 205914000035 H-loop/switch region; other site 205914000036 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 205914000037 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 205914000038 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 205914000039 shikimate binding site; other site 205914000040 NAD(P) binding site [chemical binding]; other site 205914000041 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 205914000042 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 205914000043 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 205914000044 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 205914000045 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 205914000046 hypothetical protein; Validated; Region: PRK00228 205914000047 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 205914000048 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 205914000049 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205914000050 DNA-binding site [nucleotide binding]; DNA binding site 205914000051 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 205914000052 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 205914000053 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 205914000054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 205914000055 putative aldolase; Validated; Region: PRK08130 205914000056 intersubunit interface [polypeptide binding]; other site 205914000057 active site 205914000058 Zn2+ binding site [ion binding]; other site 205914000059 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 205914000060 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 205914000061 Metal-binding active site; metal-binding site 205914000062 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 205914000063 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 205914000064 putative NAD(P) binding site [chemical binding]; other site 205914000065 active site 205914000066 putative substrate binding site [chemical binding]; other site 205914000067 GntP family permease; Region: GntP_permease; pfam02447 205914000068 fructuronate transporter; Provisional; Region: PRK10034; cl15264 205914000069 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 205914000070 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 205914000071 ATP binding site [chemical binding]; other site 205914000072 substrate interface [chemical binding]; other site 205914000073 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205914000074 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 205914000075 putative substrate translocation pore; other site 205914000076 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 205914000077 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205914000078 DNA-binding site [nucleotide binding]; DNA binding site 205914000079 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 205914000080 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 205914000081 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 205914000082 putative NAD(P) binding site [chemical binding]; other site 205914000083 catalytic Zn binding site [ion binding]; other site 205914000084 structural Zn binding site [ion binding]; other site 205914000085 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 205914000086 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 205914000087 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 205914000088 DctM-like transporters; Region: DctM; pfam06808 205914000089 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 205914000090 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 205914000091 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 205914000092 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 205914000093 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 205914000094 putative active site [active] 205914000095 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 205914000096 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 205914000097 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205914000098 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205914000099 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 205914000100 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 205914000101 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 205914000102 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 205914000103 Walker A/P-loop; other site 205914000104 ATP binding site [chemical binding]; other site 205914000105 Q-loop/lid; other site 205914000106 ABC transporter signature motif; other site 205914000107 Walker B; other site 205914000108 D-loop; other site 205914000109 H-loop/switch region; other site 205914000110 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 205914000111 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205914000112 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 205914000113 TM-ABC transporter signature motif; other site 205914000114 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 205914000115 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205914000116 TM-ABC transporter signature motif; other site 205914000117 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 205914000118 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 205914000119 putative N- and C-terminal domain interface [polypeptide binding]; other site 205914000120 putative active site [active] 205914000121 MgATP binding site [chemical binding]; other site 205914000122 catalytic site [active] 205914000123 metal binding site [ion binding]; metal-binding site 205914000124 putative carbohydrate binding site [chemical binding]; other site 205914000125 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 205914000126 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 205914000127 catalytic triad [active] 205914000128 dimer interface [polypeptide binding]; other site 205914000129 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 205914000130 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 205914000131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 205914000132 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 205914000133 dimerization interface [polypeptide binding]; other site 205914000134 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 205914000135 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 205914000136 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 205914000137 TrkA-N domain; Region: TrkA_N; pfam02254 205914000138 TrkA-C domain; Region: TrkA_C; pfam02080 205914000139 TrkA-N domain; Region: TrkA_N; pfam02254 205914000140 TrkA-C domain; Region: TrkA_C; pfam02080 205914000141 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 205914000142 putative RNA binding site [nucleotide binding]; other site 205914000143 16S rRNA methyltransferase B; Provisional; Region: PRK10901 205914000144 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 205914000145 S-adenosylmethionine binding site [chemical binding]; other site 205914000146 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 205914000147 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 205914000148 putative active site [active] 205914000149 substrate binding site [chemical binding]; other site 205914000150 putative cosubstrate binding site; other site 205914000151 catalytic site [active] 205914000152 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 205914000153 substrate binding site [chemical binding]; other site 205914000154 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 205914000155 active site 205914000156 catalytic residues [active] 205914000157 metal binding site [ion binding]; metal-binding site 205914000158 transcriptional regulator NarP; Provisional; Region: PRK10403 205914000159 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 205914000160 active site 205914000161 phosphorylation site [posttranslational modification] 205914000162 intermolecular recognition site; other site 205914000163 dimerization interface [polypeptide binding]; other site 205914000164 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 205914000165 DNA binding residues [nucleotide binding] 205914000166 dimerization interface [polypeptide binding]; other site 205914000167 adenylate cyclase; Provisional; Region: cyaA; PRK09450 205914000168 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 205914000169 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 205914000170 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 205914000171 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 205914000172 domain interfaces; other site 205914000173 active site 205914000174 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 205914000175 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 205914000176 active site 205914000177 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 205914000178 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 205914000179 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 205914000180 HemY protein N-terminus; Region: HemY_N; pfam07219 205914000181 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 205914000182 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 205914000183 FMN binding site [chemical binding]; other site 205914000184 active site 205914000185 catalytic residues [active] 205914000186 substrate binding site [chemical binding]; other site 205914000187 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 205914000188 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 205914000189 putative N- and C-terminal domain interface [polypeptide binding]; other site 205914000190 putative active site [active] 205914000191 putative MgATP binding site [chemical binding]; other site 205914000192 catalytic site [active] 205914000193 metal binding site [ion binding]; metal-binding site 205914000194 putative carbohydrate binding site [chemical binding]; other site 205914000195 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 205914000196 transcriptional regulator LsrR; Provisional; Region: PRK15418 205914000197 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 205914000198 non-specific DNA interactions [nucleotide binding]; other site 205914000199 DNA binding site [nucleotide binding] 205914000200 sequence specific DNA binding site [nucleotide binding]; other site 205914000201 putative cAMP binding site [chemical binding]; other site 205914000202 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 205914000203 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 205914000204 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 205914000205 Walker A/P-loop; other site 205914000206 ATP binding site [chemical binding]; other site 205914000207 Q-loop/lid; other site 205914000208 ABC transporter signature motif; other site 205914000209 Walker B; other site 205914000210 D-loop; other site 205914000211 H-loop/switch region; other site 205914000212 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 205914000213 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 205914000214 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205914000215 TM-ABC transporter signature motif; other site 205914000216 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 205914000217 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205914000218 TM-ABC transporter signature motif; other site 205914000219 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 205914000220 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 205914000221 ligand binding site [chemical binding]; other site 205914000222 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 205914000223 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 205914000224 putative active site; other site 205914000225 catalytic residue [active] 205914000226 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 205914000227 ribulose-phosphate 3-epimerase; Validated; Region: PRK08091 205914000228 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 205914000229 phosphate binding site [ion binding]; other site 205914000230 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 205914000231 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 205914000232 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 205914000233 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 205914000234 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 205914000235 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 205914000236 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 205914000237 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 205914000238 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 205914000239 protein-rRNA interface [nucleotide binding]; other site 205914000240 putative translocon binding site; other site 205914000241 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 205914000242 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 205914000243 G-X-X-G motif; other site 205914000244 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 205914000245 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 205914000246 23S rRNA interface [nucleotide binding]; other site 205914000247 5S rRNA interface [nucleotide binding]; other site 205914000248 putative antibiotic binding site [chemical binding]; other site 205914000249 L25 interface [polypeptide binding]; other site 205914000250 L27 interface [polypeptide binding]; other site 205914000251 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 205914000252 23S rRNA interface [nucleotide binding]; other site 205914000253 putative translocon interaction site; other site 205914000254 signal recognition particle (SRP54) interaction site; other site 205914000255 L23 interface [polypeptide binding]; other site 205914000256 trigger factor interaction site; other site 205914000257 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 205914000258 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 205914000259 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 205914000260 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 205914000261 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 205914000262 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 205914000263 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 205914000264 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 205914000265 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 205914000266 RNA binding site [nucleotide binding]; other site 205914000267 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 205914000268 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 205914000269 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 205914000270 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 205914000271 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 205914000272 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 205914000273 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 205914000274 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 205914000275 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 205914000276 5S rRNA interface [nucleotide binding]; other site 205914000277 23S rRNA interface [nucleotide binding]; other site 205914000278 L5 interface [polypeptide binding]; other site 205914000279 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 205914000280 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 205914000281 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 205914000282 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 205914000283 23S rRNA binding site [nucleotide binding]; other site 205914000284 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 205914000285 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 205914000286 SecY translocase; Region: SecY; pfam00344 205914000287 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 205914000288 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 205914000289 30S ribosomal protein S13; Region: bact_S13; TIGR03631 205914000290 30S ribosomal protein S11; Validated; Region: PRK05309 205914000291 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 205914000292 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 205914000293 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 205914000294 RNA binding surface [nucleotide binding]; other site 205914000295 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 205914000296 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 205914000297 alphaNTD homodimer interface [polypeptide binding]; other site 205914000298 alphaNTD - beta interaction site [polypeptide binding]; other site 205914000299 alphaNTD - beta' interaction site [polypeptide binding]; other site 205914000300 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 205914000301 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 205914000302 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 205914000303 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 205914000304 active site 205914000305 metal binding site [ion binding]; metal-binding site 205914000306 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 205914000307 non-specific DNA binding site [nucleotide binding]; other site 205914000308 salt bridge; other site 205914000309 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 205914000310 sequence-specific DNA binding site [nucleotide binding]; other site 205914000311 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 205914000312 active site 205914000313 (T/H)XGH motif; other site 205914000314 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 205914000315 Membrane fusogenic activity; Region: BMFP; cl01115 205914000316 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK01792 205914000317 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 205914000318 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 205914000319 thiamine phosphate binding site [chemical binding]; other site 205914000320 active site 205914000321 pyrophosphate binding site [ion binding]; other site 205914000322 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 205914000323 dimer interface [polypeptide binding]; other site 205914000324 substrate binding site [chemical binding]; other site 205914000325 ATP binding site [chemical binding]; other site 205914000326 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 205914000327 substrate binding site [chemical binding]; other site 205914000328 multimerization interface [polypeptide binding]; other site 205914000329 ATP binding site [chemical binding]; other site 205914000330 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 205914000331 Recombination protein O N terminal; Region: RecO_N; pfam11967 205914000332 Recombination protein O C terminal; Region: RecO_C; pfam02565 205914000333 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 205914000334 TRAM domain; Region: TRAM; cl01282 205914000335 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 205914000336 S-adenosylmethionine binding site [chemical binding]; other site 205914000337 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 205914000338 HD domain; Region: HD_4; pfam13328 205914000339 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 205914000340 synthetase active site [active] 205914000341 NTP binding site [chemical binding]; other site 205914000342 metal binding site [ion binding]; metal-binding site 205914000343 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 205914000344 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 205914000345 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 205914000346 Divergent AAA domain; Region: AAA_4; pfam04326 205914000347 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 205914000348 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 205914000349 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 205914000350 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 205914000351 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 205914000352 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 205914000353 dimer interface [polypeptide binding]; other site 205914000354 active site 205914000355 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 205914000356 putative active site 1 [active] 205914000357 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 205914000358 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 205914000359 NAD(P) binding site [chemical binding]; other site 205914000360 homotetramer interface [polypeptide binding]; other site 205914000361 homodimer interface [polypeptide binding]; other site 205914000362 active site 205914000363 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 205914000364 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 205914000365 dimer interface [polypeptide binding]; other site 205914000366 active site 205914000367 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 205914000368 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 205914000369 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 205914000370 putative acyl-acceptor binding pocket; other site 205914000371 Phosphopantetheine attachment site; Region: PP-binding; cl09936 205914000372 acyl carrier protein; Provisional; Region: PRK05350 205914000373 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 205914000374 active site 2 [active] 205914000375 active site 1 [active] 205914000376 Predicted membrane protein [Function unknown]; Region: COG4648 205914000377 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 205914000378 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 205914000379 AMP binding site [chemical binding]; other site 205914000380 active site 205914000381 acyl-activating enzyme (AAE) consensus motif; other site 205914000382 CoA binding site [chemical binding]; other site 205914000383 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 205914000384 Ligand binding site; other site 205914000385 Putative Catalytic site; other site 205914000386 DXD motif; other site 205914000387 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 205914000388 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 205914000389 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 205914000390 putative acyl-acceptor binding pocket; other site 205914000391 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 205914000392 active site 205914000393 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 205914000394 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 205914000395 Predicted exporter [General function prediction only]; Region: COG4258 205914000396 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 205914000397 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 205914000398 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 205914000399 ligand binding site [chemical binding]; other site 205914000400 NAD binding site [chemical binding]; other site 205914000401 tetramer interface [polypeptide binding]; other site 205914000402 catalytic site [active] 205914000403 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 205914000404 L-serine binding site [chemical binding]; other site 205914000405 ACT domain interface; other site 205914000406 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 205914000407 tetramer (dimer of dimers) interface [polypeptide binding]; other site 205914000408 active site 205914000409 dimer interface [polypeptide binding]; other site 205914000410 HemN family oxidoreductase; Provisional; Region: PRK05660 205914000411 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 205914000412 FeS/SAM binding site; other site 205914000413 HemN C-terminal domain; Region: HemN_C; pfam06969 205914000414 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 205914000415 active site 205914000416 dimerization interface [polypeptide binding]; other site 205914000417 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 205914000418 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 205914000419 homotrimer interaction site [polypeptide binding]; other site 205914000420 putative active site [active] 205914000421 hypothetical protein; Provisional; Region: PRK07101 205914000422 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 205914000423 substrate-cofactor binding pocket; other site 205914000424 homodimer interface [polypeptide binding]; other site 205914000425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914000426 para-aminobenzoate synthase component I; Validated; Region: PRK07093 205914000427 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 205914000428 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 205914000429 Glutamine amidotransferase class-I; Region: GATase; pfam00117 205914000430 glutamine binding [chemical binding]; other site 205914000431 catalytic triad [active] 205914000432 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 205914000433 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 205914000434 dimerization interface [polypeptide binding]; other site 205914000435 DPS ferroxidase diiron center [ion binding]; other site 205914000436 ion pore; other site 205914000437 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 205914000438 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 205914000439 trmE is a tRNA modification GTPase; Region: trmE; cd04164 205914000440 G1 box; other site 205914000441 GTP/Mg2+ binding site [chemical binding]; other site 205914000442 Switch I region; other site 205914000443 G2 box; other site 205914000444 Switch II region; other site 205914000445 G3 box; other site 205914000446 G4 box; other site 205914000447 G5 box; other site 205914000448 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 205914000449 membrane protein insertase; Provisional; Region: PRK01318 205914000450 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 205914000451 hypothetical protein; Validated; Region: PRK00041 205914000452 ribonuclease P; Reviewed; Region: rnpA; PRK01732 205914000453 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 205914000454 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 205914000455 DnaA N-terminal domain; Region: DnaA_N; pfam11638 205914000456 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914000457 Walker A motif; other site 205914000458 ATP binding site [chemical binding]; other site 205914000459 Walker B motif; other site 205914000460 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 205914000461 arginine finger; other site 205914000462 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 205914000463 DnaA box-binding interface [nucleotide binding]; other site 205914000464 DNA polymerase III subunit beta; Validated; Region: PRK05643 205914000465 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 205914000466 putative DNA binding surface [nucleotide binding]; other site 205914000467 dimer interface [polypeptide binding]; other site 205914000468 beta-clamp/clamp loader binding surface; other site 205914000469 beta-clamp/translesion DNA polymerase binding surface; other site 205914000470 recF protein; Region: recf; TIGR00611 205914000471 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914000472 Walker A/P-loop; other site 205914000473 ATP binding site [chemical binding]; other site 205914000474 Q-loop/lid; other site 205914000475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914000476 ABC transporter signature motif; other site 205914000477 Walker B; other site 205914000478 D-loop; other site 205914000479 H-loop/switch region; other site 205914000480 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 205914000481 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 205914000482 ligand binding site [chemical binding]; other site 205914000483 flexible hinge region; other site 205914000484 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 205914000485 putative switch regulator; other site 205914000486 non-specific DNA interactions [nucleotide binding]; other site 205914000487 DNA binding site [nucleotide binding] 205914000488 sequence specific DNA binding site [nucleotide binding]; other site 205914000489 putative cAMP binding site [chemical binding]; other site 205914000490 hypothetical protein; Provisional; Region: PRK04966 205914000491 division inhibitor protein; Provisional; Region: slmA; PRK09480 205914000492 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 205914000493 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 205914000494 trimer interface [polypeptide binding]; other site 205914000495 active site 205914000496 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 205914000497 Flavoprotein; Region: Flavoprotein; pfam02441 205914000498 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 205914000499 hypothetical protein; Reviewed; Region: PRK00024 205914000500 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 205914000501 MPN+ (JAMM) motif; other site 205914000502 Zinc-binding site [ion binding]; other site 205914000503 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 205914000504 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 205914000505 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 205914000506 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 205914000507 DNA binding site [nucleotide binding] 205914000508 catalytic residue [active] 205914000509 H2TH interface [polypeptide binding]; other site 205914000510 putative catalytic residues [active] 205914000511 turnover-facilitating residue; other site 205914000512 intercalation triad [nucleotide binding]; other site 205914000513 8OG recognition residue [nucleotide binding]; other site 205914000514 putative reading head residues; other site 205914000515 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 205914000516 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 205914000517 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 205914000518 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 205914000519 PYR/PP interface [polypeptide binding]; other site 205914000520 dimer interface [polypeptide binding]; other site 205914000521 TPP binding site [chemical binding]; other site 205914000522 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 205914000523 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 205914000524 TPP-binding site [chemical binding]; other site 205914000525 dimer interface [polypeptide binding]; other site 205914000526 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 205914000527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 205914000528 MOSC domain; Region: MOSC; pfam03473 205914000529 Chorismate lyase; Region: Chor_lyase; cl01230 205914000530 exoribonuclease R; Provisional; Region: PRK11642 205914000531 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 205914000532 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 205914000533 RNB domain; Region: RNB; pfam00773 205914000534 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 205914000535 RNA binding site [nucleotide binding]; other site 205914000536 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 205914000537 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 205914000538 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 205914000539 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 205914000540 Sel1-like repeats; Region: SEL1; smart00671 205914000541 Sel1-like repeats; Region: SEL1; smart00671 205914000542 Sel1-like repeats; Region: SEL1; smart00671 205914000543 serine acetyltransferase; Provisional; Region: cysE; PRK11132 205914000544 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 205914000545 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...; Region: LbH_SAT; cd03354 205914000546 trimer interface [polypeptide binding]; other site 205914000547 active site 205914000548 substrate binding site [chemical binding]; other site 205914000549 CoA binding site [chemical binding]; other site 205914000550 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 205914000551 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 205914000552 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 205914000553 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; cd00557 205914000554 SecA binding site; other site 205914000555 Preprotein binding site; other site 205914000556 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 205914000557 active site residue [active] 205914000558 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 205914000559 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 205914000560 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 205914000561 UbiA prenyltransferase family; Region: UbiA; pfam01040 205914000562 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 205914000563 active site residue [active] 205914000564 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 205914000565 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 205914000566 hypothetical protein; Provisional; Region: PRK11193 205914000567 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 205914000568 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 205914000569 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 205914000570 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 205914000571 dimer interface [polypeptide binding]; other site 205914000572 active site 205914000573 CoA binding pocket [chemical binding]; other site 205914000574 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 205914000575 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 205914000576 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 205914000577 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 205914000578 NAD(P) binding site [chemical binding]; other site 205914000579 homotetramer interface [polypeptide binding]; other site 205914000580 homodimer interface [polypeptide binding]; other site 205914000581 active site 205914000582 acyl carrier protein; Provisional; Region: acpP; PRK00982 205914000583 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 205914000584 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 205914000585 23S rRNA interface [nucleotide binding]; other site 205914000586 L7/L12 interface [polypeptide binding]; other site 205914000587 putative thiostrepton binding site; other site 205914000588 L25 interface [polypeptide binding]; other site 205914000589 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 205914000590 mRNA/rRNA interface [nucleotide binding]; other site 205914000591 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 205914000592 23S rRNA interface [nucleotide binding]; other site 205914000593 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 205914000594 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 205914000595 core dimer interface [polypeptide binding]; other site 205914000596 peripheral dimer interface [polypeptide binding]; other site 205914000597 L10 interface [polypeptide binding]; other site 205914000598 L11 interface [polypeptide binding]; other site 205914000599 putative EF-Tu interaction site [polypeptide binding]; other site 205914000600 putative EF-G interaction site [polypeptide binding]; other site 205914000601 transcription termination factor Rho; Provisional; Region: rho; PRK09376 205914000602 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 205914000603 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 205914000604 RNA binding site [nucleotide binding]; other site 205914000605 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 205914000606 multimer interface [polypeptide binding]; other site 205914000607 Walker A motif; other site 205914000608 ATP binding site [chemical binding]; other site 205914000609 Walker B motif; other site 205914000610 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 205914000611 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 205914000612 ATP binding site [chemical binding]; other site 205914000613 Mg++ binding site [ion binding]; other site 205914000614 motif III; other site 205914000615 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 205914000616 nucleotide binding region [chemical binding]; other site 205914000617 ATP-binding site [chemical binding]; other site 205914000618 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 205914000619 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 205914000620 substrate binding site [chemical binding]; other site 205914000621 hexamer interface [polypeptide binding]; other site 205914000622 metal binding site [ion binding]; metal-binding site 205914000623 phosphoglycolate phosphatase; Provisional; Region: PRK13222 205914000624 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 205914000625 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 205914000626 motif II; other site 205914000627 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 205914000628 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 205914000629 active site 205914000630 HIGH motif; other site 205914000631 dimer interface [polypeptide binding]; other site 205914000632 KMSKS motif; other site 205914000633 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 205914000634 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 205914000635 motif II; other site 205914000636 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 205914000637 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 205914000638 UPF0126 domain; Region: UPF0126; pfam03458 205914000639 Predicted membrane protein [Function unknown]; Region: COG2860 205914000640 UPF0126 domain; Region: UPF0126; pfam03458 205914000641 threonine dehydratase; Reviewed; Region: PRK09224 205914000642 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 205914000643 tetramer interface [polypeptide binding]; other site 205914000644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914000645 catalytic residue [active] 205914000646 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 205914000647 putative Ile/Val binding site [chemical binding]; other site 205914000648 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 205914000649 putative Ile/Val binding site [chemical binding]; other site 205914000650 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 205914000651 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 205914000652 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 205914000653 lipoprotein signal peptidase; Provisional; Region: PRK14787 205914000654 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 205914000655 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 205914000656 active site 205914000657 HIGH motif; other site 205914000658 nucleotide binding site [chemical binding]; other site 205914000659 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 205914000660 active site 205914000661 KMSKS motif; other site 205914000662 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 205914000663 tRNA binding surface [nucleotide binding]; other site 205914000664 anticodon binding site; other site 205914000665 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 205914000666 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 205914000667 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 205914000668 active site 205914000669 Riboflavin kinase; Region: Flavokinase; smart00904 205914000670 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 205914000671 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 205914000672 folate binding site [chemical binding]; other site 205914000673 NADP+ binding site [chemical binding]; other site 205914000674 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 205914000675 Uncharacterized conserved protein [Function unknown]; Region: COG2966 205914000676 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 205914000677 gamma-glutamyl kinase; Provisional; Region: PRK05429 205914000678 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 205914000679 nucleotide binding site [chemical binding]; other site 205914000680 homotetrameric interface [polypeptide binding]; other site 205914000681 putative phosphate binding site [ion binding]; other site 205914000682 putative allosteric binding site; other site 205914000683 PUA domain; Region: PUA; pfam01472 205914000684 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 205914000685 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 205914000686 putative homodimer interface [polypeptide binding]; other site 205914000687 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 205914000688 heterodimer interface [polypeptide binding]; other site 205914000689 homodimer interface [polypeptide binding]; other site 205914000690 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 205914000691 elongation factor Tu; Reviewed; Region: PRK00049 205914000692 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 205914000693 G1 box; other site 205914000694 GEF interaction site [polypeptide binding]; other site 205914000695 GTP/Mg2+ binding site [chemical binding]; other site 205914000696 Switch I region; other site 205914000697 G2 box; other site 205914000698 G3 box; other site 205914000699 Switch II region; other site 205914000700 G4 box; other site 205914000701 G5 box; other site 205914000702 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 205914000703 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 205914000704 Antibiotic Binding Site [chemical binding]; other site 205914000705 pantothenate kinase; Provisional; Region: PRK05439 205914000706 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 205914000707 ATP-binding site [chemical binding]; other site 205914000708 CoA-binding site [chemical binding]; other site 205914000709 Mg2+-binding site [ion binding]; other site 205914000710 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 205914000711 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 205914000712 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 205914000713 putative active site [active] 205914000714 putative PHP Thumb interface [polypeptide binding]; other site 205914000715 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 205914000716 generic binding surface II; other site 205914000717 generic binding surface I; other site 205914000718 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 205914000719 Clp amino terminal domain; Region: Clp_N; pfam02861 205914000720 Clp amino terminal domain; Region: Clp_N; pfam02861 205914000721 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914000722 Walker A motif; other site 205914000723 ATP binding site [chemical binding]; other site 205914000724 Walker B motif; other site 205914000725 arginine finger; other site 205914000726 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914000727 Walker A motif; other site 205914000728 ATP binding site [chemical binding]; other site 205914000729 Walker B motif; other site 205914000730 arginine finger; other site 205914000731 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 205914000732 Protein of unknown function, DUF606; Region: DUF606; pfam04657 205914000733 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 205914000734 oxaloacetate decarboxylase; Provisional; Region: PRK14040 205914000735 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 205914000736 active site 205914000737 catalytic residues [active] 205914000738 metal binding site [ion binding]; metal-binding site 205914000739 homodimer binding site [polypeptide binding]; other site 205914000740 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 205914000741 carboxyltransferase (CT) interaction site; other site 205914000742 biotinylation site [posttranslational modification]; other site 205914000743 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 205914000744 transaldolase-like protein; Provisional; Region: PTZ00411 205914000745 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 205914000746 active site 205914000747 dimer interface [polypeptide binding]; other site 205914000748 catalytic residue [active] 205914000749 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 205914000750 OstA-like protein; Region: OstA; pfam03968 205914000751 Organic solvent tolerance protein; Region: OstA_C; pfam04453 205914000752 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 205914000753 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 205914000754 active site 205914000755 intersubunit interface [polypeptide binding]; other site 205914000756 zinc binding site [ion binding]; other site 205914000757 Na+ binding site [ion binding]; other site 205914000758 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 205914000759 Phosphoglycerate kinase; Region: PGK; pfam00162 205914000760 substrate binding site [chemical binding]; other site 205914000761 hinge regions; other site 205914000762 ADP binding site [chemical binding]; other site 205914000763 catalytic site [active] 205914000764 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 205914000765 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914000766 trimer interface [polypeptide binding]; other site 205914000767 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914000768 trimer interface [polypeptide binding]; other site 205914000769 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914000770 trimer interface [polypeptide binding]; other site 205914000771 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914000772 trimer interface [polypeptide binding]; other site 205914000773 Haemagglutinin; Region: HIM; pfam05662 205914000774 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914000775 trimer interface [polypeptide binding]; other site 205914000776 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914000777 trimer interface [polypeptide binding]; other site 205914000778 YadA-like C-terminal region; Region: YadA; pfam03895 205914000779 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 205914000780 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 205914000781 Walker A/P-loop; other site 205914000782 ATP binding site [chemical binding]; other site 205914000783 Q-loop/lid; other site 205914000784 ABC transporter signature motif; other site 205914000785 Walker B; other site 205914000786 D-loop; other site 205914000787 H-loop/switch region; other site 205914000788 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205914000789 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914000790 dimer interface [polypeptide binding]; other site 205914000791 conserved gate region; other site 205914000792 putative PBP binding loops; other site 205914000793 ABC-ATPase subunit interface; other site 205914000794 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 205914000795 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 205914000796 substrate binding pocket [chemical binding]; other site 205914000797 membrane-bound complex binding site; other site 205914000798 hinge residues; other site 205914000799 Fic family protein [Function unknown]; Region: COG3177 205914000800 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 205914000801 Fic/DOC family; Region: Fic; pfam02661 205914000802 Toxin ToxN, type III toxin-antitoxin system; Region: ToxN_toxin; pfam13958 205914000803 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 205914000804 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 205914000805 transmembrane helices; other site 205914000806 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 205914000807 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 205914000808 UbiA prenyltransferase family; Region: UbiA; pfam01040 205914000809 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 205914000810 homodimer interaction site [polypeptide binding]; other site 205914000811 cofactor binding site; other site 205914000812 D-ribose pyranase; Provisional; Region: PRK11797 205914000813 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 205914000814 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 205914000815 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 205914000816 substrate binding site [chemical binding]; other site 205914000817 dimer interface [polypeptide binding]; other site 205914000818 ATP binding site [chemical binding]; other site 205914000819 transcriptional repressor RbsR; Provisional; Region: PRK10423 205914000820 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 205914000821 DNA binding site [nucleotide binding] 205914000822 domain linker motif; other site 205914000823 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 205914000824 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 205914000825 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 205914000826 nucleoid-associated protein NdpA; Validated; Region: PRK00378 205914000827 Nucleoid-associated protein [General function prediction only]; Region: COG3081 205914000828 hypothetical protein; Provisional; Region: PRK13689 205914000829 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 205914000830 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 205914000831 Sulfatase; Region: Sulfatase; cl17466 205914000832 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 205914000833 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 205914000834 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 205914000835 ligand binding site [chemical binding]; other site 205914000836 homodimer interface [polypeptide binding]; other site 205914000837 NAD(P) binding site [chemical binding]; other site 205914000838 trimer interface B [polypeptide binding]; other site 205914000839 trimer interface A [polypeptide binding]; other site 205914000840 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 205914000841 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 205914000842 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 205914000843 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 205914000844 Sulfatase; Region: Sulfatase; cl17466 205914000845 galactokinase; Provisional; Region: PRK05101 205914000846 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 205914000847 active site 205914000848 catalytic residues [active] 205914000849 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 205914000850 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 205914000851 Transporter associated domain; Region: CorC_HlyC; smart01091 205914000852 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 205914000853 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 205914000854 putative active site [active] 205914000855 catalytic triad [active] 205914000856 putative dimer interface [polypeptide binding]; other site 205914000857 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 205914000858 active site 205914000859 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 205914000860 substrate binding site [chemical binding]; other site 205914000861 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 205914000862 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 205914000863 active site 205914000864 HIGH motif; other site 205914000865 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 205914000866 KMSKS motif; other site 205914000867 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 205914000868 tRNA binding surface [nucleotide binding]; other site 205914000869 anticodon binding site; other site 205914000870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 205914000871 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 205914000872 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 205914000873 substrate binding pocket [chemical binding]; other site 205914000874 chain length determination region; other site 205914000875 substrate-Mg2+ binding site; other site 205914000876 catalytic residues [active] 205914000877 aspartate-rich region 1; other site 205914000878 active site lid residues [active] 205914000879 aspartate-rich region 2; other site 205914000880 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 205914000881 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 205914000882 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 205914000883 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 205914000884 EamA-like transporter family; Region: EamA; pfam00892 205914000885 GTPase CgtA; Reviewed; Region: obgE; PRK12298 205914000886 GTP1/OBG; Region: GTP1_OBG; pfam01018 205914000887 Obg GTPase; Region: Obg; cd01898 205914000888 G1 box; other site 205914000889 GTP/Mg2+ binding site [chemical binding]; other site 205914000890 Switch I region; other site 205914000891 G2 box; other site 205914000892 G3 box; other site 205914000893 Switch II region; other site 205914000894 G4 box; other site 205914000895 G5 box; other site 205914000896 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 205914000897 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 205914000898 amidase catalytic site [active] 205914000899 Zn binding residues [ion binding]; other site 205914000900 substrate binding site [chemical binding]; other site 205914000901 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 205914000902 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 205914000903 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914000904 Walker A/P-loop; other site 205914000905 ATP binding site [chemical binding]; other site 205914000906 Q-loop/lid; other site 205914000907 ABC transporter signature motif; other site 205914000908 Walker B; other site 205914000909 D-loop; other site 205914000910 H-loop/switch region; other site 205914000911 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 205914000912 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 205914000913 substrate binding pocket [chemical binding]; other site 205914000914 membrane-bound complex binding site; other site 205914000915 hinge residues; other site 205914000916 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 205914000917 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914000918 dimer interface [polypeptide binding]; other site 205914000919 conserved gate region; other site 205914000920 putative PBP binding loops; other site 205914000921 ABC-ATPase subunit interface; other site 205914000922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914000923 dimer interface [polypeptide binding]; other site 205914000924 conserved gate region; other site 205914000925 putative PBP binding loops; other site 205914000926 ABC-ATPase subunit interface; other site 205914000927 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 205914000928 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 205914000929 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 205914000930 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 205914000931 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 205914000932 active site 205914000933 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 205914000934 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 205914000935 colicin uptake protein TolR; Provisional; Region: PRK11024 205914000936 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 205914000937 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 205914000938 TolA C-terminal; Region: TolA; pfam06519 205914000939 translocation protein TolB; Provisional; Region: tolB; PRK01742 205914000940 TolB amino-terminal domain; Region: TolB_N; pfam04052 205914000941 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 205914000942 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 205914000943 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 205914000944 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205914000945 ligand binding site [chemical binding]; other site 205914000946 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 205914000947 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 205914000948 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 205914000949 PilX N-terminal; Region: PilX_N; pfam14341 205914000950 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 205914000951 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 205914000952 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 205914000953 RuvA N terminal domain; Region: RuvA_N; pfam01330 205914000954 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 205914000955 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 205914000956 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914000957 Walker A motif; other site 205914000958 ATP binding site [chemical binding]; other site 205914000959 Walker B motif; other site 205914000960 arginine finger; other site 205914000961 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 205914000962 Predicted flavoproteins [General function prediction only]; Region: COG2081 205914000963 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 205914000964 Methyltransferase domain; Region: Methyltransf_23; pfam13489 205914000965 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 205914000966 S-adenosylmethionine binding site [chemical binding]; other site 205914000967 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 205914000968 Na binding site [ion binding]; other site 205914000969 ribonuclease G; Provisional; Region: PRK11712 205914000970 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 205914000971 homodimer interface [polypeptide binding]; other site 205914000972 oligonucleotide binding site [chemical binding]; other site 205914000973 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 205914000974 active site 205914000975 protease TldD; Provisional; Region: tldD; PRK10735 205914000976 Methyltransferase domain; Region: Methyltransf_31; pfam13847 205914000977 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 205914000978 S-adenosylmethionine binding site [chemical binding]; other site 205914000979 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 205914000980 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 205914000981 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 205914000982 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 205914000983 active site 205914000984 dimerization interface [polypeptide binding]; other site 205914000985 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 205914000986 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 205914000987 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 205914000988 Rrf2 family protein; Region: rrf2_super; TIGR00738 205914000989 cysteine desulfurase; Provisional; Region: PRK14012 205914000990 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 205914000991 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205914000992 catalytic residue [active] 205914000993 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 205914000994 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 205914000995 trimerization site [polypeptide binding]; other site 205914000996 active site 205914000997 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 205914000998 co-chaperone HscB; Provisional; Region: hscB; PRK01773 205914000999 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 205914001000 HSP70 interaction site [polypeptide binding]; other site 205914001001 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 205914001002 chaperone protein HscA; Provisional; Region: hscA; PRK05183 205914001003 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 205914001004 nucleotide binding site [chemical binding]; other site 205914001005 putative NEF/HSP70 interaction site [polypeptide binding]; other site 205914001006 SBD interface [polypeptide binding]; other site 205914001007 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 205914001008 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 205914001009 catalytic loop [active] 205914001010 iron binding site [ion binding]; other site 205914001011 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 205914001012 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 205914001013 ATP-grasp domain; Region: ATP-grasp_4; cl17255 205914001014 ATP-grasp domain; Region: ATP-grasp_4; cl17255 205914001015 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 205914001016 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 205914001017 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 205914001018 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 205914001019 Nucleoside recognition; Region: Gate; pfam07670 205914001020 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 205914001021 Predicted membrane protein [Function unknown]; Region: COG2364 205914001022 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 205914001023 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 205914001024 putative metal binding site; other site 205914001025 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 205914001026 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 205914001027 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 205914001028 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 205914001029 RimM N-terminal domain; Region: RimM; pfam01782 205914001030 PRC-barrel domain; Region: PRC; pfam05239 205914001031 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 205914001032 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 205914001033 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 205914001034 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 205914001035 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 205914001036 DNA binding site [nucleotide binding] 205914001037 domain linker motif; other site 205914001038 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 205914001039 putative ligand binding site [chemical binding]; other site 205914001040 putative dimerization interface [polypeptide binding]; other site 205914001041 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 205914001042 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 205914001043 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 205914001044 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 205914001045 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 205914001046 domain interface [polypeptide binding]; other site 205914001047 putative active site [active] 205914001048 catalytic site [active] 205914001049 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 205914001050 domain interface [polypeptide binding]; other site 205914001051 putative active site [active] 205914001052 catalytic site [active] 205914001053 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 205914001054 active site 205914001055 catalytic site [active] 205914001056 substrate binding site [chemical binding]; other site 205914001057 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 205914001058 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 205914001059 ligand binding site [chemical binding]; other site 205914001060 flexible hinge region; other site 205914001061 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc; cd04587 205914001062 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 205914001063 metal binding triad; other site 205914001064 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 205914001065 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 205914001066 substrate binding site [chemical binding]; other site 205914001067 ATP binding site [chemical binding]; other site 205914001068 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 205914001069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 205914001070 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 205914001071 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 205914001072 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 205914001073 putative active site [active] 205914001074 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 205914001075 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 205914001076 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 205914001077 S-adenosylmethionine binding site [chemical binding]; other site 205914001078 hypothetical protein; Provisional; Region: PRK11027 205914001079 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 205914001080 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 205914001081 catalytic residues [active] 205914001082 hinge region; other site 205914001083 alpha helical domain; other site 205914001084 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 205914001085 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 205914001086 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 205914001087 GTP binding site; other site 205914001088 Predicted membrane protein [Function unknown]; Region: COG1297 205914001089 putative oligopeptide transporter, OPT family; Region: TIGR00733 205914001090 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 205914001091 Sel1-like repeats; Region: SEL1; smart00671 205914001092 Sel1-like repeats; Region: SEL1; smart00671 205914001093 Sel1-like repeats; Region: SEL1; smart00671 205914001094 Sel1-like repeats; Region: SEL1; smart00671 205914001095 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 205914001096 Sel1-like repeats; Region: SEL1; smart00671 205914001097 Sel1-like repeats; Region: SEL1; smart00671 205914001098 Sel1-like repeats; Region: SEL1; smart00671 205914001099 Sel1-like repeats; Region: SEL1; smart00671 205914001100 Sel1-like repeats; Region: SEL1; smart00671 205914001101 Lipoate synthase [Coenzyme metabolism]; Region: LipA; COG0320 205914001102 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 205914001103 FeS/SAM binding site; other site 205914001104 lipoate-protein ligase B; Provisional; Region: PRK14342 205914001105 hypothetical protein; Provisional; Region: PRK04998 205914001106 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 205914001107 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 205914001108 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 205914001109 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 205914001110 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 205914001111 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 205914001112 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 205914001113 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 205914001114 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 205914001115 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 205914001116 Oligomerisation domain; Region: Oligomerisation; cl00519 205914001117 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 205914001118 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 205914001119 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 205914001120 ABC-ATPase subunit interface; other site 205914001121 dimer interface [polypeptide binding]; other site 205914001122 putative PBP binding regions; other site 205914001123 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 205914001124 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 205914001125 ABC-ATPase subunit interface; other site 205914001126 dimer interface [polypeptide binding]; other site 205914001127 putative PBP binding regions; other site 205914001128 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 205914001129 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 205914001130 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 205914001131 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 205914001132 metal binding site [ion binding]; metal-binding site 205914001133 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 205914001134 DsrC like protein; Region: DsrC; pfam04358 205914001135 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 205914001136 YccA-like proteins; Region: YccA_like; cd10433 205914001137 Mg chelatase-related protein; Region: TIGR00368 205914001138 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 205914001139 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914001140 Walker A motif; other site 205914001141 ATP binding site [chemical binding]; other site 205914001142 Walker B motif; other site 205914001143 arginine finger; other site 205914001144 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 205914001145 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 205914001146 G1 box; other site 205914001147 GTP/Mg2+ binding site [chemical binding]; other site 205914001148 Switch I region; other site 205914001149 G2 box; other site 205914001150 G3 box; other site 205914001151 Switch II region; other site 205914001152 G4 box; other site 205914001153 G5 box; other site 205914001154 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 205914001155 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 205914001156 Substrate binding site; other site 205914001157 Mg++ binding site; other site 205914001158 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 205914001159 active site 205914001160 substrate binding site [chemical binding]; other site 205914001161 CoA binding site [chemical binding]; other site 205914001162 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 205914001163 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 205914001164 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 205914001165 putative active site [active] 205914001166 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 205914001167 putative transporter; Provisional; Region: PRK10484 205914001168 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 205914001169 Na binding site [ion binding]; other site 205914001170 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 205914001171 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 205914001172 Surface antigen; Region: Bac_surface_Ag; pfam01103 205914001173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 205914001174 Family of unknown function (DUF490); Region: DUF490; pfam04357 205914001175 Family of unknown function (DUF490); Region: DUF490; pfam04357 205914001176 exopolyphosphatase; Provisional; Region: PRK10854 205914001177 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 205914001178 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 205914001179 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 205914001180 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 205914001181 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 205914001182 PhoH-like protein; Region: PhoH; pfam02562 205914001183 metal-binding heat shock protein; Provisional; Region: PRK00016 205914001184 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 205914001185 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 205914001186 Helicase; Region: Helicase_RecD; pfam05127 205914001187 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 205914001188 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 205914001189 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 205914001190 Carbon starvation protein CstA; Region: CstA; pfam02554 205914001191 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 205914001192 cell division protein MraZ; Reviewed; Region: PRK00326 205914001193 MraZ protein; Region: MraZ; pfam02381 205914001194 MraZ protein; Region: MraZ; pfam02381 205914001195 MraW methylase family; Region: Methyltransf_5; pfam01795 205914001196 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 205914001197 Cell division protein FtsL; Region: FtsL; pfam04999 205914001198 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 205914001199 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 205914001200 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 205914001201 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 205914001202 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 205914001203 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205914001204 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205914001205 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 205914001206 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 205914001207 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205914001208 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205914001209 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 205914001210 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 205914001211 Mg++ binding site [ion binding]; other site 205914001212 putative catalytic motif [active] 205914001213 putative substrate binding site [chemical binding]; other site 205914001214 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 205914001215 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 205914001216 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205914001217 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205914001218 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 205914001219 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 205914001220 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 205914001221 active site 205914001222 homodimer interface [polypeptide binding]; other site 205914001223 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 205914001224 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 205914001225 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205914001226 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205914001227 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 205914001228 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 205914001229 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 205914001230 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 205914001231 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 205914001232 Cell division protein FtsQ; Region: FtsQ; pfam03799 205914001233 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 205914001234 Cell division protein FtsA; Region: FtsA; smart00842 205914001235 Cell division protein FtsA; Region: FtsA; pfam14450 205914001236 cell division protein FtsZ; Validated; Region: PRK09330 205914001237 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 205914001238 nucleotide binding site [chemical binding]; other site 205914001239 SulA interaction site; other site 205914001240 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 205914001241 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 205914001242 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 205914001243 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 205914001244 Prephenate dehydratase; Region: PDT; pfam00800 205914001245 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 205914001246 putative L-Phe binding site [chemical binding]; other site 205914001247 Outer membrane lipoprotein; Region: YfiO; pfam13525 205914001248 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 205914001249 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 205914001250 RNA binding surface [nucleotide binding]; other site 205914001251 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 205914001252 active site 205914001253 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 205914001254 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 205914001255 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 205914001256 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 205914001257 dimer interface [polypeptide binding]; other site 205914001258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914001259 catalytic residue [active] 205914001260 putative sulfate transport protein CysZ; Validated; Region: PRK04949 205914001261 cell division protein ZipA; Provisional; Region: PRK01741 205914001262 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 205914001263 FtsZ protein binding site [polypeptide binding]; other site 205914001264 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 205914001265 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 205914001266 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 205914001267 ABC transporter; Region: ABC_tran_2; pfam12848 205914001268 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 205914001269 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 205914001270 TrkA-N domain; Region: TrkA_N; pfam02254 205914001271 TrkA-C domain; Region: TrkA_C; pfam02080 205914001272 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 205914001273 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 205914001274 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 205914001275 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 205914001276 nucleotide binding pocket [chemical binding]; other site 205914001277 K-X-D-G motif; other site 205914001278 catalytic site [active] 205914001279 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 205914001280 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 205914001281 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 205914001282 Dimer interface [polypeptide binding]; other site 205914001283 BRCT sequence motif; other site 205914001284 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 205914001285 fructuronate transporter; Provisional; Region: PRK10034; cl15264 205914001286 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 205914001287 ATP-binding site [chemical binding]; other site 205914001288 Gluconate-6-phosphate binding site [chemical binding]; other site 205914001289 Shikimate kinase; Region: SKI; pfam01202 205914001290 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 205914001291 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 205914001292 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 205914001293 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 205914001294 DctM-like transporters; Region: DctM; pfam06808 205914001295 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914001296 trimer interface [polypeptide binding]; other site 205914001297 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914001298 trimer interface [polypeptide binding]; other site 205914001299 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914001300 trimer interface [polypeptide binding]; other site 205914001301 Haemagglutinin; Region: HIM; pfam05662 205914001302 YadA-like C-terminal region; Region: YadA; pfam03895 205914001303 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 205914001304 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 205914001305 G1 box; other site 205914001306 putative GEF interaction site [polypeptide binding]; other site 205914001307 GTP/Mg2+ binding site [chemical binding]; other site 205914001308 Switch I region; other site 205914001309 G2 box; other site 205914001310 G3 box; other site 205914001311 Switch II region; other site 205914001312 G4 box; other site 205914001313 G5 box; other site 205914001314 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 205914001315 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 205914001316 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 205914001317 putative acyl-acceptor binding pocket; other site 205914001318 LexA repressor; Validated; Region: PRK00215 205914001319 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 205914001320 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 205914001321 Catalytic site [active] 205914001322 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 205914001323 active site 205914001324 multimer interface [polypeptide binding]; other site 205914001325 aminopeptidase B; Provisional; Region: PRK05015 205914001326 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 205914001327 interface (dimer of trimers) [polypeptide binding]; other site 205914001328 Substrate-binding/catalytic site; other site 205914001329 Zn-binding sites [ion binding]; other site 205914001330 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 205914001331 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 205914001332 substrate binding site [chemical binding]; other site 205914001333 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 205914001334 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 205914001335 substrate binding site [chemical binding]; other site 205914001336 ligand binding site [chemical binding]; other site 205914001337 tartrate dehydrogenase; Region: TTC; TIGR02089 205914001338 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 205914001339 2-isopropylmalate synthase; Validated; Region: PRK00915 205914001340 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 205914001341 active site 205914001342 catalytic residues [active] 205914001343 metal binding site [ion binding]; metal-binding site 205914001344 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 205914001345 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 205914001346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914001347 Walker A/P-loop; other site 205914001348 ATP binding site [chemical binding]; other site 205914001349 Q-loop/lid; other site 205914001350 ABC transporter signature motif; other site 205914001351 Walker B; other site 205914001352 D-loop; other site 205914001353 H-loop/switch region; other site 205914001354 heme exporter protein CcmB; Region: ccmB; TIGR01190 205914001355 heme exporter protein CcmC; Region: ccmC; TIGR01191 205914001356 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 205914001357 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 205914001358 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 205914001359 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 205914001360 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 205914001361 catalytic residues [active] 205914001362 central insert; other site 205914001363 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 205914001364 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 205914001365 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 205914001366 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 205914001367 TPR motif; other site 205914001368 binding surface 205914001369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 205914001370 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 205914001371 dimer interface [polypeptide binding]; other site 205914001372 phosphorylation site [posttranslational modification] 205914001373 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 205914001374 ATP binding site [chemical binding]; other site 205914001375 Mg2+ binding site [ion binding]; other site 205914001376 G-X-G motif; other site 205914001377 Response regulator receiver domain; Region: Response_reg; pfam00072 205914001378 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 205914001379 active site 205914001380 phosphorylation site [posttranslational modification] 205914001381 intermolecular recognition site; other site 205914001382 dimerization interface [polypeptide binding]; other site 205914001383 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 205914001384 putative binding surface; other site 205914001385 active site 205914001386 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 205914001387 Helix-turn-helix domain; Region: HTH_25; pfam13413 205914001388 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 205914001389 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 205914001390 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 205914001391 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 205914001392 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 205914001393 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 205914001394 dimer interface [polypeptide binding]; other site 205914001395 motif 1; other site 205914001396 active site 205914001397 motif 2; other site 205914001398 motif 3; other site 205914001399 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 205914001400 anticodon binding site; other site 205914001401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 205914001402 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 205914001403 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 205914001404 binding surface 205914001405 TPR motif; other site 205914001406 succinic semialdehyde dehydrogenase; Region: PLN02278 205914001407 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 205914001408 tetramerization interface [polypeptide binding]; other site 205914001409 NAD(P) binding site [chemical binding]; other site 205914001410 catalytic residues [active] 205914001411 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 205914001412 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 205914001413 putative catalytic cysteine [active] 205914001414 Predicted membrane protein [Function unknown]; Region: COG2860 205914001415 UPF0126 domain; Region: UPF0126; pfam03458 205914001416 UPF0126 domain; Region: UPF0126; pfam03458 205914001417 thymidine kinase; Provisional; Region: PRK04296 205914001418 UGMP family protein; Validated; Region: PRK09604 205914001419 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 205914001420 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 205914001421 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 205914001422 DNA protecting protein DprA; Region: dprA; TIGR00732 205914001423 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 205914001424 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 205914001425 S-adenosylmethionine binding site [chemical binding]; other site 205914001426 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 205914001427 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 205914001428 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 205914001429 P loop; other site 205914001430 GTP binding site [chemical binding]; other site 205914001431 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 205914001432 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 205914001433 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 205914001434 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 205914001435 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 205914001436 G1 box; other site 205914001437 putative GEF interaction site [polypeptide binding]; other site 205914001438 GTP/Mg2+ binding site [chemical binding]; other site 205914001439 Switch I region; other site 205914001440 G2 box; other site 205914001441 G3 box; other site 205914001442 Switch II region; other site 205914001443 G4 box; other site 205914001444 G5 box; other site 205914001445 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 205914001446 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 205914001447 glutamine synthetase; Provisional; Region: glnA; PRK09469 205914001448 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 205914001449 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 205914001450 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 205914001451 HTH domain; Region: HTH_11; cl17392 205914001452 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 205914001453 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 205914001454 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 205914001455 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 205914001456 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 205914001457 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 205914001458 active site 205914001459 GMP synthase; Reviewed; Region: guaA; PRK00074 205914001460 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 205914001461 AMP/PPi binding site [chemical binding]; other site 205914001462 candidate oxyanion hole; other site 205914001463 catalytic triad [active] 205914001464 potential glutamine specificity residues [chemical binding]; other site 205914001465 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 205914001466 ATP Binding subdomain [chemical binding]; other site 205914001467 Ligand Binding sites [chemical binding]; other site 205914001468 Dimerization subdomain; other site 205914001469 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 205914001470 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 205914001471 non-specific DNA binding site [nucleotide binding]; other site 205914001472 salt bridge; other site 205914001473 sequence-specific DNA binding site [nucleotide binding]; other site 205914001474 hypothetical protein; Validated; Region: PRK07080 205914001475 Helix-turn-helix domain; Region: HTH_17; cl17695 205914001476 integrase; Provisional; Region: int; PHA02601 205914001477 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 205914001478 Int/Topo IB signature motif; other site 205914001479 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 205914001480 nucleotide binding site [chemical binding]; other site 205914001481 Virulence-associated protein E; Region: VirE; pfam05272 205914001482 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 205914001483 non-specific DNA binding site [nucleotide binding]; other site 205914001484 salt bridge; other site 205914001485 sequence-specific DNA binding site [nucleotide binding]; other site 205914001486 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 205914001487 Methyltransferase domain; Region: Methyltransf_26; pfam13659 205914001488 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 205914001489 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 205914001490 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 205914001491 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 205914001492 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 205914001493 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 205914001494 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 205914001495 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 205914001496 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 205914001497 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 205914001498 uracil binding [chemical binding]; other site 205914001499 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 205914001500 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 205914001501 P-loop; other site 205914001502 Magnesium ion binding site [ion binding]; other site 205914001503 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 205914001504 FIC domain binding interface [polypeptide binding]; other site 205914001505 Fic/DOC family; Region: Fic; pfam02661 205914001506 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 205914001507 catalytic residues [active] 205914001508 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 205914001509 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 205914001510 P-loop; other site 205914001511 Magnesium ion binding site [ion binding]; other site 205914001512 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 205914001513 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 205914001514 catalytic residues [active] 205914001515 catalytic nucleophile [active] 205914001516 Presynaptic Site I dimer interface [polypeptide binding]; other site 205914001517 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 205914001518 Synaptic Flat tetramer interface [polypeptide binding]; other site 205914001519 Synaptic Site I dimer interface [polypeptide binding]; other site 205914001520 DNA binding site [nucleotide binding] 205914001521 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 205914001522 DNA-binding interface [nucleotide binding]; DNA binding site 205914001523 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 205914001524 binding surface 205914001525 TPR motif; other site 205914001526 TPR repeat; Region: TPR_11; pfam13414 205914001527 Protein of unknown function (DUF560); Region: DUF560; pfam04575 205914001528 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 205914001529 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 205914001530 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 205914001531 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 205914001532 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 205914001533 heat shock protein 90; Provisional; Region: PRK05218 205914001534 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 205914001535 ATP binding site [chemical binding]; other site 205914001536 Mg2+ binding site [ion binding]; other site 205914001537 G-X-G motif; other site 205914001538 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 205914001539 Putative transmembrane protein 170; Region: Tmemb_170; pfam10190 205914001540 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 205914001541 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 205914001542 ligand binding site [chemical binding]; other site 205914001543 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 205914001544 active site 205914001545 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 205914001546 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 205914001547 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 205914001548 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 205914001549 active site 205914001550 HIGH motif; other site 205914001551 KMSKS motif; other site 205914001552 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 205914001553 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 205914001554 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 205914001555 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 205914001556 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 205914001557 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 205914001558 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 205914001559 CoA-binding site [chemical binding]; other site 205914001560 ATP-binding [chemical binding]; other site 205914001561 Domain of unknown function (DUF329); Region: DUF329; pfam03884 205914001562 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 205914001563 amino acid carrier protein; Region: agcS; TIGR00835 205914001564 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 205914001565 30S subunit binding site; other site 205914001566 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205914001567 active site 205914001568 superoxide dismutase; Provisional; Region: PRK10925 205914001569 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 205914001570 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 205914001571 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 205914001572 Malic enzyme, N-terminal domain; Region: malic; pfam00390 205914001573 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 205914001574 putative NAD(P) binding site [chemical binding]; other site 205914001575 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 205914001576 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 205914001577 Aspartase; Region: Aspartase; cd01357 205914001578 active sites [active] 205914001579 tetramer interface [polypeptide binding]; other site 205914001580 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 205914001581 oligomerisation interface [polypeptide binding]; other site 205914001582 mobile loop; other site 205914001583 roof hairpin; other site 205914001584 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 205914001585 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 205914001586 ring oligomerisation interface [polypeptide binding]; other site 205914001587 ATP/Mg binding site [chemical binding]; other site 205914001588 stacking interactions; other site 205914001589 hinge regions; other site 205914001590 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 205914001591 dimerization interface [polypeptide binding]; other site 205914001592 DNA binding site [nucleotide binding] 205914001593 corepressor binding sites; other site 205914001594 Der GTPase activator; Provisional; Region: PRK05244 205914001595 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 205914001596 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 205914001597 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 205914001598 FeS/SAM binding site; other site 205914001599 HemN C-terminal domain; Region: HemN_C; pfam06969 205914001600 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 205914001601 SmpB-tmRNA interface; other site 205914001602 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 205914001603 cystathionine beta-lyase; Provisional; Region: PRK08114 205914001604 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 205914001605 homodimer interface [polypeptide binding]; other site 205914001606 substrate-cofactor binding pocket; other site 205914001607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914001608 catalytic residue [active] 205914001609 peroxidase; Provisional; Region: PRK15000 205914001610 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 205914001611 dimer interface [polypeptide binding]; other site 205914001612 decamer (pentamer of dimers) interface [polypeptide binding]; other site 205914001613 catalytic triad [active] 205914001614 peroxidatic and resolving cysteines [active] 205914001615 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 205914001616 16S/18S rRNA binding site [nucleotide binding]; other site 205914001617 S13e-L30e interaction site [polypeptide binding]; other site 205914001618 25S rRNA binding site [nucleotide binding]; other site 205914001619 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914001620 trimer interface [polypeptide binding]; other site 205914001621 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914001622 trimer interface [polypeptide binding]; other site 205914001623 Haemagglutinin; Region: HIM; pfam05662 205914001624 YadA-like C-terminal region; Region: YadA; pfam03895 205914001625 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 205914001626 DALR anticodon binding domain; Region: DALR_1; pfam05746 205914001627 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 205914001628 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 205914001629 ligand binding site [chemical binding]; other site 205914001630 active site 205914001631 UGI interface [polypeptide binding]; other site 205914001632 catalytic site [active] 205914001633 hypothetical protein; Validated; Region: PRK02101 205914001634 Cation efflux family; Region: Cation_efflux; cl00316 205914001635 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 205914001636 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 205914001637 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 205914001638 active site 205914001639 ADP/pyrophosphate binding site [chemical binding]; other site 205914001640 dimerization interface [polypeptide binding]; other site 205914001641 allosteric effector site; other site 205914001642 fructose-1,6-bisphosphate binding site; other site 205914001643 Probable transposase; Region: OrfB_IS605; pfam01385 205914001644 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 205914001645 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 205914001646 FtsH protease regulator HflK; Provisional; Region: PRK10930 205914001647 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 205914001648 FtsH protease regulator HflC; Provisional; Region: PRK11029 205914001649 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 205914001650 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 205914001651 Found in ATP-dependent protease La (LON); Region: LON; smart00464 205914001652 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914001653 Walker A motif; other site 205914001654 ATP binding site [chemical binding]; other site 205914001655 Walker B motif; other site 205914001656 arginine finger; other site 205914001657 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 205914001658 DNA polymerase III subunit psi; Validated; Region: PRK06856 205914001659 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 205914001660 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 205914001661 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 205914001662 dihydrodipicolinate synthase; Region: dapA; TIGR00674 205914001663 dimer interface [polypeptide binding]; other site 205914001664 active site 205914001665 catalytic residue [active] 205914001666 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 205914001667 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 205914001668 catalytic triad [active] 205914001669 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 205914001670 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 205914001671 homodimer interface [polypeptide binding]; other site 205914001672 substrate-cofactor binding pocket; other site 205914001673 catalytic residue [active] 205914001674 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 205914001675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 205914001676 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 205914001677 dimerization interface [polypeptide binding]; other site 205914001678 substrate binding pocket [chemical binding]; other site 205914001679 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 205914001680 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 205914001681 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 205914001682 Part of AAA domain; Region: AAA_19; pfam13245 205914001683 Family description; Region: UvrD_C_2; pfam13538 205914001684 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 205914001685 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 205914001686 putative active site [active] 205914001687 putative metal binding site [ion binding]; other site 205914001688 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 205914001689 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 205914001690 putative acyl-acceptor binding pocket; other site 205914001691 FtsI repressor; Provisional; Region: PRK10883 205914001692 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 205914001693 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 205914001694 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 205914001695 dimer interface [polypeptide binding]; other site 205914001696 catalytic site [active] 205914001697 putative active site [active] 205914001698 putative substrate binding site [chemical binding]; other site 205914001699 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 205914001700 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 205914001701 dimer interface [polypeptide binding]; other site 205914001702 active site 205914001703 metal binding site [ion binding]; metal-binding site 205914001704 glutathione binding site [chemical binding]; other site 205914001705 GTP-binding protein YchF; Reviewed; Region: PRK09601 205914001706 YchF GTPase; Region: YchF; cd01900 205914001707 G1 box; other site 205914001708 GTP/Mg2+ binding site [chemical binding]; other site 205914001709 Switch I region; other site 205914001710 G2 box; other site 205914001711 Switch II region; other site 205914001712 G3 box; other site 205914001713 G4 box; other site 205914001714 G5 box; other site 205914001715 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 205914001716 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 205914001717 putative active site [active] 205914001718 catalytic residue [active] 205914001719 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 205914001720 putative coenzyme Q binding site [chemical binding]; other site 205914001721 hypothetical protein; Validated; Region: PRK01777 205914001722 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 205914001723 nudix motif; other site 205914001724 hypothetical protein; Validated; Region: PRK00110 205914001725 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 205914001726 active site 205914001727 putative DNA-binding cleft [nucleotide binding]; other site 205914001728 dimer interface [polypeptide binding]; other site 205914001729 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 205914001730 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 205914001731 active site 205914001732 catalytic site [active] 205914001733 metal binding site [ion binding]; metal-binding site 205914001734 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 205914001735 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 205914001736 putative substrate translocation pore; other site 205914001737 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 205914001738 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 205914001739 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 205914001740 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 205914001741 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 205914001742 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 205914001743 Cysteine-rich domain; Region: CCG; pfam02754 205914001744 Cysteine-rich domain; Region: CCG; pfam02754 205914001745 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 205914001746 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 205914001747 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 205914001748 multifunctional aminopeptidase A; Provisional; Region: PRK00913 205914001749 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 205914001750 interface (dimer of trimers) [polypeptide binding]; other site 205914001751 Substrate-binding/catalytic site; other site 205914001752 Zn-binding sites [ion binding]; other site 205914001753 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 205914001754 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 205914001755 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 205914001756 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 205914001757 integrase; Provisional; Region: PRK09692 205914001758 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 205914001759 active site 205914001760 Int/Topo IB signature motif; other site 205914001761 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 205914001762 Helix-turn-helix domain; Region: HTH_39; pfam14090 205914001763 Ash protein family; Region: Phage_ASH; pfam10554 205914001764 D5 N terminal like; Region: D5_N; smart00885 205914001765 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 205914001766 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 205914001767 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 205914001768 non-specific DNA binding site [nucleotide binding]; other site 205914001769 salt bridge; other site 205914001770 sequence-specific DNA binding site [nucleotide binding]; other site 205914001771 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 205914001772 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 205914001773 hypothetical protein; Provisional; Region: PRK11212 205914001774 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 205914001775 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 205914001776 S-adenosylmethionine binding site [chemical binding]; other site 205914001777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 205914001778 SCP-2 sterol transfer family; Region: SCP2; pfam02036 205914001779 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 205914001780 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 205914001781 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 205914001782 sec-independent translocase; Provisional; Region: PRK01770 205914001783 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 205914001784 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 205914001785 dimer interface [polypeptide binding]; other site 205914001786 allosteric magnesium binding site [ion binding]; other site 205914001787 active site 205914001788 aspartate-rich active site metal binding site; other site 205914001789 Schiff base residues; other site 205914001790 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 205914001791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205914001792 ATP-grasp domain; Region: ATP-grasp; pfam02222 205914001793 S-ribosylhomocysteinase; Provisional; Region: PRK02260 205914001794 transketolase; Reviewed; Region: PRK12753 205914001795 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 205914001796 TPP-binding site [chemical binding]; other site 205914001797 dimer interface [polypeptide binding]; other site 205914001798 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 205914001799 PYR/PP interface [polypeptide binding]; other site 205914001800 dimer interface [polypeptide binding]; other site 205914001801 TPP binding site [chemical binding]; other site 205914001802 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 205914001803 CTP synthetase; Validated; Region: pyrG; PRK05380 205914001804 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 205914001805 Catalytic site [active] 205914001806 active site 205914001807 UTP binding site [chemical binding]; other site 205914001808 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 205914001809 active site 205914001810 putative oxyanion hole; other site 205914001811 catalytic triad [active] 205914001812 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 205914001813 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 205914001814 integron integrase; Region: integrase_gron; TIGR02249 205914001815 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 205914001816 Int/Topo IB signature motif; other site 205914001817 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 205914001818 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 205914001819 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 205914001820 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 205914001821 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 205914001822 ATP binding site [chemical binding]; other site 205914001823 putative Mg++ binding site [ion binding]; other site 205914001824 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 205914001825 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 205914001826 enolase; Provisional; Region: eno; PRK00077 205914001827 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 205914001828 dimer interface [polypeptide binding]; other site 205914001829 metal binding site [ion binding]; metal-binding site 205914001830 substrate binding pocket [chemical binding]; other site 205914001831 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 205914001832 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 205914001833 substrate binding site [chemical binding]; other site 205914001834 oxyanion hole (OAH) forming residues; other site 205914001835 trimer interface [polypeptide binding]; other site 205914001836 O-succinylbenzoate synthase; Provisional; Region: PRK05105 205914001837 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 205914001838 active site 205914001839 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 205914001840 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 205914001841 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 205914001842 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 205914001843 FMN binding site [chemical binding]; other site 205914001844 active site 205914001845 catalytic residues [active] 205914001846 substrate binding site [chemical binding]; other site 205914001847 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 205914001848 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 205914001849 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 205914001850 Na binding site [ion binding]; other site 205914001851 Protein of unknown function (DUF997); Region: DUF997; pfam06196 205914001852 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 205914001853 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 205914001854 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 205914001855 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 205914001856 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 205914001857 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 205914001858 carboxyltransferase (CT) interaction site; other site 205914001859 biotinylation site [posttranslational modification]; other site 205914001860 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 205914001861 Dehydroquinase class II; Region: DHquinase_II; pfam01220 205914001862 active site 205914001863 trimer interface [polypeptide binding]; other site 205914001864 dimer interface [polypeptide binding]; other site 205914001865 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 205914001866 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 205914001867 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 205914001868 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 205914001869 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 205914001870 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 205914001871 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 205914001872 putative acyl-acceptor binding pocket; other site 205914001873 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 205914001874 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 205914001875 putative ribose interaction site [chemical binding]; other site 205914001876 putative ADP binding site [chemical binding]; other site 205914001877 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 205914001878 active site 205914001879 HIGH motif; other site 205914001880 nucleotide binding site [chemical binding]; other site 205914001881 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 205914001882 ArsC family; Region: ArsC; pfam03960 205914001883 putative catalytic residues [active] 205914001884 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 205914001885 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 205914001886 metal binding site [ion binding]; metal-binding site 205914001887 dimer interface [polypeptide binding]; other site 205914001888 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 205914001889 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 205914001890 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 205914001891 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 205914001892 dimer interface [polypeptide binding]; other site 205914001893 ADP-ribose binding site [chemical binding]; other site 205914001894 active site 205914001895 nudix motif; other site 205914001896 metal binding site [ion binding]; metal-binding site 205914001897 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 205914001898 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 205914001899 active site 205914001900 metal binding site [ion binding]; metal-binding site 205914001901 hexamer interface [polypeptide binding]; other site 205914001902 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 205914001903 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 205914001904 N-terminal plug; other site 205914001905 ligand-binding site [chemical binding]; other site 205914001906 Probable transposase; Region: OrfB_IS605; pfam01385 205914001907 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 205914001908 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 205914001909 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205914001910 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 205914001911 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205914001912 TM-ABC transporter signature motif; other site 205914001913 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 205914001914 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 205914001915 Walker A/P-loop; other site 205914001916 ATP binding site [chemical binding]; other site 205914001917 Q-loop/lid; other site 205914001918 ABC transporter signature motif; other site 205914001919 Walker B; other site 205914001920 D-loop; other site 205914001921 H-loop/switch region; other site 205914001922 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 205914001923 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 205914001924 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 205914001925 putative ligand binding site [chemical binding]; other site 205914001926 xylose isomerase; Provisional; Region: PRK05474 205914001927 xylose isomerase; Region: xylose_isom_A; TIGR02630 205914001928 xylulokinase; Provisional; Region: PRK15027 205914001929 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 205914001930 N- and C-terminal domain interface [polypeptide binding]; other site 205914001931 active site 205914001932 MgATP binding site [chemical binding]; other site 205914001933 catalytic site [active] 205914001934 metal binding site [ion binding]; metal-binding site 205914001935 xylulose binding site [chemical binding]; other site 205914001936 homodimer interface [polypeptide binding]; other site 205914001937 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914001938 trimer interface [polypeptide binding]; other site 205914001939 Haemagglutinin; Region: HIM; pfam05662 205914001940 YadA-like C-terminal region; Region: YadA; pfam03895 205914001941 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 205914001942 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 205914001943 Walker A/P-loop; other site 205914001944 ATP binding site [chemical binding]; other site 205914001945 Q-loop/lid; other site 205914001946 ABC transporter signature motif; other site 205914001947 Walker B; other site 205914001948 D-loop; other site 205914001949 H-loop/switch region; other site 205914001950 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 205914001951 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 205914001952 Walker A/P-loop; other site 205914001953 ATP binding site [chemical binding]; other site 205914001954 Q-loop/lid; other site 205914001955 ABC transporter signature motif; other site 205914001956 Walker B; other site 205914001957 D-loop; other site 205914001958 H-loop/switch region; other site 205914001959 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 205914001960 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 205914001961 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914001962 putative PBP binding loops; other site 205914001963 ABC-ATPase subunit interface; other site 205914001964 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 205914001965 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914001966 dimer interface [polypeptide binding]; other site 205914001967 conserved gate region; other site 205914001968 putative PBP binding loops; other site 205914001969 ABC-ATPase subunit interface; other site 205914001970 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 205914001971 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 205914001972 peptide binding site [polypeptide binding]; other site 205914001973 YcjX-like family, DUF463; Region: DUF463; pfam04317 205914001974 hypothetical protein; Provisional; Region: PRK05415 205914001975 Domain of unknown function (DUF697); Region: DUF697; cl12064 205914001976 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 205914001977 GSH binding site [chemical binding]; other site 205914001978 catalytic residues [active] 205914001979 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 205914001980 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 205914001981 CAP-like domain; other site 205914001982 active site 205914001983 primary dimer interface [polypeptide binding]; other site 205914001984 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205914001985 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 205914001986 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 205914001987 ATP binding site [chemical binding]; other site 205914001988 Mg2+ binding site [ion binding]; other site 205914001989 G-X-G motif; other site 205914001990 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 205914001991 anchoring element; other site 205914001992 dimer interface [polypeptide binding]; other site 205914001993 ATP binding site [chemical binding]; other site 205914001994 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 205914001995 active site 205914001996 putative metal-binding site [ion binding]; other site 205914001997 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 205914001998 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 205914001999 muropeptide transporter; Reviewed; Region: ampG; PRK11902 205914002000 putative substrate translocation pore; other site 205914002001 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 205914002002 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914002003 trimer interface [polypeptide binding]; other site 205914002004 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914002005 trimer interface [polypeptide binding]; other site 205914002006 YadA-like C-terminal region; Region: YadA; pfam03895 205914002007 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 205914002008 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 205914002009 active site 205914002010 catalytic site [active] 205914002011 substrate binding site [chemical binding]; other site 205914002012 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 205914002013 RNA/DNA hybrid binding site [nucleotide binding]; other site 205914002014 active site 205914002015 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 205914002016 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 205914002017 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 205914002018 Protein of unknown function (DUF986); Region: DUF986; pfam06173 205914002019 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 205914002020 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 205914002021 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 205914002022 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 205914002023 active pocket/dimerization site; other site 205914002024 active site 205914002025 phosphorylation site [posttranslational modification] 205914002026 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 205914002027 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 205914002028 active site 205914002029 phosphorylation site [posttranslational modification] 205914002030 hypothetical protein; Provisional; Region: PRK05423 205914002031 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 as...; Region: PSAT_like; cd00611 205914002032 homodimer interface [polypeptide binding]; other site 205914002033 substrate-cofactor binding pocket; other site 205914002034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914002035 catalytic residue [active] 205914002036 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 205914002037 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 205914002038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914002039 homodimer interface [polypeptide binding]; other site 205914002040 catalytic residue [active] 205914002041 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 205914002042 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 205914002043 hinge; other site 205914002044 active site 205914002045 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 205914002046 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 205914002047 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 205914002048 HlyD family secretion protein; Region: HlyD_3; pfam13437 205914002049 multidrug efflux protein; Reviewed; Region: PRK09579 205914002050 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 205914002051 Putative serine esterase (DUF676); Region: DUF676; pfam05057 205914002052 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 205914002053 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 205914002054 dimer interface [polypeptide binding]; other site 205914002055 tetramer interface [polypeptide binding]; other site 205914002056 PYR/PP interface [polypeptide binding]; other site 205914002057 TPP binding site [chemical binding]; other site 205914002058 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 205914002059 TPP-binding site; other site 205914002060 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 205914002061 chorismate binding enzyme; Region: Chorismate_bind; cl10555 205914002062 aminotransferase AlaT; Validated; Region: PRK09265 205914002063 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 205914002064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914002065 homodimer interface [polypeptide binding]; other site 205914002066 catalytic residue [active] 205914002067 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 205914002068 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 205914002069 non-specific DNA binding site [nucleotide binding]; other site 205914002070 salt bridge; other site 205914002071 sequence-specific DNA binding site [nucleotide binding]; other site 205914002072 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 205914002073 Protein of unknown function (DUF560); Region: DUF560; pfam04575 205914002074 fatty acid metabolism regulator; Provisional; Region: PRK04984 205914002075 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205914002076 DNA-binding site [nucleotide binding]; DNA binding site 205914002077 FadR C-terminal domain; Region: FadR_C; pfam07840 205914002078 disulfide bond formation protein B; Provisional; Region: PRK01749 205914002079 Integral membrane protein TerC family; Region: TerC; cl10468 205914002080 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 205914002081 VWA subfamily: 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...; Region: vWA_subfamily; cd01464 205914002082 metal ion-dependent adhesion site (MIDAS); other site 205914002083 VWA subfamily: 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...; Region: vWA_subfamily; cd01464 205914002084 metal ion-dependent adhesion site (MIDAS); other site 205914002085 VWA subfamily: 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...; Region: vWA_subfamily; cd01464 205914002086 metal ion-dependent adhesion site (MIDAS); other site 205914002087 Protein phosphatase 2C; Region: PP2C_2; pfam13672 205914002088 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 205914002089 substrate binding site [chemical binding]; other site 205914002090 activation loop (A-loop); other site 205914002091 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 205914002092 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 205914002093 putative metal binding site [ion binding]; other site 205914002094 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 205914002095 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 205914002096 putative metal binding site [ion binding]; other site 205914002097 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 205914002098 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 205914002099 putative metal binding site [ion binding]; other site 205914002100 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 205914002101 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 205914002102 Ligand binding site; other site 205914002103 metal-binding site 205914002104 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 205914002105 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; cl01298 205914002106 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 205914002107 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 205914002108 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 205914002109 Walker A/P-loop; other site 205914002110 ATP binding site [chemical binding]; other site 205914002111 Q-loop/lid; other site 205914002112 ABC transporter signature motif; other site 205914002113 Walker B; other site 205914002114 D-loop; other site 205914002115 H-loop/switch region; other site 205914002116 TOBE domain; Region: TOBE_2; pfam08402 205914002117 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 205914002118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914002119 dimer interface [polypeptide binding]; other site 205914002120 conserved gate region; other site 205914002121 putative PBP binding loops; other site 205914002122 ABC-ATPase subunit interface; other site 205914002123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914002124 dimer interface [polypeptide binding]; other site 205914002125 conserved gate region; other site 205914002126 putative PBP binding loops; other site 205914002127 ABC-ATPase subunit interface; other site 205914002128 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 205914002129 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 205914002130 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 205914002131 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 205914002132 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 205914002133 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 205914002134 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 205914002135 Sugar specificity; other site 205914002136 Pyrimidine base specificity; other site 205914002137 ATP-binding site [chemical binding]; other site 205914002138 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 205914002139 trimer interface [polypeptide binding]; other site 205914002140 active site 205914002141 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 205914002142 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 205914002143 Sodium Bile acid symporter family; Region: SBF; pfam01758 205914002144 adenylate kinase; Reviewed; Region: adk; PRK00279 205914002145 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 205914002146 AMP-binding site [chemical binding]; other site 205914002147 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 205914002148 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 205914002149 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 205914002150 dimer interface [polypeptide binding]; other site 205914002151 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 205914002152 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 205914002153 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 205914002154 recombination and repair protein; Provisional; Region: PRK10869 205914002155 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 205914002156 Walker A/P-loop; other site 205914002157 ATP binding site [chemical binding]; other site 205914002158 Q-loop/lid; other site 205914002159 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 205914002160 ABC transporter signature motif; other site 205914002161 Walker B; other site 205914002162 D-loop; other site 205914002163 H-loop/switch region; other site 205914002164 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 205914002165 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 205914002166 homotrimer interaction site [polypeptide binding]; other site 205914002167 putative active site [active] 205914002168 YwiC-like protein; Region: YwiC; pfam14256 205914002169 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 205914002170 RimK-like ATP-grasp domain; Region: RimK; pfam08443 205914002171 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 205914002172 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 205914002173 Uncharacterized conserved protein [Function unknown]; Region: COG2835 205914002174 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 205914002175 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 205914002176 Ligand binding site; other site 205914002177 oligomer interface; other site 205914002178 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 205914002179 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 205914002180 GIY-YIG motif/motif A; other site 205914002181 active site 205914002182 catalytic site [active] 205914002183 putative DNA binding site [nucleotide binding]; other site 205914002184 metal binding site [ion binding]; metal-binding site 205914002185 UvrB/uvrC motif; Region: UVR; pfam02151 205914002186 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 205914002187 TM2 domain; Region: TM2; pfam05154 205914002188 exoribonuclease II; Provisional; Region: PRK05054 205914002189 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 205914002190 RNB domain; Region: RNB; pfam00773 205914002191 S1 RNA binding domain; Region: S1; pfam00575 205914002192 RNA binding site [nucleotide binding]; other site 205914002193 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 205914002194 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 205914002195 NAD binding site [chemical binding]; other site 205914002196 homotetramer interface [polypeptide binding]; other site 205914002197 homodimer interface [polypeptide binding]; other site 205914002198 substrate binding site [chemical binding]; other site 205914002199 active site 205914002200 Uncharacterized conserved protein [Function unknown]; Region: COG0327 205914002201 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 205914002202 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 205914002203 Uncharacterized conserved protein [Function unknown]; Region: COG4121 205914002204 hydroxyglutarate oxidase; Provisional; Region: PRK11728 205914002205 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 205914002206 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 205914002207 dimer interface [polypeptide binding]; other site 205914002208 active site 205914002209 Transposase IS200 like; Region: Y1_Tnp; pfam01797 205914002210 Probable transposase; Region: OrfB_IS605; pfam01385 205914002211 Probable transposase; Region: OrfB_IS605; pfam01385 205914002212 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 205914002213 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 205914002214 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 205914002215 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 205914002216 non-specific DNA binding site [nucleotide binding]; other site 205914002217 salt bridge; other site 205914002218 sequence-specific DNA binding site [nucleotide binding]; other site 205914002219 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 205914002220 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 205914002221 prephenate dehydrogenase; Validated; Region: PRK08507 205914002222 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 205914002223 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 205914002224 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 205914002225 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 205914002226 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 205914002227 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 205914002228 motif II; other site 205914002229 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 205914002230 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 205914002231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205914002232 NAD(P) binding site [chemical binding]; other site 205914002233 active site 205914002234 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 205914002235 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 205914002236 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 205914002237 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 205914002238 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 205914002239 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 205914002240 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 205914002241 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 205914002242 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 205914002243 proline aminopeptidase P II; Provisional; Region: PRK10879 205914002244 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 205914002245 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 205914002246 active site 205914002247 hypothetical protein; Reviewed; Region: PRK01736 205914002248 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 205914002249 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 205914002250 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 205914002251 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 205914002252 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 205914002253 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 205914002254 motif II; other site 205914002255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 205914002256 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 205914002257 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 205914002258 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 205914002259 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 205914002260 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 205914002261 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 205914002262 argininosuccinate lyase; Provisional; Region: PRK04833 205914002263 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 205914002264 active sites [active] 205914002265 tetramer interface [polypeptide binding]; other site 205914002266 hypothetical protein; Reviewed; Region: PRK01637 205914002267 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 205914002268 putative active site [active] 205914002269 dimerization interface [polypeptide binding]; other site 205914002270 putative tRNAtyr binding site [nucleotide binding]; other site 205914002271 N-acetylneuraminate lyase; Provisional; Region: PRK04147 205914002272 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 205914002273 inhibitor site; inhibition site 205914002274 active site 205914002275 dimer interface [polypeptide binding]; other site 205914002276 catalytic residue [active] 205914002277 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 205914002278 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 205914002279 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 205914002280 putative active site [active] 205914002281 Domain of unknown function (DUF386); Region: DUF386; pfam04074 205914002282 N-acetylmannosamine kinase; Provisional; Region: PRK05082 205914002283 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 205914002284 nucleotide binding site [chemical binding]; other site 205914002285 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 205914002286 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 205914002287 putative active site cavity [active] 205914002288 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 205914002289 active site 205914002290 catalytic triad [active] 205914002291 oxyanion hole [active] 205914002292 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 205914002293 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 205914002294 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 205914002295 DctM-like transporters; Region: DctM; pfam06808 205914002296 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 205914002297 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 205914002298 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 205914002299 RNase E interface [polypeptide binding]; other site 205914002300 trimer interface [polypeptide binding]; other site 205914002301 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 205914002302 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 205914002303 RNase E interface [polypeptide binding]; other site 205914002304 trimer interface [polypeptide binding]; other site 205914002305 active site 205914002306 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 205914002307 putative nucleic acid binding region [nucleotide binding]; other site 205914002308 G-X-X-G motif; other site 205914002309 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 205914002310 RNA binding site [nucleotide binding]; other site 205914002311 domain interface; other site 205914002312 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 205914002313 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 205914002314 ATP binding site [chemical binding]; other site 205914002315 Mg++ binding site [ion binding]; other site 205914002316 motif III; other site 205914002317 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 205914002318 nucleotide binding region [chemical binding]; other site 205914002319 ATP-binding site [chemical binding]; other site 205914002320 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 205914002321 putative RNA binding site [nucleotide binding]; other site 205914002322 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 205914002323 rRNA binding site [nucleotide binding]; other site 205914002324 predicted 30S ribosome binding site; other site 205914002325 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 205914002326 ligand binding site; other site 205914002327 tetramer interface; other site 205914002328 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 205914002329 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 205914002330 NAD binding site [chemical binding]; other site 205914002331 substrate binding site [chemical binding]; other site 205914002332 homodimer interface [polypeptide binding]; other site 205914002333 active site 205914002334 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 205914002335 L-lactate permease; Region: Lactate_perm; cl00701 205914002336 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 205914002337 Cysteine-rich domain; Region: CCG; pfam02754 205914002338 Cysteine-rich domain; Region: CCG; pfam02754 205914002339 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 205914002340 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 205914002341 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 205914002342 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 205914002343 Uncharacterized conserved protein [Function unknown]; Region: COG1556 205914002344 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 205914002345 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 205914002346 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 205914002347 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 205914002348 DsbD alpha interface [polypeptide binding]; other site 205914002349 catalytic residues [active] 205914002350 two-component response regulator; Provisional; Region: PRK11173 205914002351 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 205914002352 active site 205914002353 phosphorylation site [posttranslational modification] 205914002354 intermolecular recognition site; other site 205914002355 dimerization interface [polypeptide binding]; other site 205914002356 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 205914002357 DNA binding site [nucleotide binding] 205914002358 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 205914002359 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 205914002360 RNA binding surface [nucleotide binding]; other site 205914002361 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 205914002362 active site 205914002363 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 205914002364 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 205914002365 homodimer interface [polypeptide binding]; other site 205914002366 oligonucleotide binding site [chemical binding]; other site 205914002367 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 205914002368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 205914002369 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 205914002370 Probable transposase; Region: OrfB_IS605; pfam01385 205914002371 Probable transposase; Region: OrfB_IS605; pfam01385 205914002372 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 205914002373 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 205914002374 DNA polymerase I; Provisional; Region: PRK05755 205914002375 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 205914002376 active site 205914002377 metal binding site 1 [ion binding]; metal-binding site 205914002378 putative 5' ssDNA interaction site; other site 205914002379 metal binding site 3; metal-binding site 205914002380 metal binding site 2 [ion binding]; metal-binding site 205914002381 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 205914002382 putative DNA binding site [nucleotide binding]; other site 205914002383 putative metal binding site [ion binding]; other site 205914002384 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 205914002385 active site 205914002386 catalytic site [active] 205914002387 substrate binding site [chemical binding]; other site 205914002388 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 205914002389 active site 205914002390 DNA binding site [nucleotide binding] 205914002391 catalytic site [active] 205914002392 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 205914002393 Part of AAA domain; Region: AAA_19; pfam13245 205914002394 Family description; Region: UvrD_C_2; pfam13538 205914002395 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 205914002396 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 205914002397 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 205914002398 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 205914002399 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 205914002400 S-adenosylmethionine binding site [chemical binding]; other site 205914002401 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 205914002402 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914002403 Walker A motif; other site 205914002404 ATP binding site [chemical binding]; other site 205914002405 Walker B motif; other site 205914002406 arginine finger; other site 205914002407 Peptidase family M41; Region: Peptidase_M41; pfam01434 205914002408 LicD family; Region: LicD; cl01378 205914002409 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 205914002410 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 205914002411 dihydropteroate synthase; Region: DHPS; TIGR01496 205914002412 substrate binding pocket [chemical binding]; other site 205914002413 dimer interface [polypeptide binding]; other site 205914002414 inhibitor binding site; inhibition site 205914002415 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 205914002416 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 205914002417 active site 205914002418 substrate binding site [chemical binding]; other site 205914002419 metal binding site [ion binding]; metal-binding site 205914002420 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 205914002421 catalytic core [active] 205914002422 Predicted permeases [General function prediction only]; Region: COG0679 205914002423 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 205914002424 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 205914002425 DEAD_2; Region: DEAD_2; pfam06733 205914002426 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 205914002427 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 205914002428 Glycoprotease family; Region: Peptidase_M22; pfam00814 205914002429 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 205914002430 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 205914002431 acyl-activating enzyme (AAE) consensus motif; other site 205914002432 putative AMP binding site [chemical binding]; other site 205914002433 putative active site [active] 205914002434 putative CoA binding site [chemical binding]; other site 205914002435 ribonuclease D; Provisional; Region: PRK10829 205914002436 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 205914002437 catalytic site [active] 205914002438 putative active site [active] 205914002439 putative substrate binding site [chemical binding]; other site 205914002440 HRDC domain; Region: HRDC; pfam00570 205914002441 outer membrane lipoprotein; Provisional; Region: PRK11023 205914002442 BON domain; Region: BON; pfam04972 205914002443 BON domain; Region: BON; pfam04972 205914002444 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 205914002445 dimer interface [polypeptide binding]; other site 205914002446 active site 205914002447 hypothetical protein; Reviewed; Region: PRK12497 205914002448 LppC putative lipoprotein; Region: LppC; pfam04348 205914002449 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 205914002450 putative ligand binding site [chemical binding]; other site 205914002451 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 205914002452 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 205914002453 putative SAM binding site [chemical binding]; other site 205914002454 putative homodimer interface [polypeptide binding]; other site 205914002455 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 205914002456 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 205914002457 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 205914002458 RNA binding surface [nucleotide binding]; other site 205914002459 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 205914002460 probable active site [active] 205914002461 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 205914002462 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 205914002463 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 205914002464 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 205914002465 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 205914002466 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 205914002467 intersubunit interface [polypeptide binding]; other site 205914002468 active site 205914002469 catalytic residue [active] 205914002470 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 205914002471 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 205914002472 substrate binding site [chemical binding]; other site 205914002473 dimer interface [polypeptide binding]; other site 205914002474 ATP binding site [chemical binding]; other site 205914002475 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 205914002476 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 205914002477 putative substrate translocation pore; other site 205914002478 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 205914002479 active site 205914002480 catalytic residues [active] 205914002481 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 205914002482 23S rRNA interface [nucleotide binding]; other site 205914002483 L3 interface [polypeptide binding]; other site 205914002484 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 205914002485 stringent starvation protein A; Provisional; Region: sspA; PRK09481 205914002486 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 205914002487 C-terminal domain interface [polypeptide binding]; other site 205914002488 putative GSH binding site (G-site) [chemical binding]; other site 205914002489 dimer interface [polypeptide binding]; other site 205914002490 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 205914002491 dimer interface [polypeptide binding]; other site 205914002492 N-terminal domain interface [polypeptide binding]; other site 205914002493 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 205914002494 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 205914002495 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 205914002496 putative dimer interface [polypeptide binding]; other site 205914002497 putative anticodon binding site; other site 205914002498 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 205914002499 homodimer interface [polypeptide binding]; other site 205914002500 motif 1; other site 205914002501 motif 2; other site 205914002502 active site 205914002503 motif 3; other site 205914002504 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 205914002505 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 205914002506 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 205914002507 Transcriptional regulator [Transcription]; Region: IclR; COG1414 205914002508 Bacterial transcriptional regulator; Region: IclR; pfam01614 205914002509 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 205914002510 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 205914002511 DctM-like transporters; Region: DctM; pfam06808 205914002512 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 205914002513 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 205914002514 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 205914002515 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 205914002516 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 205914002517 Walker A/P-loop; other site 205914002518 ATP binding site [chemical binding]; other site 205914002519 Q-loop/lid; other site 205914002520 ABC transporter signature motif; other site 205914002521 Walker B; other site 205914002522 D-loop; other site 205914002523 H-loop/switch region; other site 205914002524 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 205914002525 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205914002526 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 205914002527 TM-ABC transporter signature motif; other site 205914002528 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 205914002529 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 205914002530 putative ligand binding site [chemical binding]; other site 205914002531 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 205914002532 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 205914002533 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 205914002534 ligand binding site [chemical binding]; other site 205914002535 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 205914002536 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 205914002537 Walker A/P-loop; other site 205914002538 ATP binding site [chemical binding]; other site 205914002539 Q-loop/lid; other site 205914002540 ABC transporter signature motif; other site 205914002541 Walker B; other site 205914002542 D-loop; other site 205914002543 H-loop/switch region; other site 205914002544 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 205914002545 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 205914002546 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205914002547 TM-ABC transporter signature motif; other site 205914002548 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 205914002549 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 205914002550 putative N- and C-terminal domain interface [polypeptide binding]; other site 205914002551 putative active site [active] 205914002552 MgATP binding site [chemical binding]; other site 205914002553 catalytic site [active] 205914002554 metal binding site [ion binding]; metal-binding site 205914002555 putative xylulose binding site [chemical binding]; other site 205914002556 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 205914002557 active site 205914002558 dimer interface [polypeptide binding]; other site 205914002559 magnesium binding site [ion binding]; other site 205914002560 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 205914002561 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 205914002562 AP (apurinic/apyrimidinic) site pocket; other site 205914002563 DNA interaction; other site 205914002564 Metal-binding active site; metal-binding site 205914002565 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 205914002566 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 205914002567 intersubunit interface [polypeptide binding]; other site 205914002568 active site 205914002569 Zn2+ binding site [ion binding]; other site 205914002570 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 205914002571 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 205914002572 active site 205914002573 motif I; other site 205914002574 motif II; other site 205914002575 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 205914002576 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 205914002577 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 205914002578 chromosome condensation membrane protein; Provisional; Region: PRK14196 205914002579 putative hydrolase; Provisional; Region: PRK10976 205914002580 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 205914002581 active site 205914002582 motif I; other site 205914002583 motif II; other site 205914002584 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 205914002585 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 205914002586 dimer interface [polypeptide binding]; other site 205914002587 FMN binding site [chemical binding]; other site 205914002588 Protein of unknown function (DUF406); Region: DUF406; pfam04175 205914002589 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 205914002590 aromatic amino acid transport protein; Region: araaP; TIGR00837 205914002591 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 205914002592 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 205914002593 Walker A/P-loop; other site 205914002594 ATP binding site [chemical binding]; other site 205914002595 Q-loop/lid; other site 205914002596 ABC transporter signature motif; other site 205914002597 Walker B; other site 205914002598 D-loop; other site 205914002599 H-loop/switch region; other site 205914002600 TOBE domain; Region: TOBE_2; pfam08402 205914002601 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 205914002602 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914002603 dimer interface [polypeptide binding]; other site 205914002604 conserved gate region; other site 205914002605 putative PBP binding loops; other site 205914002606 ABC-ATPase subunit interface; other site 205914002607 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914002608 dimer interface [polypeptide binding]; other site 205914002609 conserved gate region; other site 205914002610 putative PBP binding loops; other site 205914002611 ABC-ATPase subunit interface; other site 205914002612 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 205914002613 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 205914002614 D-lactate dehydrogenase; Provisional; Region: PRK11183 205914002615 FAD binding domain; Region: FAD_binding_4; pfam01565 205914002616 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 205914002617 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 205914002618 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 205914002619 trimer interface [polypeptide binding]; other site 205914002620 active site 205914002621 substrate binding site [chemical binding]; other site 205914002622 CoA binding site [chemical binding]; other site 205914002623 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 205914002624 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 205914002625 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 205914002626 putative active site [active] 205914002627 putative substrate binding site [chemical binding]; other site 205914002628 putative cosubstrate binding site; other site 205914002629 catalytic site [active] 205914002630 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 205914002631 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 205914002632 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 205914002633 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 205914002634 UDP-glucose 4-epimerase; Region: PLN02240 205914002635 NAD binding site [chemical binding]; other site 205914002636 homodimer interface [polypeptide binding]; other site 205914002637 active site 205914002638 substrate binding site [chemical binding]; other site 205914002639 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914002640 trimer interface [polypeptide binding]; other site 205914002641 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914002642 trimer interface [polypeptide binding]; other site 205914002643 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914002644 trimer interface [polypeptide binding]; other site 205914002645 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914002646 trimer interface [polypeptide binding]; other site 205914002647 YadA-like C-terminal region; Region: YadA; pfam03895 205914002648 oligopeptidase A; Provisional; Region: PRK10911 205914002649 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 205914002650 active site 205914002651 Zn binding site [ion binding]; other site 205914002652 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 205914002653 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 205914002654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914002655 homodimer interface [polypeptide binding]; other site 205914002656 catalytic residue [active] 205914002657 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 205914002658 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 205914002659 putative dimerization interface [polypeptide binding]; other site 205914002660 Transcriptional regulators [Transcription]; Region: PurR; COG1609 205914002661 putative ligand binding site [chemical binding]; other site 205914002662 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 205914002663 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 205914002664 Protein of unknown function (DUF454); Region: DUF454; cl01063 205914002665 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 205914002666 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 205914002667 peptide binding site [polypeptide binding]; other site 205914002668 ABC transporter ATPase component; Reviewed; Region: PRK11147 205914002669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914002670 Walker A/P-loop; other site 205914002671 ATP binding site [chemical binding]; other site 205914002672 Q-loop/lid; other site 205914002673 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 205914002674 ABC transporter; Region: ABC_tran_2; pfam12848 205914002675 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 205914002676 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1A_like; cd04741 205914002677 active site 205914002678 FMN binding site [chemical binding]; other site 205914002679 substrate binding site [chemical binding]; other site 205914002680 catalytic residues [active] 205914002681 homodimer interface [polypeptide binding]; other site 205914002682 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 205914002683 aromatic amino acid transport protein; Region: araaP; TIGR00837 205914002684 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 205914002685 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 205914002686 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205914002687 catalytic residue [active] 205914002688 phosphate acetyltransferase; Reviewed; Region: PRK05632 205914002689 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 205914002690 DRTGG domain; Region: DRTGG; pfam07085 205914002691 phosphate acetyltransferase; Region: pta; TIGR00651 205914002692 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 205914002693 propionate/acetate kinase; Provisional; Region: PRK12379 205914002694 hypothetical protein; Provisional; Region: PRK01816 205914002695 YcgL domain; Region: YcgL; pfam05166 205914002696 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 205914002697 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 205914002698 molybdopterin cofactor binding site [chemical binding]; other site 205914002699 substrate binding site [chemical binding]; other site 205914002700 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 205914002701 molybdopterin cofactor binding site; other site 205914002702 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 205914002703 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 205914002704 Methyltransferase domain; Region: Methyltransf_11; pfam08241 205914002705 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 205914002706 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 205914002707 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 205914002708 tRNA; other site 205914002709 putative tRNA binding site [nucleotide binding]; other site 205914002710 putative NADP binding site [chemical binding]; other site 205914002711 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 205914002712 multidrug efflux protein; Reviewed; Region: PRK01766 205914002713 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 205914002714 cation binding site [ion binding]; other site 205914002715 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 205914002716 Lumazine binding domain; Region: Lum_binding; pfam00677 205914002717 Lumazine binding domain; Region: Lum_binding; pfam00677 205914002718 recombination factor protein RarA; Reviewed; Region: PRK13342 205914002719 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914002720 Walker A motif; other site 205914002721 ATP binding site [chemical binding]; other site 205914002722 Walker B motif; other site 205914002723 arginine finger; other site 205914002724 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 205914002725 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 205914002726 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 205914002727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 205914002728 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 205914002729 serine endoprotease; Provisional; Region: PRK10942 205914002730 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 205914002731 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 205914002732 protein binding site [polypeptide binding]; other site 205914002733 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 205914002734 Low molecular weight phosphatase family; Region: LMWPc; cd00115 205914002735 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 205914002736 active site 205914002737 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 205914002738 ribosome maturation protein RimP; Reviewed; Region: PRK00092 205914002739 hypothetical protein; Provisional; Region: PRK14641 205914002740 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 205914002741 putative oligomer interface [polypeptide binding]; other site 205914002742 putative RNA binding site [nucleotide binding]; other site 205914002743 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 205914002744 NusA N-terminal domain; Region: NusA_N; pfam08529 205914002745 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 205914002746 RNA binding site [nucleotide binding]; other site 205914002747 homodimer interface [polypeptide binding]; other site 205914002748 NusA-like KH domain; Region: KH_5; pfam13184 205914002749 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 205914002750 G-X-X-G motif; other site 205914002751 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 205914002752 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 205914002753 translation initiation factor IF-2; Region: IF-2; TIGR00487 205914002754 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 205914002755 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 205914002756 G1 box; other site 205914002757 putative GEF interaction site [polypeptide binding]; other site 205914002758 GTP/Mg2+ binding site [chemical binding]; other site 205914002759 Switch I region; other site 205914002760 G2 box; other site 205914002761 G3 box; other site 205914002762 Switch II region; other site 205914002763 G4 box; other site 205914002764 G5 box; other site 205914002765 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 205914002766 Translation-initiation factor 2; Region: IF-2; pfam11987 205914002767 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 205914002768 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 205914002769 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 205914002770 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 205914002771 RNA binding site [nucleotide binding]; other site 205914002772 active site 205914002773 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 205914002774 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 205914002775 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 205914002776 THF binding site; other site 205914002777 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 205914002778 substrate binding site [chemical binding]; other site 205914002779 THF binding site; other site 205914002780 zinc-binding site [ion binding]; other site 205914002781 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 205914002782 Transglycosylase; Region: Transgly; pfam00912 205914002783 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 205914002784 hypothetical protein; Provisional; Region: PRK05248 205914002785 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 205914002786 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 205914002787 active site 205914002788 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 205914002789 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 205914002790 metal binding triad; other site 205914002791 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 205914002792 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 205914002793 Zn2+ binding site [ion binding]; other site 205914002794 Mg2+ binding site [ion binding]; other site 205914002795 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 205914002796 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 205914002797 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 205914002798 homopentamer interface [polypeptide binding]; other site 205914002799 active site 205914002800 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 205914002801 putative RNA binding site [nucleotide binding]; other site 205914002802 thiamine monophosphate kinase; Provisional; Region: PRK05731 205914002803 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 205914002804 ATP binding site [chemical binding]; other site 205914002805 dimerization interface [polypeptide binding]; other site 205914002806 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 205914002807 tetramer interfaces [polypeptide binding]; other site 205914002808 binuclear metal-binding site [ion binding]; other site 205914002809 LysE type translocator; Region: LysE; cl00565 205914002810 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 205914002811 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 205914002812 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 205914002813 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 205914002814 putative catalytic site [active] 205914002815 putative phosphate binding site [ion binding]; other site 205914002816 active site 205914002817 metal binding site A [ion binding]; metal-binding site 205914002818 DNA binding site [nucleotide binding] 205914002819 putative AP binding site [nucleotide binding]; other site 205914002820 putative metal binding site B [ion binding]; other site 205914002821 Family of unknown function (DUF695); Region: DUF695; pfam05117 205914002822 TIGR01619 family protein; Region: hyp_HI0040 205914002823 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 205914002824 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 205914002825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914002826 homodimer interface [polypeptide binding]; other site 205914002827 catalytic residue [active] 205914002828 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 205914002829 ATP-grasp domain; Region: ATP-grasp; pfam02222 205914002830 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_cladeA; cd00883 205914002831 active site clefts [active] 205914002832 zinc binding site [ion binding]; other site 205914002833 dimer interface [polypeptide binding]; other site 205914002834 putative inner membrane peptidase; Provisional; Region: PRK11778 205914002835 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 205914002836 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 205914002837 tandem repeat interface [polypeptide binding]; other site 205914002838 oligomer interface [polypeptide binding]; other site 205914002839 active site residues [active] 205914002840 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 205914002841 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 205914002842 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205914002843 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 205914002844 ligand binding site [chemical binding]; other site 205914002845 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 205914002846 Phosphotransferase enzyme family; Region: APH; pfam01636 205914002847 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 205914002848 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 205914002849 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 205914002850 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 205914002851 active site 205914002852 dimer interface [polypeptide binding]; other site 205914002853 motif 1; other site 205914002854 motif 2; other site 205914002855 motif 3; other site 205914002856 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 205914002857 anticodon binding site; other site 205914002858 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 205914002859 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 205914002860 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 205914002861 Protein of unknown function, DUF462; Region: DUF462; cl01190 205914002862 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 205914002863 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 205914002864 Walker A/P-loop; other site 205914002865 ATP binding site [chemical binding]; other site 205914002866 Q-loop/lid; other site 205914002867 ABC transporter signature motif; other site 205914002868 Walker B; other site 205914002869 D-loop; other site 205914002870 H-loop/switch region; other site 205914002871 inner membrane transport permease; Provisional; Region: PRK15066 205914002872 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 205914002873 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 205914002874 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 205914002875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 205914002876 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 205914002877 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 205914002878 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 205914002879 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 205914002880 tRNA pseudouridine synthase C; Provisional; Region: PRK11112 205914002881 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 205914002882 active site 205914002883 Uncharacterized protein family (UPF0181); Region: UPF0181; pfam03701 205914002884 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 205914002885 DNA-binding site [nucleotide binding]; DNA binding site 205914002886 RNA-binding motif; other site 205914002887 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 205914002888 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 205914002889 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 205914002890 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 205914002891 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 205914002892 dimer interface [polypeptide binding]; other site 205914002893 motif 1; other site 205914002894 active site 205914002895 motif 2; other site 205914002896 motif 3; other site 205914002897 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 205914002898 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 205914002899 putative tRNA-binding site [nucleotide binding]; other site 205914002900 B3/4 domain; Region: B3_4; pfam03483 205914002901 tRNA synthetase B5 domain; Region: B5; smart00874 205914002902 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 205914002903 dimer interface [polypeptide binding]; other site 205914002904 motif 1; other site 205914002905 motif 3; other site 205914002906 motif 2; other site 205914002907 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 205914002908 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 205914002909 IHF dimer interface [polypeptide binding]; other site 205914002910 IHF - DNA interface [nucleotide binding]; other site 205914002911 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 205914002912 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 205914002913 Ligand Binding Site [chemical binding]; other site 205914002914 condesin subunit F; Provisional; Region: PRK05260 205914002915 condesin subunit E; Provisional; Region: PRK05256 205914002916 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 205914002917 P-loop containing region of AAA domain; Region: AAA_29; cl17516 205914002918 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 205914002919 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 205914002920 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 205914002921 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 205914002922 exonuclease I; Provisional; Region: sbcB; PRK11779 205914002923 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 205914002924 active site 205914002925 catalytic site [active] 205914002926 substrate binding site [chemical binding]; other site 205914002927 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 205914002928 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 205914002929 5S rRNA interface [nucleotide binding]; other site 205914002930 CTC domain interface [polypeptide binding]; other site 205914002931 L16 interface [polypeptide binding]; other site 205914002932 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 205914002933 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 205914002934 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 205914002935 23S rRNA binding site [nucleotide binding]; other site 205914002936 L21 binding site [polypeptide binding]; other site 205914002937 L13 binding site [polypeptide binding]; other site 205914002938 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 205914002939 translation initiation factor IF-3; Region: infC; TIGR00168 205914002940 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 205914002941 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 205914002942 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 205914002943 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 205914002944 ligand binding site [chemical binding]; other site 205914002945 flexible hinge region; other site 205914002946 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 205914002947 putative switch regulator; other site 205914002948 non-specific DNA interactions [nucleotide binding]; other site 205914002949 DNA binding site [nucleotide binding] 205914002950 sequence specific DNA binding site [nucleotide binding]; other site 205914002951 putative cAMP binding site [chemical binding]; other site 205914002952 universal stress protein UspE; Provisional; Region: PRK11175 205914002953 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 205914002954 Ligand Binding Site [chemical binding]; other site 205914002955 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 205914002956 Ligand Binding Site [chemical binding]; other site 205914002957 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 205914002958 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205914002959 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205914002960 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 205914002961 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 205914002962 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 205914002963 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 205914002964 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 205914002965 active site 205914002966 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 205914002967 aminopeptidase N; Provisional; Region: pepN; PRK14015 205914002968 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 205914002969 active site 205914002970 Zn binding site [ion binding]; other site 205914002971 glycogen phosphorylase; Provisional; Region: PRK14986 205914002972 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 205914002973 homodimer interface [polypeptide binding]; other site 205914002974 active site pocket [active] 205914002975 glycogen synthase; Provisional; Region: glgA; PRK00654 205914002976 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 205914002977 ADP-binding pocket [chemical binding]; other site 205914002978 homodimer interface [polypeptide binding]; other site 205914002979 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 205914002980 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 205914002981 ligand binding site; other site 205914002982 oligomer interface; other site 205914002983 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 205914002984 N-terminal domain interface [polypeptide binding]; other site 205914002985 sulfate 1 binding site; other site 205914002986 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 205914002987 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 205914002988 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 205914002989 active site 205914002990 catalytic site [active] 205914002991 glycogen branching enzyme; Provisional; Region: PRK05402 205914002992 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 205914002993 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 205914002994 active site 205914002995 catalytic site [active] 205914002996 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 205914002997 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 205914002998 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 205914002999 hypothetical protein; Provisional; Region: PRK05170 205914003000 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 205914003001 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 205914003002 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 205914003003 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 205914003004 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 205914003005 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 205914003006 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 205914003007 active site 205914003008 HIGH motif; other site 205914003009 nucleotide binding site [chemical binding]; other site 205914003010 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 205914003011 KMSKS motif; other site 205914003012 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 205914003013 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 205914003014 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 205914003015 phosphate binding site [ion binding]; other site 205914003016 putative substrate binding pocket [chemical binding]; other site 205914003017 dimer interface [polypeptide binding]; other site 205914003018 tetrathionate reductase subunit A; Provisional; Region: PRK14991 205914003019 Molybdopterin-Binding (MopB) 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- and...; Region: Molybdopterin-Binding; cl09928 205914003020 molybdopterin cofactor binding site; other site 205914003021 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 205914003022 putative molybdopterin cofactor binding site [chemical binding]; other site 205914003023 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 205914003024 putative molybdopterin cofactor binding site; other site 205914003025 tetrathionate reductase subunit C; Provisional; Region: PRK14992 205914003026 tetrathionate reductase subunit C; Provisional; Region: PRK14992 205914003027 tetrathionate reductase subunit B; Provisional; Region: PRK14993 205914003028 4Fe-4S binding domain; Region: Fer4; pfam00037 205914003029 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 205914003030 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 205914003031 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 205914003032 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 205914003033 dimer interface [polypeptide binding]; other site 205914003034 phosphorylation site [posttranslational modification] 205914003035 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 205914003036 ATP binding site [chemical binding]; other site 205914003037 Mg2+ binding site [ion binding]; other site 205914003038 G-X-G motif; other site 205914003039 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 205914003040 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 205914003041 active site 205914003042 phosphorylation site [posttranslational modification] 205914003043 intermolecular recognition site; other site 205914003044 dimerization interface [polypeptide binding]; other site 205914003045 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 205914003046 DNA binding residues [nucleotide binding] 205914003047 dimerization interface [polypeptide binding]; other site 205914003048 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 205914003049 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 205914003050 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 205914003051 Ligand Binding Site [chemical binding]; other site 205914003052 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 205914003053 active site residue [active] 205914003054 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 205914003055 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 205914003056 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 205914003057 substrate binding pocket [chemical binding]; other site 205914003058 chain length determination region; other site 205914003059 substrate-Mg2+ binding site; other site 205914003060 catalytic residues [active] 205914003061 aspartate-rich region 1; other site 205914003062 active site lid residues [active] 205914003063 aspartate-rich region 2; other site 205914003064 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 205914003065 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 205914003066 TPP-binding site; other site 205914003067 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 205914003068 PYR/PP interface [polypeptide binding]; other site 205914003069 dimer interface [polypeptide binding]; other site 205914003070 TPP binding site [chemical binding]; other site 205914003071 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 205914003072 Predicted membrane protein [Function unknown]; Region: COG2431 205914003073 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 205914003074 active site 1 [active] 205914003075 dimer interface [polypeptide binding]; other site 205914003076 active site 2 [active] 205914003077 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 205914003078 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 205914003079 tandem repeat interface [polypeptide binding]; other site 205914003080 oligomer interface [polypeptide binding]; other site 205914003081 active site residues [active] 205914003082 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 205914003083 tandem repeat interface [polypeptide binding]; other site 205914003084 oligomer interface [polypeptide binding]; other site 205914003085 active site residues [active] 205914003086 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...; Region: Arsenite_oxidase; cd02135 205914003087 putative FMN binding site [chemical binding]; other site 205914003088 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 205914003089 homodecamer interface [polypeptide binding]; other site 205914003090 GTP cyclohydrolase I; Provisional; Region: PLN03044 205914003091 active site 205914003092 putative catalytic site residues [active] 205914003093 zinc binding site [ion binding]; other site 205914003094 GTP-CH-I/GFRP interaction surface; other site 205914003095 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 205914003096 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 205914003097 dimer interface [polypeptide binding]; other site 205914003098 putative functional site; other site 205914003099 putative MPT binding site; other site 205914003100 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 205914003101 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 205914003102 ATP binding site [chemical binding]; other site 205914003103 substrate interface [chemical binding]; other site 205914003104 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 205914003105 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 205914003106 active site 205914003107 substrate binding site [chemical binding]; other site 205914003108 cosubstrate binding site; other site 205914003109 catalytic site [active] 205914003110 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 205914003111 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 205914003112 active site 205914003113 interdomain interaction site; other site 205914003114 putative metal-binding site [ion binding]; other site 205914003115 nucleotide binding site [chemical binding]; other site 205914003116 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 205914003117 domain I; other site 205914003118 DNA binding groove [nucleotide binding] 205914003119 phosphate binding site [ion binding]; other site 205914003120 domain II; other site 205914003121 domain III; other site 205914003122 nucleotide binding site [chemical binding]; other site 205914003123 catalytic site [active] 205914003124 domain IV; other site 205914003125 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 205914003126 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 205914003127 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 205914003128 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 205914003129 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 205914003130 Flavoprotein; Region: Flavoprotein; pfam02441 205914003131 amidophosphoribosyltransferase; Provisional; Region: PRK09246 205914003132 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 205914003133 active site 205914003134 tetramer interface [polypeptide binding]; other site 205914003135 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205914003136 active site 205914003137 Colicin V production protein; Region: Colicin_V; cl00567 205914003138 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 205914003139 KpsF/GutQ family protein; Region: kpsF; TIGR00393 205914003140 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 205914003141 putative active site [active] 205914003142 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 205914003143 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 205914003144 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 205914003145 active site 205914003146 motif I; other site 205914003147 motif II; other site 205914003148 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 205914003149 Ferritin-like domain; Region: Ferritin; pfam00210 205914003150 ferroxidase diiron center [ion binding]; other site 205914003151 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 205914003152 Ferritin-like domain; Region: Ferritin; pfam00210 205914003153 ferroxidase diiron center [ion binding]; other site 205914003154 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 205914003155 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 205914003156 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 205914003157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 205914003158 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 205914003159 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 205914003160 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 205914003161 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 205914003162 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 205914003163 inhibitor-cofactor binding pocket; inhibition site 205914003164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914003165 catalytic residue [active] 205914003166 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 205914003167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914003168 catalytic residue [active] 205914003169 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 205914003170 AAA domain; Region: AAA_30; pfam13604 205914003171 Family description; Region: UvrD_C_2; pfam13538 205914003172 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 205914003173 Part of AAA domain; Region: AAA_19; pfam13245 205914003174 Family description; Region: UvrD_C_2; pfam13538 205914003175 heat shock protein HtpX; Provisional; Region: PRK05457 205914003176 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 205914003177 active site 205914003178 DNA polymerase IV; Validated; Region: PRK02406 205914003179 DNA binding site [nucleotide binding] 205914003180 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 205914003181 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 205914003182 pyridoxamine kinase; Validated; Region: PRK05756 205914003183 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 205914003184 dimer interface [polypeptide binding]; other site 205914003185 pyridoxal binding site [chemical binding]; other site 205914003186 ATP binding site [chemical binding]; other site 205914003187 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 205914003188 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 205914003189 Ligand Binding Site [chemical binding]; other site 205914003190 TilS substrate binding domain; Region: TilS; pfam09179 205914003191 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 205914003192 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 205914003193 non-specific DNA binding site [nucleotide binding]; other site 205914003194 salt bridge; other site 205914003195 sequence-specific DNA binding site [nucleotide binding]; other site 205914003196 hypothetical protein; Provisional; Region: PRK10236 205914003197 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 205914003198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 205914003199 hypothetical protein; Provisional; Region: PRK10236 205914003200 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 205914003201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 205914003202 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 205914003203 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 205914003204 active site 205914003205 dimer interface [polypeptide binding]; other site 205914003206 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 205914003207 dimer interface [polypeptide binding]; other site 205914003208 active site 205914003209 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 205914003210 alanine racemase; Reviewed; Region: alr; PRK00053 205914003211 active site 205914003212 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205914003213 substrate binding site [chemical binding]; other site 205914003214 catalytic residues [active] 205914003215 dimer interface [polypeptide binding]; other site 205914003216 replicative DNA helicase; Validated; Region: PRK06904 205914003217 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 205914003218 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 205914003219 Walker A motif; other site 205914003220 ATP binding site [chemical binding]; other site 205914003221 Walker B motif; other site 205914003222 DNA binding loops [nucleotide binding] 205914003223 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 205914003224 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 205914003225 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 205914003226 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 205914003227 FtsX-like permease family; Region: FtsX; pfam02687 205914003228 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 205914003229 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 205914003230 Walker A/P-loop; other site 205914003231 ATP binding site [chemical binding]; other site 205914003232 Q-loop/lid; other site 205914003233 ABC transporter signature motif; other site 205914003234 Walker B; other site 205914003235 D-loop; other site 205914003236 H-loop/switch region; other site 205914003237 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 205914003238 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 205914003239 FtsX-like permease family; Region: FtsX; pfam02687 205914003240 glycerate dehydrogenase; Provisional; Region: PRK06932 205914003241 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 205914003242 putative ligand binding site [chemical binding]; other site 205914003243 putative NAD binding site [chemical binding]; other site 205914003244 catalytic site [active] 205914003245 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 205914003246 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 205914003247 Uncharacterized conserved protein [Function unknown]; Region: COG2912 205914003248 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 205914003249 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 205914003250 TPR motif; other site 205914003251 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 205914003252 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 205914003253 RDD family; Region: RDD; pfam06271 205914003254 peptide chain release factor 1; Validated; Region: prfA; PRK00591 205914003255 This domain is found in peptide chain release factors; Region: PCRF; smart00937 205914003256 RF-1 domain; Region: RF-1; pfam00472 205914003257 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 205914003258 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 205914003259 putative metal binding site [ion binding]; other site 205914003260 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 205914003261 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 205914003262 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 205914003263 active site 205914003264 HIGH motif; other site 205914003265 KMSK motif region; other site 205914003266 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 205914003267 tRNA binding surface [nucleotide binding]; other site 205914003268 anticodon binding site; other site 205914003269 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 205914003270 CoA binding domain; Region: CoA_binding; smart00881 205914003271 CoA-ligase; Region: Ligase_CoA; pfam00549 205914003272 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 205914003273 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 205914003274 CoA-ligase; Region: Ligase_CoA; pfam00549 205914003275 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 205914003276 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 205914003277 E3 interaction surface; other site 205914003278 lipoyl attachment site [posttranslational modification]; other site 205914003279 e3 binding domain; Region: E3_binding; pfam02817 205914003280 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 205914003281 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 205914003282 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, 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...; Region: TPP_E1_OGDC_like; cd02016 205914003283 TPP-binding site [chemical binding]; other site 205914003284 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 205914003285 PYR/PP interface [polypeptide binding]; other site 205914003286 dimer interface [polypeptide binding]; other site 205914003287 TPP binding site [chemical binding]; other site 205914003288 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 205914003289 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 205914003290 dimer interface [polypeptide binding]; other site 205914003291 active site 205914003292 citrylCoA binding site [chemical binding]; other site 205914003293 NADH binding [chemical binding]; other site 205914003294 cationic pore residues; other site 205914003295 oxalacetate/citrate binding site [chemical binding]; other site 205914003296 coenzyme A binding site [chemical binding]; other site 205914003297 catalytic triad [active] 205914003298 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 205914003299 dimer interface [polypeptide binding]; other site 205914003300 putative radical transfer pathway; other site 205914003301 diiron center [ion binding]; other site 205914003302 tyrosyl radical; other site 205914003303 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 205914003304 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 205914003305 catalytic loop [active] 205914003306 iron binding site [ion binding]; other site 205914003307 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 205914003308 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 205914003309 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 205914003310 Zn2+ binding site [ion binding]; other site 205914003311 Mg2+ binding site [ion binding]; other site 205914003312 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 205914003313 Staphylococcal nuclease homologues; Region: SNc; smart00318 205914003314 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 205914003315 Catalytic site; other site 205914003316 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 205914003317 Aminotransferase class-V; Region: Aminotran_5; pfam00266 205914003318 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205914003319 catalytic residue [active] 205914003320 Fe-S metabolism associated domain; Region: SufE; cl00951 205914003321 RelB antitoxin; Region: RelB; cl01171 205914003322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 205914003323 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 205914003324 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. Trimers...; Region: gram_neg_porins; cd00342 205914003325 trimer interface [polypeptide binding]; other site 205914003326 eyelet of channel; other site 205914003327 translation initiation factor Sui1; Validated; Region: PRK06824 205914003328 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 205914003329 putative rRNA binding site [nucleotide binding]; other site 205914003330 tetratricopeptide repeat protein; Provisional; Region: PRK11788 205914003331 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 205914003332 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 205914003333 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 205914003334 IHF dimer interface [polypeptide binding]; other site 205914003335 IHF - DNA interface [nucleotide binding]; other site 205914003336 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 205914003337 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 205914003338 RNA binding site [nucleotide binding]; other site 205914003339 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 205914003340 RNA binding site [nucleotide binding]; other site 205914003341 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 205914003342 RNA binding site [nucleotide binding]; other site 205914003343 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...; Region: S1_RPS1_repeat_ec4; cd05689 205914003344 RNA binding site [nucleotide binding]; other site 205914003345 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...; Region: S1_RPS1_repeat_ec5; cd05690 205914003346 RNA binding site [nucleotide binding]; other site 205914003347 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 205914003348 RNA binding site [nucleotide binding]; other site 205914003349 cytidylate kinase; Provisional; Region: cmk; PRK00023 205914003350 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 205914003351 CMP-binding site; other site 205914003352 The sites determining sugar specificity; other site 205914003353 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 205914003354 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 205914003355 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 205914003356 trimer interface [polypeptide binding]; other site 205914003357 active site 205914003358 UDP-GlcNAc binding site [chemical binding]; other site 205914003359 lipid binding site [chemical binding]; lipid-binding site 205914003360 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 205914003361 periplasmic chaperone; Provisional; Region: PRK10780 205914003362 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 205914003363 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 205914003364 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 205914003365 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 205914003366 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 205914003367 Surface antigen; Region: Bac_surface_Ag; pfam01103 205914003368 zinc metallopeptidase RseP; Provisional; Region: PRK10779 205914003369 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 205914003370 active site 205914003371 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 205914003372 protein binding site [polypeptide binding]; other site 205914003373 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 205914003374 protein binding site [polypeptide binding]; other site 205914003375 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 205914003376 putative substrate binding region [chemical binding]; other site 205914003377 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 205914003378 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 205914003379 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 205914003380 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 205914003381 catalytic residue [active] 205914003382 putative FPP diphosphate binding site; other site 205914003383 putative FPP binding hydrophobic cleft; other site 205914003384 dimer interface [polypeptide binding]; other site 205914003385 putative IPP diphosphate binding site; other site 205914003386 Uncharacterized integral membrane protein [Function unknown]; Region: COG5413 205914003387 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 205914003388 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 205914003389 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 205914003390 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 205914003391 ribosome recycling factor; Reviewed; Region: frr; PRK00083 205914003392 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 205914003393 hinge region; other site 205914003394 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 205914003395 putative nucleotide binding site [chemical binding]; other site 205914003396 uridine monophosphate binding site [chemical binding]; other site 205914003397 homohexameric interface [polypeptide binding]; other site 205914003398 Protein of unknown function (DUF721); Region: DUF721; cl02324 205914003399 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 205914003400 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 205914003401 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 205914003402 SEC-C motif; Region: SEC-C; pfam02810 205914003403 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 205914003404 active site 205914003405 8-oxo-dGMP binding site [chemical binding]; other site 205914003406 nudix motif; other site 205914003407 metal binding site [ion binding]; metal-binding site 205914003408 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 205914003409 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 205914003410 ATP binding site [chemical binding]; other site 205914003411 putative Mg++ binding site [ion binding]; other site 205914003412 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 205914003413 nucleotide binding region [chemical binding]; other site 205914003414 ATP-binding site [chemical binding]; other site 205914003415 Helicase associated domain (HA2); Region: HA2; pfam04408 205914003416 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 205914003417 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 205914003418 Predicted membrane protein [Function unknown]; Region: COG2707 205914003419 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 205914003420 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 205914003421 dsDNA-mimic protein; Reviewed; Region: PRK05094 205914003422 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 205914003423 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 205914003424 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205914003425 active site 205914003426 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 205914003427 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 205914003428 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 205914003429 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 205914003430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 205914003431 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 205914003432 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 205914003433 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 205914003434 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 205914003435 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 205914003436 ArsC family; Region: ArsC; pfam03960 205914003437 catalytic residues [active] 205914003438 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 205914003439 Domain of unknown function DUF20; Region: UPF0118; pfam01594 205914003440 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 205914003441 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 205914003442 substrate binding pocket [chemical binding]; other site 205914003443 membrane-bound complex binding site; other site 205914003444 hinge residues; other site 205914003445 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 205914003446 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205914003447 catalytic residue [active] 205914003448 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 205914003449 lysine decarboxylase LdcC; Provisional; Region: PRK15399 205914003450 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 205914003451 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 205914003452 homodimer interface [polypeptide binding]; other site 205914003453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914003454 catalytic residue [active] 205914003455 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 205914003456 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 205914003457 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 205914003458 dimer interface [polypeptide binding]; other site 205914003459 putative anticodon binding site; other site 205914003460 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 205914003461 motif 1; other site 205914003462 active site 205914003463 motif 2; other site 205914003464 motif 3; other site 205914003465 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 205914003466 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 205914003467 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 205914003468 putative dimerization interface [polypeptide binding]; other site 205914003469 biotin synthase; Region: bioB; TIGR00433 205914003470 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 205914003471 FeS/SAM binding site; other site 205914003472 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 205914003473 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914003474 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 205914003475 Walker A/P-loop; other site 205914003476 ATP binding site [chemical binding]; other site 205914003477 Q-loop/lid; other site 205914003478 ABC transporter signature motif; other site 205914003479 Walker B; other site 205914003480 D-loop; other site 205914003481 H-loop/switch region; other site 205914003482 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 205914003483 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914003484 dimer interface [polypeptide binding]; other site 205914003485 conserved gate region; other site 205914003486 putative PBP binding loops; other site 205914003487 ABC-ATPase subunit interface; other site 205914003488 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 205914003489 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 205914003490 Predicted permease [General function prediction only]; Region: COG2056 205914003491 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 205914003492 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 205914003493 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 205914003494 RNA polymerase sigma factor; Provisional; Region: PRK12530 205914003495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205914003496 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 205914003497 DNA binding residues [nucleotide binding] 205914003498 TMAO/DMSO reductase; Reviewed; Region: PRK05363 205914003499 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 205914003500 Moco binding site; other site 205914003501 metal coordination site [ion binding]; other site 205914003502 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 205914003503 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 205914003504 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 205914003505 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 205914003506 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 205914003507 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 205914003508 S-adenosylmethionine binding site [chemical binding]; other site 205914003509 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 205914003510 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 205914003511 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 205914003512 Walker A/P-loop; other site 205914003513 ATP binding site [chemical binding]; other site 205914003514 Q-loop/lid; other site 205914003515 ABC transporter signature motif; other site 205914003516 Walker B; other site 205914003517 D-loop; other site 205914003518 H-loop/switch region; other site 205914003519 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 205914003520 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 205914003521 Competence protein; Region: Competence; pfam03772 205914003522 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 205914003523 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 205914003524 poly(A) polymerase; Region: pcnB; TIGR01942 205914003525 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 205914003526 active site 205914003527 NTP binding site [chemical binding]; other site 205914003528 metal binding triad [ion binding]; metal-binding site 205914003529 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 205914003530 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 205914003531 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 205914003532 catalytic center binding site [active] 205914003533 ATP binding site [chemical binding]; other site 205914003534 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 205914003535 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 205914003536 active site 205914003537 dimer interface [polypeptide binding]; other site 205914003538 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 205914003539 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 205914003540 active site 205914003541 trimer interface [polypeptide binding]; other site 205914003542 allosteric site; other site 205914003543 active site lid [active] 205914003544 hexamer (dimer of trimers) interface [polypeptide binding]; other site 205914003545 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 205914003546 MoaE homodimer interface [polypeptide binding]; other site 205914003547 MoaD interaction [polypeptide binding]; other site 205914003548 active site residues [active] 205914003549 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 205914003550 MoaE interaction surface [polypeptide binding]; other site 205914003551 MoeB interaction surface [polypeptide binding]; other site 205914003552 thiocarboxylated glycine; other site 205914003553 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 205914003554 trimer interface [polypeptide binding]; other site 205914003555 dimer interface [polypeptide binding]; other site 205914003556 putative active site [active] 205914003557 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 205914003558 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 205914003559 FeS/SAM binding site; other site 205914003560 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 205914003561 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 205914003562 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 205914003563 DNA binding site [nucleotide binding] 205914003564 domain linker motif; other site 205914003565 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 205914003566 dimerization interface [polypeptide binding]; other site 205914003567 ligand binding site [chemical binding]; other site 205914003568 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 205914003569 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 205914003570 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 205914003571 substrate binding site [chemical binding]; other site 205914003572 dimerization interface [polypeptide binding]; other site 205914003573 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 205914003574 putative GSH binding site [chemical binding]; other site 205914003575 catalytic residues [active] 205914003576 outer membrane protein A; Reviewed; Region: PRK10808 205914003577 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 205914003578 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 205914003579 ligand binding site [chemical binding]; other site 205914003580 putative peptidase; Provisional; Region: PRK11649 205914003581 Peptidase family M23; Region: Peptidase_M23; pfam01551 205914003582 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 205914003583 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 205914003584 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 205914003585 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 205914003586 ABC-ATPase subunit interface; other site 205914003587 dimer interface [polypeptide binding]; other site 205914003588 putative PBP binding regions; other site 205914003589 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 205914003590 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 205914003591 fructokinase; Reviewed; Region: PRK09557 205914003592 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 205914003593 nucleotide binding site [chemical binding]; other site 205914003594 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 205914003595 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 205914003596 active site 205914003597 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 205914003598 dimerization interface [polypeptide binding]; other site 205914003599 active site 205914003600 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 205914003601 FAD binding domain; Region: FAD_binding_4; pfam01565 205914003602 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 205914003603 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 205914003604 CoenzymeA binding site [chemical binding]; other site 205914003605 subunit interaction site [polypeptide binding]; other site 205914003606 PHB binding site; other site 205914003607 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 205914003608 ferrochelatase; Reviewed; Region: hemH; PRK00035 205914003609 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 205914003610 C-terminal domain interface [polypeptide binding]; other site 205914003611 active site 205914003612 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 205914003613 active site 205914003614 N-terminal domain interface [polypeptide binding]; other site 205914003615 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 205914003616 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 205914003617 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 205914003618 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 205914003619 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 205914003620 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 205914003621 protein binding site [polypeptide binding]; other site 205914003622 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 205914003623 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 205914003624 catalytic motif [active] 205914003625 Zn binding site [ion binding]; other site 205914003626 RibD C-terminal domain; Region: RibD_C; cl17279 205914003627 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 205914003628 ATP cone domain; Region: ATP-cone; pfam03477 205914003629 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 205914003630 AzlC protein; Region: AzlC; cl00570 205914003631 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205914003632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 205914003633 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 205914003634 putative dimerization interface [polypeptide binding]; other site 205914003635 malate dehydrogenase; Provisional; Region: PRK05086 205914003636 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 205914003637 NAD binding site [chemical binding]; other site 205914003638 dimerization interface [polypeptide binding]; other site 205914003639 Substrate binding site [chemical binding]; other site 205914003640 arginine repressor; Provisional; Region: PRK05066 205914003641 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 205914003642 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 205914003643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 205914003644 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 205914003645 NAD(P) binding site [chemical binding]; other site 205914003646 active site 205914003647 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914003648 trimer interface [polypeptide binding]; other site 205914003649 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914003650 trimer interface [polypeptide binding]; other site 205914003651 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914003652 trimer interface [polypeptide binding]; other site 205914003653 Haemagglutinin; Region: HIM; pfam05662 205914003654 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914003655 trimer interface [polypeptide binding]; other site 205914003656 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914003657 trimer interface [polypeptide binding]; other site 205914003658 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914003659 trimer interface [polypeptide binding]; other site 205914003660 YadA-like C-terminal region; Region: YadA; pfam03895 205914003661 electron transport complex protein RsxA; Provisional; Region: PRK05151 205914003662 ferredoxin; Provisional; Region: PRK08764 205914003663 Putative Fe-S cluster; Region: FeS; cl17515 205914003664 4Fe-4S binding domain; Region: Fer4; pfam00037 205914003665 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 205914003666 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 205914003667 SLBB domain; Region: SLBB; pfam10531 205914003668 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 205914003669 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 205914003670 electron transport complex protein RnfG; Validated; Region: PRK01908 205914003671 electron transport complex RsxE subunit; Provisional; Region: PRK12405 205914003672 endonuclease III; Provisional; Region: PRK10702 205914003673 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 205914003674 minor groove reading motif; other site 205914003675 helix-hairpin-helix signature motif; other site 205914003676 substrate binding pocket [chemical binding]; other site 205914003677 active site 205914003678 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 205914003679 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 205914003680 Na2 binding site [ion binding]; other site 205914003681 putative substrate binding site 1 [chemical binding]; other site 205914003682 Na binding site 1 [ion binding]; other site 205914003683 putative substrate binding site 2 [chemical binding]; other site 205914003684 truncated 205914003685 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; cl01298 205914003686 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 205914003687 mce related protein; Region: MCE; pfam02470 205914003688 mce related protein; Region: MCE; pfam02470 205914003689 mce related protein; Region: MCE; pfam02470 205914003690 mce related protein; Region: MCE; pfam02470 205914003691 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 205914003692 Paraquat-inducible protein A; Region: PqiA; pfam04403 205914003693 Paraquat-inducible protein A; Region: PqiA; pfam04403 205914003694 ProP expression regulator; Provisional; Region: PRK04950 205914003695 ProQ/FINO family; Region: ProQ; smart00945 205914003696 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 205914003697 carboxy-terminal protease; Provisional; Region: PRK11186 205914003698 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 205914003699 protein binding site [polypeptide binding]; other site 205914003700 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 205914003701 Catalytic dyad [active] 205914003702 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 205914003703 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 205914003704 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 205914003705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 205914003706 Peptidase M15; Region: Peptidase_M15_3; cl01194 205914003707 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 205914003708 seryl-tRNA synthetase; Provisional; Region: PRK05431 205914003709 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 205914003710 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 205914003711 dimer interface [polypeptide binding]; other site 205914003712 active site 205914003713 motif 1; other site 205914003714 motif 2; other site 205914003715 motif 3; other site 205914003716 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 205914003717 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 205914003718 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 205914003719 putative active site [active] 205914003720 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 205914003721 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 205914003722 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 205914003723 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 205914003724 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 205914003725 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 205914003726 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 205914003727 active site 205914003728 metal binding site [ion binding]; metal-binding site 205914003729 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 205914003730 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 205914003731 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 205914003732 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 205914003733 ATP binding site [chemical binding]; other site 205914003734 Mg2+ binding site [ion binding]; other site 205914003735 G-X-G motif; other site 205914003736 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 205914003737 ATP binding site [chemical binding]; other site 205914003738 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 205914003739 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 205914003740 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 205914003741 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914003742 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914003743 trimer interface [polypeptide binding]; other site 205914003744 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914003745 trimer interface [polypeptide binding]; other site 205914003746 Haemagglutinin; Region: HIM; pfam05662 205914003747 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914003748 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914003749 trimer interface [polypeptide binding]; other site 205914003750 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914003751 trimer interface [polypeptide binding]; other site 205914003752 YadA-like C-terminal region; Region: YadA; pfam03895 205914003753 pyruvate kinase; Provisional; Region: PRK05826 205914003754 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 205914003755 domain interfaces; other site 205914003756 active site 205914003757 periplasmic folding chaperone; Provisional; Region: PRK10788 205914003758 SurA N-terminal domain; Region: SurA_N_3; cl07813 205914003759 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 205914003760 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 205914003761 rRNA interaction site [nucleotide binding]; other site 205914003762 S8 interaction site; other site 205914003763 putative laminin-1 binding site; other site 205914003764 elongation factor Ts; Provisional; Region: tsf; PRK09377 205914003765 UBA/TS-N domain; Region: UBA; pfam00627 205914003766 Elongation factor TS; Region: EF_TS; pfam00889 205914003767 Elongation factor TS; Region: EF_TS; pfam00889 205914003768 Trp operon repressor; Provisional; Region: PRK01381 205914003769 serine/threonine transporter SstT; Provisional; Region: PRK13628 205914003770 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 205914003771 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 205914003772 Catalytic site [active] 205914003773 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 205914003774 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 205914003775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205914003776 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 205914003777 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 205914003778 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 205914003779 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 205914003780 E3 interaction surface; other site 205914003781 lipoyl attachment site [posttranslational modification]; other site 205914003782 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 205914003783 E3 interaction surface; other site 205914003784 lipoyl attachment site [posttranslational modification]; other site 205914003785 e3 binding domain; Region: E3_binding; pfam02817 205914003786 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 205914003787 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 205914003788 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 205914003789 dimer interface [polypeptide binding]; other site 205914003790 TPP-binding site [chemical binding]; other site 205914003791 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 205914003792 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 205914003793 HPr interaction site; other site 205914003794 glycerol kinase (GK) interaction site [polypeptide binding]; other site 205914003795 active site 205914003796 phosphorylation site [posttranslational modification] 205914003797 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 205914003798 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 205914003799 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 205914003800 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 205914003801 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 205914003802 dimerization domain swap beta strand [polypeptide binding]; other site 205914003803 regulatory protein interface [polypeptide binding]; other site 205914003804 active site 205914003805 regulatory phosphorylation site [posttranslational modification]; other site 205914003806 GTPase RsgA; Reviewed; Region: PRK12288 205914003807 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 205914003808 RNA binding site [nucleotide binding]; other site 205914003809 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 205914003810 GTPase/Zn-binding domain interface [polypeptide binding]; other site 205914003811 GTP/Mg2+ binding site [chemical binding]; other site 205914003812 G4 box; other site 205914003813 G5 box; other site 205914003814 G1 box; other site 205914003815 Switch I region; other site 205914003816 G2 box; other site 205914003817 G3 box; other site 205914003818 Switch II region; other site 205914003819 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 205914003820 catalytic site [active] 205914003821 putative active site [active] 205914003822 putative substrate binding site [chemical binding]; other site 205914003823 dimer interface [polypeptide binding]; other site 205914003824 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 205914003825 fumarate hydratase; Reviewed; Region: fumC; PRK00485 205914003826 Class II fumarases; Region: Fumarase_classII; cd01362 205914003827 active site 205914003828 tetramer interface [polypeptide binding]; other site 205914003829 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 205914003830 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914003831 Walker A motif; other site 205914003832 ATP binding site [chemical binding]; other site 205914003833 Walker B motif; other site 205914003834 arginine finger; other site 205914003835 GTPase HflX; Provisional; Region: PRK11058 205914003836 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 205914003837 HflX GTPase family; Region: HflX; cd01878 205914003838 G1 box; other site 205914003839 GTP/Mg2+ binding site [chemical binding]; other site 205914003840 Switch I region; other site 205914003841 G2 box; other site 205914003842 G3 box; other site 205914003843 Switch II region; other site 205914003844 G4 box; other site 205914003845 G5 box; other site 205914003846 bacterial Hfq-like; Region: Hfq; cd01716 205914003847 hexamer interface [polypeptide binding]; other site 205914003848 Sm1 motif; other site 205914003849 RNA binding site [nucleotide binding]; other site 205914003850 Sm2 motif; other site 205914003851 glutathione reductase; Validated; Region: PRK06116 205914003852 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 205914003853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205914003854 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 205914003855 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 205914003856 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 205914003857 Transglycosylase; Region: Transgly; pfam00912 205914003858 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 205914003859 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 205914003860 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 205914003861 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 205914003862 shikimate kinase; Reviewed; Region: aroK; PRK00131 205914003863 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 205914003864 ADP binding site [chemical binding]; other site 205914003865 magnesium binding site [ion binding]; other site 205914003866 putative shikimate binding site; other site 205914003867 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 205914003868 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 205914003869 active site 205914003870 dimer interface [polypeptide binding]; other site 205914003871 metal binding site [ion binding]; metal-binding site 205914003872 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 205914003873 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 205914003874 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 205914003875 active site 205914003876 tetramer interface; other site 205914003877 phosphomannomutase CpsG; Provisional; Region: PRK15414 205914003878 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 205914003879 active site 205914003880 substrate binding site [chemical binding]; other site 205914003881 metal binding site [ion binding]; metal-binding site 205914003882 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 205914003883 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 205914003884 motif 1; other site 205914003885 active site 205914003886 motif 2; other site 205914003887 motif 3; other site 205914003888 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 205914003889 DHHA1 domain; Region: DHHA1; pfam02272 205914003890 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 205914003891 Ligand Binding Site [chemical binding]; other site 205914003892 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 205914003893 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 205914003894 homodimer interface [polypeptide binding]; other site 205914003895 metal binding site [ion binding]; metal-binding site 205914003896 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 205914003897 homodimer interface [polypeptide binding]; other site 205914003898 active site 205914003899 putative chemical substrate binding site [chemical binding]; other site 205914003900 metal binding site [ion binding]; metal-binding site 205914003901 primosome assembly protein PriA; Validated; Region: PRK05580 205914003902 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 205914003903 ATP binding site [chemical binding]; other site 205914003904 putative Mg++ binding site [ion binding]; other site 205914003905 helicase superfamily c-terminal domain; Region: HELICc; smart00490 205914003906 nucleotide binding region [chemical binding]; other site 205914003907 ATP-binding site [chemical binding]; other site 205914003908 cell division protein FtsN; Provisional; Region: PRK12757 205914003909 Sporulation related domain; Region: SPOR; cl10051 205914003910 Sporulation related domain; Region: SPOR; cl10051 205914003911 rod shape-determining protein MreD; Region: MreD; cl01087 205914003912 rod shape-determining protein MreC; Region: mreC; TIGR00219 205914003913 rod shape-determining protein MreC; Region: MreC; pfam04085 205914003914 rod shape-determining protein MreB; Provisional; Region: PRK13927 205914003915 MreB and similar proteins; Region: MreB_like; cd10225 205914003916 nucleotide binding site [chemical binding]; other site 205914003917 Mg binding site [ion binding]; other site 205914003918 putative protofilament interaction site [polypeptide binding]; other site 205914003919 RodZ interaction site [polypeptide binding]; other site 205914003920 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 205914003921 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 205914003922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914003923 ABC transporter signature motif; other site 205914003924 Walker B; other site 205914003925 D-loop; other site 205914003926 H-loop/switch region; other site 205914003927 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 205914003928 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 205914003929 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 205914003930 dimer interface [polypeptide binding]; other site 205914003931 ssDNA binding site [nucleotide binding]; other site 205914003932 tetramer (dimer of dimers) interface [polypeptide binding]; other site 205914003933 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 205914003934 FAD binding site [chemical binding]; other site 205914003935 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 205914003936 beta-hexosaminidase; Provisional; Region: PRK05337 205914003937 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 205914003938 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 205914003939 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 205914003940 putative dimer interface [polypeptide binding]; other site 205914003941 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 205914003942 nucleotide binding site/active site [active] 205914003943 HIT family signature motif; other site 205914003944 catalytic residue [active] 205914003945 formate transporter FocA; Region: formate_focA; TIGR04060 205914003946 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 205914003947 Pyruvate formate lyase 1; Region: PFL1; cd01678 205914003948 coenzyme A binding site [chemical binding]; other site 205914003949 active site 205914003950 catalytic residues [active] 205914003951 glycine loop; other site 205914003952 Predicted membrane protein [Function unknown]; Region: COG2259 205914003953 Protein of unknown function (DUF692); Region: DUF692; pfam05114 205914003954 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 205914003955 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 205914003956 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205914003957 DNA-binding site [nucleotide binding]; DNA binding site 205914003958 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 205914003959 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 205914003960 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 205914003961 putative NAD(P) binding site [chemical binding]; other site 205914003962 catalytic Zn binding site [ion binding]; other site 205914003963 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 205914003964 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 205914003965 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 205914003966 active site 205914003967 P-loop; other site 205914003968 phosphorylation site [posttranslational modification] 205914003969 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 205914003970 active site 205914003971 phosphorylation site [posttranslational modification] 205914003972 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 205914003973 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12858 205914003974 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 205914003975 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 205914003976 FeS/SAM binding site; other site 205914003977 thioredoxin reductase; Provisional; Region: PRK10262 205914003978 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 205914003979 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 205914003980 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 205914003981 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 205914003982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914003983 Walker A/P-loop; other site 205914003984 ATP binding site [chemical binding]; other site 205914003985 Q-loop/lid; other site 205914003986 ABC transporter signature motif; other site 205914003987 Walker B; other site 205914003988 D-loop; other site 205914003989 H-loop/switch region; other site 205914003990 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 205914003991 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 205914003992 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914003993 Walker A/P-loop; other site 205914003994 ATP binding site [chemical binding]; other site 205914003995 Q-loop/lid; other site 205914003996 ABC transporter signature motif; other site 205914003997 Walker B; other site 205914003998 D-loop; other site 205914003999 H-loop/switch region; other site 205914004000 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 205914004001 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 205914004002 dinuclear metal binding motif [ion binding]; other site 205914004003 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 205914004004 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914004005 trimer interface [polypeptide binding]; other site 205914004006 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914004007 trimer interface [polypeptide binding]; other site 205914004008 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914004009 trimer interface [polypeptide binding]; other site 205914004010 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 205914004011 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914004012 YadA-like C-terminal region; Region: YadA; pfam03895 205914004013 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 205914004014 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 205914004015 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 205914004016 FeS/SAM binding site; other site 205914004017 TRAM domain; Region: TRAM; pfam01938 205914004018 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 205914004019 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 205914004020 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 205914004021 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 205914004022 Walker A/P-loop; other site 205914004023 ATP binding site [chemical binding]; other site 205914004024 Q-loop/lid; other site 205914004025 ABC transporter signature motif; other site 205914004026 Walker B; other site 205914004027 D-loop; other site 205914004028 H-loop/switch region; other site 205914004029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914004030 dimer interface [polypeptide binding]; other site 205914004031 conserved gate region; other site 205914004032 putative PBP binding loops; other site 205914004033 ABC-ATPase subunit interface; other site 205914004034 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 205914004035 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914004036 dimer interface [polypeptide binding]; other site 205914004037 conserved gate region; other site 205914004038 ABC-ATPase subunit interface; other site 205914004039 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 205914004040 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 205914004041 transcription-repair coupling factor; Provisional; Region: PRK10689 205914004042 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 205914004043 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 205914004044 ATP binding site [chemical binding]; other site 205914004045 putative Mg++ binding site [ion binding]; other site 205914004046 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 205914004047 nucleotide binding region [chemical binding]; other site 205914004048 ATP-binding site [chemical binding]; other site 205914004049 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 205914004050 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 205914004051 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 205914004052 S-adenosylmethionine binding site [chemical binding]; other site 205914004053 DNA gyrase subunit A; Validated; Region: PRK05560 205914004054 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 205914004055 CAP-like domain; other site 205914004056 active site 205914004057 primary dimer interface [polypeptide binding]; other site 205914004058 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205914004059 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205914004060 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205914004061 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205914004062 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205914004063 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 205914004064 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 205914004065 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 205914004066 PhnA protein; Region: PhnA; pfam03831 205914004067 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 205914004068 aromatic amino acid transport protein; Region: araaP; TIGR00837 205914004069 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 205914004070 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 205914004071 hinge; other site 205914004072 active site 205914004073 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 205914004074 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 205914004075 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 205914004076 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 205914004077 mce related protein; Region: MCE; pfam02470 205914004078 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 205914004079 conserved hypothetical integral membrane protein; Region: TIGR00056 205914004080 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 205914004081 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 205914004082 Walker A/P-loop; other site 205914004083 ATP binding site [chemical binding]; other site 205914004084 Q-loop/lid; other site 205914004085 ABC transporter signature motif; other site 205914004086 Walker B; other site 205914004087 D-loop; other site 205914004088 H-loop/switch region; other site 205914004089 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 205914004090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 205914004091 OstA-like protein; Region: OstA; cl00844 205914004092 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 205914004093 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 205914004094 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 205914004095 Walker A/P-loop; other site 205914004096 ATP binding site [chemical binding]; other site 205914004097 Q-loop/lid; other site 205914004098 ABC transporter signature motif; other site 205914004099 Walker B; other site 205914004100 D-loop; other site 205914004101 H-loop/switch region; other site 205914004102 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 205914004103 active site 205914004104 phosphorylation site [posttranslational modification] 205914004105 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 205914004106 AAA domain; Region: AAA_18; pfam13238 205914004107 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 205914004108 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 205914004109 active site 205914004110 HIGH motif; other site 205914004111 KMSKS motif; other site 205914004112 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 205914004113 tRNA binding surface [nucleotide binding]; other site 205914004114 anticodon binding site; other site 205914004115 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 205914004116 dimer interface [polypeptide binding]; other site 205914004117 putative tRNA-binding site [nucleotide binding]; other site 205914004118 antiporter inner membrane protein; Provisional; Region: PRK11670 205914004119 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 205914004120 Walker A motif; other site 205914004121 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 205914004122 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914004123 dimer interface [polypeptide binding]; other site 205914004124 conserved gate region; other site 205914004125 putative PBP binding loops; other site 205914004126 ABC-ATPase subunit interface; other site 205914004127 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 205914004128 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 205914004129 CAAX protease self-immunity; Region: Abi; pfam02517 205914004130 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 205914004131 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 205914004132 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 205914004133 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 205914004134 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 205914004135 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 205914004136 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 205914004137 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 205914004138 putative DNA binding site [nucleotide binding]; other site 205914004139 putative Zn2+ binding site [ion binding]; other site 205914004140 AsnC family; Region: AsnC_trans_reg; pfam01037 205914004141 DNA repair protein RadA; Provisional; Region: PRK11823 205914004142 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 205914004143 Walker A motif/ATP binding site; other site 205914004144 ATP binding site [chemical binding]; other site 205914004145 Walker B motif; other site 205914004146 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 205914004147 Uncharacterized conserved protein [Function unknown]; Region: COG3025 205914004148 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 205914004149 putative active site [active] 205914004150 putative metal binding residues [ion binding]; other site 205914004151 signature motif; other site 205914004152 putative triphosphate binding site [ion binding]; other site 205914004153 TIGR00153 family protein; Region: TIGR00153 205914004154 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 205914004155 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 205914004156 Bacterial SH3 domain homologues; Region: SH3b; smart00287 205914004157 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 205914004158 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 205914004159 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 205914004160 active site 205914004161 NTP binding site [chemical binding]; other site 205914004162 metal binding triad [ion binding]; metal-binding site 205914004163 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 205914004164 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 205914004165 Zn2+ binding site [ion binding]; other site 205914004166 Mg2+ binding site [ion binding]; other site 205914004167 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 205914004168 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 205914004169 nucleotide binding site [chemical binding]; other site 205914004170 chaperone protein DnaJ; Provisional; Region: PRK10767 205914004171 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 205914004172 HSP70 interaction site [polypeptide binding]; other site 205914004173 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 205914004174 substrate binding site [polypeptide binding]; other site 205914004175 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 205914004176 Zn binding sites [ion binding]; other site 205914004177 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 205914004178 dimer interface [polypeptide binding]; other site 205914004179 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 205914004180 ATP cone domain; Region: ATP-cone; pfam03477 205914004181 Class I ribonucleotide reductase; Region: RNR_I; cd01679 205914004182 active site 205914004183 dimer interface [polypeptide binding]; other site 205914004184 catalytic residues [active] 205914004185 effector binding site; other site 205914004186 R2 peptide binding site; other site 205914004187 TPR repeat; Region: TPR_11; pfam13414 205914004188 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 205914004189 binding surface 205914004190 TPR motif; other site 205914004191 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 205914004192 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 205914004193 FeS/SAM binding site; other site 205914004194 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 205914004195 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914004196 Walker A motif; other site 205914004197 ATP binding site [chemical binding]; other site 205914004198 Walker B motif; other site 205914004199 DNA polymerase III subunit delta'; Validated; Region: PRK08485 205914004200 arginine finger; other site 205914004201 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 205914004202 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 205914004203 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205914004204 active site 205914004205 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 205914004206 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 205914004207 putative acyl-acceptor binding pocket; other site 205914004208 hypothetical protein; Provisional; Region: PRK10621 205914004209 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 205914004210 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 205914004211 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 205914004212 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 205914004213 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 205914004214 Tetramer interface [polypeptide binding]; other site 205914004215 active site 205914004216 FMN-binding site [chemical binding]; other site 205914004217 hypothetical protein; Provisional; Region: PRK11281 205914004218 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 205914004219 Mechanosensitive ion channel; Region: MS_channel; pfam00924 205914004220 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 205914004221 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 205914004222 acyl-activating enzyme (AAE) consensus motif; other site 205914004223 putative AMP binding site [chemical binding]; other site 205914004224 putative active site [active] 205914004225 putative CoA binding site [chemical binding]; other site 205914004226 replication initiation regulator SeqA; Provisional; Region: PRK11187 205914004227 acyl-CoA esterase; Provisional; Region: PRK10673 205914004228 PGAP1-like protein; Region: PGAP1; pfam07819 205914004229 flavodoxin FldA; Validated; Region: PRK09267 205914004230 ferric uptake regulator; Provisional; Region: fur; PRK09462 205914004231 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 205914004232 metal binding site 2 [ion binding]; metal-binding site 205914004233 putative DNA binding helix; other site 205914004234 metal binding site 1 [ion binding]; metal-binding site 205914004235 dimer interface [polypeptide binding]; other site 205914004236 structural Zn2+ binding site [ion binding]; other site 205914004237 threonine synthase; Validated; Region: PRK09225 205914004238 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 205914004239 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205914004240 catalytic residue [active] 205914004241 homoserine kinase; Provisional; Region: PRK01212 205914004242 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 205914004243 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 205914004244 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 205914004245 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 205914004246 nucleotide binding site [chemical binding]; other site 205914004247 substrate binding site [chemical binding]; other site 205914004248 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 205914004249 dimer interface [polypeptide binding]; other site 205914004250 putative threonine allosteric regulatory site; other site 205914004251 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 205914004252 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 205914004253 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 205914004254 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 205914004255 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205914004256 catalytic residue [active] 205914004257 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 205914004258 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 205914004259 generic binding surface II; other site 205914004260 generic binding surface I; other site 205914004261 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 205914004262 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 205914004263 metal binding triad; other site 205914004264 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 205914004265 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 205914004266 metal binding triad; other site 205914004267 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 205914004268 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 205914004269 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 205914004270 active site 205914004271 DNA binding site [nucleotide binding] 205914004272 Int/Topo IB signature motif; other site 205914004273 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 205914004274 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 205914004275 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 205914004276 homodimer interface [polypeptide binding]; other site 205914004277 NADP binding site [chemical binding]; other site 205914004278 substrate binding site [chemical binding]; other site 205914004279 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 205914004280 S-adenosylmethionine binding site [chemical binding]; other site 205914004281 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 205914004282 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 205914004283 dimer interface [polypeptide binding]; other site 205914004284 anticodon binding site; other site 205914004285 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 205914004286 homodimer interface [polypeptide binding]; other site 205914004287 motif 1; other site 205914004288 active site 205914004289 motif 2; other site 205914004290 GAD domain; Region: GAD; pfam02938 205914004291 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 205914004292 active site 205914004293 motif 3; other site 205914004294 Flavin Reductases; Region: FlaRed; cl00801 205914004295 methionine synthase; Provisional; Region: PRK01207 205914004296 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 205914004297 substrate binding site [chemical binding]; other site 205914004298 THF binding site; other site 205914004299 zinc-binding site [ion binding]; other site 205914004300 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 205914004301 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 205914004302 active site 205914004303 Int/Topo IB signature motif; other site 205914004304 DNA binding site [nucleotide binding] 205914004305 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 205914004306 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 205914004307 inhibitor-cofactor binding pocket; inhibition site 205914004308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914004309 catalytic residue [active] 205914004310 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 205914004311 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 205914004312 dimer interface [polypeptide binding]; other site 205914004313 motif 1; other site 205914004314 active site 205914004315 motif 2; other site 205914004316 motif 3; other site 205914004317 hypothetical protein; Provisional; Region: PRK11111 205914004318 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914004319 trimer interface [polypeptide binding]; other site 205914004320 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914004321 trimer interface [polypeptide binding]; other site 205914004322 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914004323 trimer interface [polypeptide binding]; other site 205914004324 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914004325 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914004326 trimer interface [polypeptide binding]; other site 205914004327 Haemagglutinin; Region: HIM; pfam05662 205914004328 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914004329 trimer interface [polypeptide binding]; other site 205914004330 YadA-like C-terminal region; Region: YadA; pfam03895 205914004331 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 205914004332 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 205914004333 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 205914004334 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 205914004335 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205914004336 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 205914004337 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 205914004338 DNA binding residues [nucleotide binding] 205914004339 DNA primase; Validated; Region: dnaG; PRK05667 205914004340 CHC2 zinc finger; Region: zf-CHC2; pfam01807 205914004341 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 205914004342 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 205914004343 active site 205914004344 metal binding site [ion binding]; metal-binding site 205914004345 interdomain interaction site; other site 205914004346 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 205914004347 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 205914004348 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 205914004349 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 205914004350 dimer interface [polypeptide binding]; other site 205914004351 active site 205914004352 GTPase Era; Reviewed; Region: era; PRK00089 205914004353 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 205914004354 G1 box; other site 205914004355 GTP/Mg2+ binding site [chemical binding]; other site 205914004356 Switch I region; other site 205914004357 G2 box; other site 205914004358 Switch II region; other site 205914004359 G3 box; other site 205914004360 G4 box; other site 205914004361 G5 box; other site 205914004362 KH domain; Region: KH_2; pfam07650 205914004363 ribonuclease III; Reviewed; Region: rnc; PRK00102 205914004364 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 205914004365 dimerization interface [polypeptide binding]; other site 205914004366 active site 205914004367 metal binding site [ion binding]; metal-binding site 205914004368 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 205914004369 dsRNA binding site [nucleotide binding]; other site 205914004370 signal peptidase I; Provisional; Region: PRK10861 205914004371 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 205914004372 Catalytic site [active] 205914004373 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 205914004374 GTP-binding protein LepA; Provisional; Region: PRK05433 205914004375 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 205914004376 G1 box; other site 205914004377 putative GEF interaction site [polypeptide binding]; other site 205914004378 GTP/Mg2+ binding site [chemical binding]; other site 205914004379 Switch I region; other site 205914004380 G2 box; other site 205914004381 G3 box; other site 205914004382 Switch II region; other site 205914004383 G4 box; other site 205914004384 G5 box; other site 205914004385 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 205914004386 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 205914004387 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 205914004388 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 205914004389 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 205914004390 putative metal binding site [ion binding]; other site 205914004391 dimer interface [polypeptide binding]; other site 205914004392 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 205914004393 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 205914004394 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 205914004395 active site pocket [active] 205914004396 oxyanion hole [active] 205914004397 catalytic triad [active] 205914004398 active site nucleophile [active] 205914004399 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 205914004400 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 205914004401 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 205914004402 Autotransporter beta-domain; Region: Autotransporter; smart00869 205914004403 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; Region: FBPase; cd00354 205914004404 AMP binding site [chemical binding]; other site 205914004405 metal binding site [ion binding]; metal-binding site 205914004406 active site 205914004407 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 205914004408 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 205914004409 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 205914004410 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 205914004411 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 205914004412 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 205914004413 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 205914004414 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 205914004415 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 205914004416 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 205914004417 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 205914004418 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 205914004419 active site 205914004420 P-loop; other site 205914004421 phosphorylation site [posttranslational modification] 205914004422 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 205914004423 active site 205914004424 phosphorylation site [posttranslational modification] 205914004425 fructokinase; Reviewed; Region: PRK09557 205914004426 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 205914004427 nucleotide binding site [chemical binding]; other site 205914004428 Acetokinase family; Region: Acetate_kinase; cl17229 205914004429 murein transglycosylase A; Provisional; Region: mltA; PRK11162 205914004430 MltA specific insert domain; Region: MltA; smart00925 205914004431 3D domain; Region: 3D; pfam06725 205914004432 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 205914004433 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 205914004434 putative ATP binding site [chemical binding]; other site 205914004435 putative substrate interface [chemical binding]; other site 205914004436 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 205914004437 intersubunit interface [polypeptide binding]; other site 205914004438 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 205914004439 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 205914004440 metal binding site [ion binding]; metal-binding site 205914004441 cytidine deaminase; Provisional; Region: PRK09027 205914004442 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 205914004443 active site 205914004444 catalytic motif [active] 205914004445 Zn binding site [ion binding]; other site 205914004446 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 205914004447 active site 205914004448 catalytic motif [active] 205914004449 Zn binding site [ion binding]; other site 205914004450 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 205914004451 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 205914004452 dimerization interface 3.5A [polypeptide binding]; other site 205914004453 active site 205914004454 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 205914004455 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 205914004456 HIGH motif; other site 205914004457 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 205914004458 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 205914004459 active site 205914004460 KMSKS motif; other site 205914004461 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 205914004462 tRNA binding surface [nucleotide binding]; other site 205914004463 anticodon binding site; other site 205914004464 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 205914004465 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 205914004466 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 205914004467 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 205914004468 Fic family protein [Function unknown]; Region: COG3177 205914004469 Fic/DOC family; Region: Fic; pfam02661 205914004470 DNA polymerase III subunit chi; Validated; Region: PRK05728 205914004471 OmpW family; Region: OmpW; cl17427 205914004472 intracellular septation protein A; Reviewed; Region: PRK00259 205914004473 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, testis; Region: BFIT_BACH; cd03442 205914004474 YciI-like protein; Reviewed; Region: PRK11370 205914004475 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 205914004476 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 in...; Region: AcnB_Swivel; cd01576 205914004477 substrate binding site [chemical binding]; other site 205914004478 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 205914004479 substrate binding site [chemical binding]; other site 205914004480 ligand binding site [chemical binding]; other site 205914004481 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 205914004482 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 205914004483 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 205914004484 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 205914004485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914004486 dimer interface [polypeptide binding]; other site 205914004487 conserved gate region; other site 205914004488 putative PBP binding loops; other site 205914004489 ABC-ATPase subunit interface; other site 205914004490 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 205914004491 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914004492 dimer interface [polypeptide binding]; other site 205914004493 conserved gate region; other site 205914004494 putative PBP binding loops; other site 205914004495 ABC-ATPase subunit interface; other site 205914004496 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 205914004497 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 205914004498 Walker A/P-loop; other site 205914004499 ATP binding site [chemical binding]; other site 205914004500 Q-loop/lid; other site 205914004501 ABC transporter signature motif; other site 205914004502 Walker B; other site 205914004503 D-loop; other site 205914004504 H-loop/switch region; other site 205914004505 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 205914004506 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 205914004507 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 205914004508 Walker A/P-loop; other site 205914004509 ATP binding site [chemical binding]; other site 205914004510 Q-loop/lid; other site 205914004511 ABC transporter signature motif; other site 205914004512 Walker B; other site 205914004513 D-loop; other site 205914004514 H-loop/switch region; other site 205914004515 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 205914004516 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 205914004517 L-aspartate oxidase; Provisional; Region: PRK06175 205914004518 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 205914004519 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 205914004520 poxB regulator PoxA; Provisional; Region: PRK09350 205914004521 motif 1; other site 205914004522 dimer interface [polypeptide binding]; other site 205914004523 active site 205914004524 motif 2; other site 205914004525 motif 3; other site 205914004526 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 205914004527 L-aspartate oxidase; Provisional; Region: PRK06175 205914004528 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 205914004529 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 205914004530 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 205914004531 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 205914004532 D-subunit interface [polypeptide binding]; other site 205914004533 Iron-sulfur protein interface; other site 205914004534 proximal quinone binding site [chemical binding]; other site 205914004535 distal quinone binding site [chemical binding]; other site 205914004536 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 205914004537 Iron-sulfur protein interface; other site 205914004538 proximal quinone binding site [chemical binding]; other site 205914004539 C-subunit interface; other site 205914004540 distal quinone binding site; other site 205914004541 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 205914004542 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205914004543 putative substrate translocation pore; other site 205914004544 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 205914004545 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 205914004546 active site 205914004547 Int/Topo IB signature motif; other site 205914004548 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 205914004549 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 205914004550 putative substrate translocation pore; other site 205914004551 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 205914004552 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 205914004553 Putative exonuclease, RdgC; Region: RdgC; pfam04381 205914004554 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 205914004555 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 205914004556 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 205914004557 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 205914004558 FeS/SAM binding site; other site 205914004559 elongation factor P; Validated; Region: PRK00529 205914004560 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 205914004561 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 205914004562 RNA binding site [nucleotide binding]; other site 205914004563 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 205914004564 RNA binding site [nucleotide binding]; other site 205914004565 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 205914004566 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 205914004567 FMN binding site [chemical binding]; other site 205914004568 active site 205914004569 catalytic residues [active] 205914004570 substrate binding site [chemical binding]; other site 205914004571 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 205914004572 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 205914004573 putative metal binding site [ion binding]; other site 205914004574 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 205914004575 HSP70 interaction site [polypeptide binding]; other site 205914004576 ribonuclease PH; Reviewed; Region: rph; PRK00173 205914004577 Ribonuclease PH; Region: RNase_PH_bact; cd11362 205914004578 hexamer interface [polypeptide binding]; other site 205914004579 active site 205914004580 hypothetical protein; Provisional; Region: PRK11820 205914004581 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 205914004582 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 205914004583 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 205914004584 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 205914004585 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 205914004586 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 205914004587 ATP binding site [chemical binding]; other site 205914004588 Mg++ binding site [ion binding]; other site 205914004589 motif III; other site 205914004590 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 205914004591 nucleotide binding region [chemical binding]; other site 205914004592 ATP-binding site [chemical binding]; other site 205914004593 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 205914004594 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 205914004595 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 205914004596 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 205914004597 homooctamer interface [polypeptide binding]; other site 205914004598 active site 205914004599 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 205914004600 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 205914004601 active site 205914004602 Int/Topo IB signature motif; other site 205914004603 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 205914004604 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 205914004605 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 205914004606 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 205914004607 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 205914004608 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914004609 Walker A/P-loop; other site 205914004610 ATP binding site [chemical binding]; other site 205914004611 Q-loop/lid; other site 205914004612 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 205914004613 ABC transporter; Region: ABC_tran_2; pfam12848 205914004614 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 205914004615 recombinase A; Provisional; Region: recA; PRK09354 205914004616 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 205914004617 hexamer interface [polypeptide binding]; other site 205914004618 Walker A motif; other site 205914004619 ATP binding site [chemical binding]; other site 205914004620 Walker B motif; other site 205914004621 recombination regulator RecX; Reviewed; Region: recX; PRK00117 205914004622 prolyl-tRNA synthetase; Provisional; Region: PRK09194 205914004623 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 205914004624 dimer interface [polypeptide binding]; other site 205914004625 motif 1; other site 205914004626 active site 205914004627 motif 2; other site 205914004628 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 205914004629 putative deacylase active site [active] 205914004630 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 205914004631 active site 205914004632 motif 3; other site 205914004633 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 205914004634 anticodon binding site; other site 205914004635 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 205914004636 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 205914004637 N-terminal plug; other site 205914004638 ligand-binding site [chemical binding]; other site 205914004639 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 205914004640 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 205914004641 active site 205914004642 HIGH motif; other site 205914004643 dimer interface [polypeptide binding]; other site 205914004644 KMSKS motif; other site 205914004645 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 205914004646 RNA binding surface [nucleotide binding]; other site 205914004647 recombination protein RecR; Reviewed; Region: recR; PRK00076 205914004648 RecR protein; Region: RecR; pfam02132 205914004649 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 205914004650 putative active site [active] 205914004651 putative metal-binding site [ion binding]; other site 205914004652 tetramer interface [polypeptide binding]; other site 205914004653 hypothetical protein; Validated; Region: PRK00153 205914004654 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 205914004655 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 205914004656 active site 205914004657 putative interdomain interaction site [polypeptide binding]; other site 205914004658 putative metal-binding site [ion binding]; other site 205914004659 putative nucleotide binding site [chemical binding]; other site 205914004660 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 205914004661 domain I; other site 205914004662 DNA binding groove [nucleotide binding] 205914004663 phosphate binding site [ion binding]; other site 205914004664 domain II; other site 205914004665 domain III; other site 205914004666 nucleotide binding site [chemical binding]; other site 205914004667 catalytic site [active] 205914004668 domain IV; other site 205914004669 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 205914004670 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 205914004671 Protein export membrane protein; Region: SecD_SecF; pfam02355 205914004672 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 205914004673 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 205914004674 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 205914004675 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 205914004676 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 205914004677 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 205914004678 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 205914004679 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 205914004680 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 205914004681 DctM-like transporters; Region: DctM; pfam06808 205914004682 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 205914004683 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 205914004684 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 205914004685 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 205914004686 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 205914004687 FIC domain binding interface [polypeptide binding]; other site 205914004688 putative protease; Provisional; Region: PRK15452 205914004689 Peptidase family U32; Region: Peptidase_U32; pfam01136 205914004690 DNA ligase; Provisional; Region: PRK09125 205914004691 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 205914004692 DNA binding site [nucleotide binding] 205914004693 active site 205914004694 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 205914004695 DNA binding site [nucleotide binding] 205914004696 GTP-binding protein Der; Reviewed; Region: PRK00093 205914004697 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 205914004698 G1 box; other site 205914004699 GTP/Mg2+ binding site [chemical binding]; other site 205914004700 Switch I region; other site 205914004701 G2 box; other site 205914004702 Switch II region; other site 205914004703 G3 box; other site 205914004704 G4 box; other site 205914004705 G5 box; other site 205914004706 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 205914004707 G1 box; other site 205914004708 GTP/Mg2+ binding site [chemical binding]; other site 205914004709 Switch I region; other site 205914004710 G2 box; other site 205914004711 G3 box; other site 205914004712 Switch II region; other site 205914004713 G4 box; other site 205914004714 G5 box; other site 205914004715 hypothetical protein; Provisional; Region: PRK05255 205914004716 peptidase PmbA; Provisional; Region: PRK11040 205914004717 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 205914004718 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 205914004719 GDP-binding site [chemical binding]; other site 205914004720 ACT binding site; other site 205914004721 IMP binding site; other site 205914004722 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 205914004723 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 205914004724 substrate binding site [chemical binding]; other site 205914004725 ATP binding site [chemical binding]; other site 205914004726 beta-D-glucuronidase; Provisional; Region: PRK10150 205914004727 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 205914004728 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 205914004729 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 205914004730 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 205914004731 putative DNA binding site [nucleotide binding]; other site 205914004732 Terminase small subunit; Region: Terminase_2; pfam03592 205914004733 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 205914004734 integrase; Provisional; Region: PRK09692 205914004735 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 205914004736 active site 205914004737 Int/Topo IB signature motif; other site 205914004738 glutamate dehydrogenase; Provisional; Region: PRK09414 205914004739 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 205914004740 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 205914004741 NAD(P) binding site [chemical binding]; other site 205914004742 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 205914004743 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 205914004744 putative active site [active] 205914004745 putative dimer interface [polypeptide binding]; other site 205914004746 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205914004747 active site 205914004748 uracil-xanthine permease; Region: ncs2; TIGR00801 205914004749 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 205914004750 DNA replication initiation factor; Validated; Region: PRK06893 205914004751 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 205914004752 catalytic residues [active] 205914004753 cystathionine gamma-synthase; Reviewed; Region: PRK08247 205914004754 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 205914004755 homodimer interface [polypeptide binding]; other site 205914004756 substrate-cofactor binding pocket; other site 205914004757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914004758 catalytic residue [active] 205914004759 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 205914004760 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 205914004761 P-loop; other site 205914004762 Magnesium ion binding site [ion binding]; other site 205914004763 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 205914004764 Magnesium ion binding site [ion binding]; other site 205914004765 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 205914004766 replicative DNA helicase; Region: DnaB; TIGR00665 205914004767 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 205914004768 Walker A motif; other site 205914004769 ATP binding site [chemical binding]; other site 205914004770 Walker B motif; other site 205914004771 DNA binding loops [nucleotide binding] 205914004772 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 205914004773 ParB-like nuclease domain; Region: ParBc; pfam02195 205914004774 hypothetical protein; Provisional; Region: PRK01904 205914004775 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 205914004776 active site 205914004777 dimer interfaces [polypeptide binding]; other site 205914004778 catalytic residues [active] 205914004779 TIGR01666 family membrane protein; Region: YCCS 205914004780 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 205914004781 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 205914004782 hypothetical protein; Provisional; Region: PRK04946 205914004783 Smr domain; Region: Smr; pfam01713 205914004784 HemK family putative methylases; Region: hemK_fam; TIGR00536 205914004785 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 205914004786 S-adenosylmethionine binding site [chemical binding]; other site 205914004787 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 205914004788 Domain of unknown function DUF20; Region: UPF0118; pfam01594 205914004789 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 205914004790 Nitrogen regulatory protein P-II; Region: P-II; smart00938 205914004791 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 205914004792 MPT binding site; other site 205914004793 trimer interface [polypeptide binding]; other site 205914004794 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 205914004795 RNA/DNA hybrid binding site [nucleotide binding]; other site 205914004796 active site 205914004797 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 205914004798 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 205914004799 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 205914004800 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 205914004801 active site 205914004802 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 205914004803 Protein of unknown function (DUF535); Region: DUF535; pfam04393 205914004804 argininosuccinate synthase; Validated; Region: PRK05370 205914004805 argininosuccinate synthase; Provisional; Region: PRK13820 205914004806 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 205914004807 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 205914004808 putative NAD(P) binding site [chemical binding]; other site 205914004809 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 205914004810 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 205914004811 ATP binding site [chemical binding]; other site 205914004812 active site 205914004813 substrate binding site [chemical binding]; other site 205914004814 lipoprotein NlpI; Provisional; Region: PRK11189 205914004815 Forkhead N-terminal region; Region: Fork_head_N; pfam08430 205914004816 Helix-turn-helix domain; Region: HTH_37; pfam13744 205914004817 non-specific DNA binding site [nucleotide binding]; other site 205914004818 salt bridge; other site 205914004819 sequence-specific DNA binding site [nucleotide binding]; other site 205914004820 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 205914004821 ORF11CD3 domain; Region: ORF11CD3; pfam10549 205914004822 Phage terminase large subunit; Region: Terminase_3; cl12054 205914004823 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 205914004824 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 205914004825 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 205914004826 catalytic residues [active] 205914004827 lysine transporter; Provisional; Region: PRK10836 205914004828 Probable transposase; Region: OrfB_IS605; pfam01385 205914004829 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 205914004830 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 205914004831 Transposase IS200 like; Region: Y1_Tnp; pfam01797 205914004832 KilA-N domain; Region: KilA-N; pfam04383 205914004833 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 205914004834 YcfA-like protein; Region: YcfA; pfam07927 205914004835 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 205914004836 P63C domain; Region: P63C; pfam10546 205914004837 Prophage antirepressor [Transcription]; Region: COG3617 205914004838 BRO family, N-terminal domain; Region: Bro-N; smart01040 205914004839 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 205914004840 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 205914004841 Replication protein P; Region: Phage_lambda_P; pfam06992 205914004842 Helix-turn-helix domain; Region: HTH_39; pfam14090 205914004843 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 205914004844 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 205914004845 non-specific DNA binding site [nucleotide binding]; other site 205914004846 salt bridge; other site 205914004847 sequence-specific DNA binding site [nucleotide binding]; other site 205914004848 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 205914004849 non-specific DNA binding site [nucleotide binding]; other site 205914004850 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 205914004851 salt bridge; other site 205914004852 sequence-specific DNA binding site [nucleotide binding]; other site 205914004853 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 205914004854 Catalytic site [active] 205914004855 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 205914004856 YcfA-like protein; Region: YcfA; pfam07927 205914004857 BRO family, N-terminal domain; Region: Bro-N; smart01040 205914004858 Fungal trichothecene efflux pump (TRI12); Region: TRI12; pfam06609 205914004859 RecT family; Region: RecT; cl04285 205914004860 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 205914004861 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 205914004862 putative trimer interface [polypeptide binding]; other site 205914004863 putative CoA binding site [chemical binding]; other site 205914004864 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 205914004865 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 205914004866 cofactor binding site; other site 205914004867 DNA binding site [nucleotide binding] 205914004868 substrate interaction site [chemical binding]; other site 205914004869 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 205914004870 integrase; Provisional; Region: PRK09692 205914004871 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 205914004872 active site 205914004873 Int/Topo IB signature motif; other site 205914004874 putative transporter; Provisional; Region: PRK11660 205914004875 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 205914004876 Sulfate transporter family; Region: Sulfate_transp; pfam00916 205914004877 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 205914004878 signal recognition particle protein; Provisional; Region: PRK10867 205914004879 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 205914004880 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 205914004881 P loop; other site 205914004882 GTP binding site [chemical binding]; other site 205914004883 Signal peptide binding domain; Region: SRP_SPB; pfam02978 205914004884 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 205914004885 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 205914004886 Domain of unknown function DUF21; Region: DUF21; pfam01595 205914004887 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 205914004888 Transporter associated domain; Region: CorC_HlyC; smart01091 205914004889 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 205914004890 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 205914004891 Walker A motif; other site 205914004892 ATP binding site [chemical binding]; other site 205914004893 Walker B motif; other site 205914004894 trigger factor; Provisional; Region: tig; PRK01490 205914004895 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 205914004896 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 205914004897 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 205914004898 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 205914004899 oligomer interface [polypeptide binding]; other site 205914004900 active site residues [active] 205914004901 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 205914004902 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 205914004903 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 205914004904 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914004905 Walker A motif; other site 205914004906 ATP binding site [chemical binding]; other site 205914004907 Walker B motif; other site 205914004908 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 205914004909 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 205914004910 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 205914004911 metal binding site [ion binding]; metal-binding site 205914004912 dimer interface [polypeptide binding]; other site 205914004913 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 205914004914 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 205914004915 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 205914004916 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 205914004917 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 205914004918 dimer interface [polypeptide binding]; other site 205914004919 ssDNA binding site [nucleotide binding]; other site 205914004920 tetramer (dimer of dimers) interface [polypeptide binding]; other site 205914004921 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 205914004922 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 205914004923 MgtC family; Region: MgtC; pfam02308 205914004924 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 205914004925 dimer interface [polypeptide binding]; other site 205914004926 active site 205914004927 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 205914004928 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 205914004929 putative DNA binding site [nucleotide binding]; other site 205914004930 putative Zn2+ binding site [ion binding]; other site 205914004931 AsnC family; Region: AsnC_trans_reg; pfam01037 205914004932 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 205914004933 NodB motif; other site 205914004934 putative active site [active] 205914004935 putative catalytic site [active] 205914004936 Zn binding site [ion binding]; other site 205914004937 AmiB activator; Provisional; Region: PRK11637 205914004938 Peptidase family M23; Region: Peptidase_M23; pfam01551 205914004939 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 205914004940 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 205914004941 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 205914004942 FeS/SAM binding site; other site 205914004943 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 205914004944 catalytic core [active] 205914004945 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 205914004946 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 205914004947 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 205914004948 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 205914004949 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 205914004950 L-fucose transporter; Provisional; Region: PRK10133; cl17665 205914004951 L-fucose isomerase; Provisional; Region: fucI; PRK10991 205914004952 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 205914004953 hexamer (dimer of trimers) interface [polypeptide binding]; other site 205914004954 trimer interface [polypeptide binding]; other site 205914004955 substrate binding site [chemical binding]; other site 205914004956 Mn binding site [ion binding]; other site 205914004957 L-fuculokinase; Provisional; Region: PRK10331 205914004958 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 205914004959 nucleotide binding site [chemical binding]; other site 205914004960 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 205914004961 L-fuculose phosphate aldolase; Provisional; Region: PRK08087 205914004962 intersubunit interface [polypeptide binding]; other site 205914004963 active site 205914004964 Zn2+ binding site [ion binding]; other site 205914004965 glutamate racemase; Provisional; Region: PRK00865 205914004966 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 205914004967 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 205914004968 generic binding surface II; other site 205914004969 ssDNA binding site; other site 205914004970 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 205914004971 ATP binding site [chemical binding]; other site 205914004972 putative Mg++ binding site [ion binding]; other site 205914004973 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 205914004974 nucleotide binding region [chemical binding]; other site 205914004975 ATP-binding site [chemical binding]; other site 205914004976 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 205914004977 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 205914004978 Zn2+ binding site [ion binding]; other site 205914004979 Mg2+ binding site [ion binding]; other site 205914004980 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 205914004981 synthetase active site [active] 205914004982 NTP binding site [chemical binding]; other site 205914004983 metal binding site [ion binding]; metal-binding site 205914004984 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 205914004985 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 205914004986 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 205914004987 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 205914004988 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 205914004989 catalytic site [active] 205914004990 G-X2-G-X-G-K; other site 205914004991 LicD family; Region: LicD; cl01378 205914004992 CTP:phosphocholine cytidylyltransferase involved in choline phosphorylation for cell surface LPS epitopes [Cell envelope biogenesis, outer membrane]; Region: LicC; COG4750 205914004993 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 205914004994 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 205914004995 EamA-like transporter family; Region: EamA; pfam00892 205914004996 Phosphotransferase enzyme family; Region: APH; pfam01636 205914004997 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 205914004998 active site 205914004999 substrate binding site [chemical binding]; other site 205914005000 ATP binding site [chemical binding]; other site 205914005001 dimer interface [polypeptide binding]; other site 205914005002 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 205914005003 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 205914005004 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 205914005005 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 205914005006 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 205914005007 FeS/SAM binding site; other site 205914005008 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 205914005009 ATP cone domain; Region: ATP-cone; pfam03477 205914005010 Class III ribonucleotide reductase; Region: RNR_III; cd01675 205914005011 effector binding site; other site 205914005012 active site 205914005013 Zn binding site [ion binding]; other site 205914005014 glycine loop; other site 205914005015 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 205914005016 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 205914005017 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 205914005018 putative transporter; Validated; Region: PRK03818 205914005019 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 205914005020 TrkA-C domain; Region: TrkA_C; pfam02080 205914005021 TrkA-C domain; Region: TrkA_C; pfam02080 205914005022 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 205914005023 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 205914005024 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 205914005025 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 205914005026 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 205914005027 DHH family; Region: DHH; pfam01368 205914005028 DHHA1 domain; Region: DHHA1; pfam02272 205914005029 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 205914005030 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 bonds...; Region: DsbA_DsbC_DsbG; cd03020 205914005031 dimerization domain [polypeptide binding]; other site 205914005032 dimer interface [polypeptide binding]; other site 205914005033 catalytic residues [active] 205914005034 This domain is found in peptide chain release factors; Region: PCRF; smart00937 205914005035 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 205914005036 RF-1 domain; Region: RF-1; pfam00472 205914005037 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 205914005038 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 205914005039 dimer interface [polypeptide binding]; other site 205914005040 putative anticodon binding site; other site 205914005041 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 205914005042 motif 1; other site 205914005043 active site 205914005044 motif 2; other site 205914005045 motif 3; other site 205914005046 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 205914005047 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 205914005048 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 205914005049 putative substrate translocation pore; other site 205914005050 Predicted membrane protein [Function unknown]; Region: COG1584 205914005051 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 205914005052 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 205914005053 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 205914005054 Domain of unknown function DUF21; Region: DUF21; pfam01595 205914005055 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 205914005056 Transporter associated domain; Region: CorC_HlyC; smart01091 205914005057 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 205914005058 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 205914005059 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 205914005060 active site 205914005061 DNA polymerase III subunit delta'; Validated; Region: PRK06871 205914005062 DNA polymerase III subunit delta'; Validated; Region: PRK08485 205914005063 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 205914005064 thymidylate kinase; Validated; Region: tmk; PRK00698 205914005065 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 205914005066 TMP-binding site; other site 205914005067 ATP-binding site [chemical binding]; other site 205914005068 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 205914005069 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 205914005070 dimerization interface [polypeptide binding]; other site 205914005071 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 205914005072 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 205914005073 active site 205914005074 motif I; other site 205914005075 motif II; other site 205914005076 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 205914005077 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 205914005078 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205914005079 active site 205914005080 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 205914005081 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 205914005082 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 205914005083 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 205914005084 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 205914005085 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 205914005086 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 205914005087 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 205914005088 RNA binding site [nucleotide binding]; other site 205914005089 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 205914005090 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 205914005091 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 205914005092 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 205914005093 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 205914005094 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 205914005095 substrate binding site; other site 205914005096 dimer interface; other site 205914005097 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 205914005098 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 205914005099 TrkA-N domain; Region: TrkA_N; pfam02254 205914005100 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 205914005101 homotrimer interaction site [polypeptide binding]; other site 205914005102 zinc binding site [ion binding]; other site 205914005103 CDP-binding sites; other site 205914005104 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 205914005105 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 205914005106 Permutation of conserved domain; other site 205914005107 active site 205914005108 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 205914005109 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 205914005110 Predicted membrane protein [Function unknown]; Region: COG1238 205914005111 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 205914005112 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 205914005113 Peptidase family M23; Region: Peptidase_M23; pfam01551 205914005114 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 205914005115 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 205914005116 dimerization interface [polypeptide binding]; other site 205914005117 ATP binding site [chemical binding]; other site 205914005118 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 205914005119 dimerization interface [polypeptide binding]; other site 205914005120 ATP binding site [chemical binding]; other site 205914005121 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 205914005122 putative active site [active] 205914005123 catalytic triad [active] 205914005124 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 205914005125 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 205914005126 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 205914005127 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 205914005128 4Fe-4S binding domain; Region: Fer4_5; pfam12801 205914005129 4Fe-4S binding domain; Region: Fer4; cl02805 205914005130 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 205914005131 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 205914005132 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 205914005133 [4Fe-4S] binding site [ion binding]; other site 205914005134 molybdopterin cofactor binding site; other site 205914005135 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 205914005136 molybdopterin cofactor binding site; other site 205914005137 NapD protein; Region: NapD; pfam03927 205914005138 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 205914005139 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 205914005140 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 205914005141 dimerization interface [polypeptide binding]; other site 205914005142 Histidine kinase; Region: HisKA_3; pfam07730 205914005143 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 205914005144 ATP binding site [chemical binding]; other site 205914005145 Mg2+ binding site [ion binding]; other site 205914005146 G-X-G motif; other site 205914005147 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 205914005148 FAD binding domain; Region: FAD_binding_4; pfam01565 205914005149 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 205914005150 YadA-like C-terminal region; Region: YadA; pfam03895 205914005151 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 205914005152 dimer interface [polypeptide binding]; other site 205914005153 substrate binding site [chemical binding]; other site 205914005154 metal binding sites [ion binding]; metal-binding site 205914005155 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 205914005156 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 205914005157 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 205914005158 active site 205914005159 ATP-dependent helicase HepA; Validated; Region: PRK04914 205914005160 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 205914005161 ATP binding site [chemical binding]; other site 205914005162 putative Mg++ binding site [ion binding]; other site 205914005163 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 205914005164 nucleotide binding region [chemical binding]; other site 205914005165 ATP-binding site [chemical binding]; other site 205914005166 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 205914005167 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 205914005168 uridine phosphorylase; Provisional; Region: PRK11178 205914005169 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 205914005170 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 205914005171 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 205914005172 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 205914005173 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 205914005174 BRO family, N-terminal domain; Region: Bro-N; smart01040 205914005175 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 205914005176 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 205914005177 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 205914005178 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 205914005179 active site 205914005180 motif I; other site 205914005181 motif II; other site 205914005182 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 205914005183 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 205914005184 Walker A/P-loop; other site 205914005185 ATP binding site [chemical binding]; other site 205914005186 Q-loop/lid; other site 205914005187 ABC transporter signature motif; other site 205914005188 Walker B; other site 205914005189 D-loop; other site 205914005190 H-loop/switch region; other site 205914005191 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 205914005192 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 205914005193 dimer interface [polypeptide binding]; other site 205914005194 conserved gate region; other site 205914005195 ABC-ATPase subunit interface; other site 205914005196 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 205914005197 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 205914005198 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 205914005199 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 205914005200 glutaminase active site [active] 205914005201 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 205914005202 dimer interface [polypeptide binding]; other site 205914005203 active site 205914005204 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 205914005205 dimer interface [polypeptide binding]; other site 205914005206 active site 205914005207 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 205914005208 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 205914005209 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 205914005210 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 205914005211 IHF dimer interface [polypeptide binding]; other site 205914005212 IHF - DNA interface [nucleotide binding]; other site 205914005213 Protein of unknown function (DUF416); Region: DUF416; cl01166 205914005214 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 reaction...; Region: URO-D; cd00717 205914005215 substrate binding site [chemical binding]; other site 205914005216 active site 205914005217 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 205914005218 HslU subunit interaction site [polypeptide binding]; other site 205914005219 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 205914005220 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 205914005221 Walker A motif; other site 205914005222 ATP binding site [chemical binding]; other site 205914005223 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 205914005224 Walker B motif; other site 205914005225 arginine finger; other site 205914005226 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 205914005227 YadA-like C-terminal region; Region: YadA; pfam03895 205914005228 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 205914005229 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 205914005230 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205914005231 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 205914005232 DNA binding residues [nucleotide binding] 205914005233 Pirin-related protein [General function prediction only]; Region: COG1741 205914005234 Pirin; Region: Pirin; pfam02678 205914005235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 205914005236 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 205914005237 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 205914005238 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 205914005239 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 205914005240 DNA binding site [nucleotide binding] 205914005241 active site 205914005242 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 205914005243 putative DNA-binding cleft [nucleotide binding]; other site 205914005244 putative DNA clevage site; other site 205914005245 molecular lever; other site 205914005246 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 205914005247 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 205914005248 dimerization interface [polypeptide binding]; other site 205914005249 putative ATP binding site [chemical binding]; other site 205914005250 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 205914005251 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 205914005252 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 205914005253 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 205914005254 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 205914005255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 205914005256 Walker A/P-loop; other site 205914005257 ATP binding site [chemical binding]; other site 205914005258 Q-loop/lid; other site 205914005259 ABC transporter signature motif; other site 205914005260 Walker B; other site 205914005261 D-loop; other site 205914005262 H-loop/switch region; other site 205914005263 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 205914005264 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 205914005265 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 205914005266 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 205914005267 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 205914005268 HIGH motif; other site 205914005269 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 205914005270 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 205914005271 active site 205914005272 KMSKS motif; other site 205914005273 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 205914005274 tRNA binding surface [nucleotide binding]; other site 205914005275 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 205914005276 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 205914005277 active site 205914005278 metal binding site [ion binding]; metal-binding site 205914005279 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 205914005280 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 205914005281 S-adenosylmethionine binding site [chemical binding]; other site 205914005282 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 205914005283 SurA N-terminal domain; Region: SurA_N; pfam09312 205914005284 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 205914005285 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 205914005286 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 205914005287 active site 205914005288 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 205914005289 aromatic amino acid transport protein; Region: araaP; TIGR00837 205914005290 YadA-like C-terminal region; Region: YadA; pfam03895 205914005291 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 205914005292 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 205914005293 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 205914005294 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 205914005295 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 205914005296 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 205914005297 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 205914005298 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 205914005299 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 205914005300 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 205914005301 DNA binding site [nucleotide binding] 205914005302 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 205914005303 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 205914005304 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 205914005305 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 205914005306 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 205914005307 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 205914005308 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 205914005309 RPB1 interaction site [polypeptide binding]; other site 205914005310 RPB11 interaction site [polypeptide binding]; other site 205914005311 RPB10 interaction site [polypeptide binding]; other site 205914005312 RPB3 interaction site [polypeptide binding]; other site 205914005313 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 205914005314 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 205914005315 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 205914005316 EamA-like transporter family; Region: EamA; pfam00892 205914005317 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 205914005318 Cation transport protein; Region: TrkH; cl17365 205914005319 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 205914005320 hypothetical protein; Provisional; Region: PRK11568 205914005321 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 205914005322 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 205914005323 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 205914005324 CPxP motif; other site 205914005325 ornithine decarboxylase; Provisional; Region: PRK13578 205914005326 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 205914005327 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 205914005328 homodimer interface [polypeptide binding]; other site 205914005329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 205914005330 catalytic residue [active] 205914005331 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 205914005332 putrescine transporter; Provisional; Region: potE; PRK10655 205914005333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 205914005334 RNA methyltransferase, RsmE family; Region: TIGR00046 205914005335 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 205914005336 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 205914005337 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 205914005338 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 205914005339 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 205914005340 Metal-binding active site; metal-binding site 205914005341 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 205914005342 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 205914005343 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 205914005344 PYR/PP interface [polypeptide binding]; other site 205914005345 dimer interface [polypeptide binding]; other site 205914005346 TPP binding site [chemical binding]; other site 205914005347 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 205914005348 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 205914005349 TPP-binding site; other site 205914005350 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 205914005351 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 205914005352 TM-ABC transporter signature motif; other site 205914005353 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 205914005354 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 205914005355 Walker A/P-loop; other site 205914005356 ATP binding site [chemical binding]; other site 205914005357 Q-loop/lid; other site 205914005358 ABC transporter signature motif; other site 205914005359 Walker B; other site 205914005360 D-loop; other site 205914005361 H-loop/switch region; other site 205914005362 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 205914005363 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 205914005364 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 205914005365 putative ligand binding site [chemical binding]; other site 205914005366 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 205914005367 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 205914005368 putative ligand binding site [chemical binding]; other site 205914005369 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 205914005370 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 205914005371 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 205914005372 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 205914005373 tetrameric interface [polypeptide binding]; other site 205914005374 NAD binding site [chemical binding]; other site 205914005375 catalytic residues [active] 205914005376 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 205914005377 active site 205914005378 catalytic site [active] 205914005379 putative metal binding site [ion binding]; other site 205914005380 Major Facilitator Superfamily; Region: MFS_1; pfam07690 205914005381 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 205914005382 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 205914005383 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 205914005384 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 205914005385 Walker A/P-loop; other site 205914005386 ATP binding site [chemical binding]; other site 205914005387 Q-loop/lid; other site 205914005388 ABC transporter signature motif; other site 205914005389 Walker B; other site 205914005390 D-loop; other site 205914005391 H-loop/switch region; other site 205914005392 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 205914005393 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 205914005394 active site 205914005395 (T/H)XGH motif; other site 205914005396 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 205914005397 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 205914005398 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 205914005399 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 205914005400 triosephosphate isomerase; Provisional; Region: PRK14567 205914005401 substrate binding site [chemical binding]; other site 205914005402 dimer interface [polypeptide binding]; other site 205914005403 catalytic triad [active] 205914005404 adenylosuccinate lyase; Provisional; Region: PRK09285 205914005405 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 205914005406 tetramer interface [polypeptide binding]; other site 205914005407 active site 205914005408 putative lysogenization regulator; Reviewed; Region: PRK00218 205914005409 mannonate dehydratase; Provisional; Region: PRK03906 205914005410 mannonate dehydratase; Region: uxuA; TIGR00695 205914005411 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 205914005412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 205914005413 DNA-binding site [nucleotide binding]; DNA binding site 205914005414 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 205914005415 D-mannonate oxidoreductase; Provisional; Region: PRK08277 205914005416 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 205914005417 putative NAD(P) binding site [chemical binding]; other site 205914005418 active site 205914005419 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 205914005420 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 205914005421 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 205914005422 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 205914005423 MFS/sugar transport protein; Region: MFS_2; pfam13347 205914005424 Glucuronate isomerase; Region: UxaC; pfam02614 205914005425 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 205914005426 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 205914005427 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 205914005428 active site 205914005429 intersubunit interface [polypeptide binding]; other site 205914005430 catalytic residue [active] 205914005431 Uncharacterized conserved protein [Function unknown]; Region: COG2938 205914005432 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 205914005433 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 205914005434 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 205914005435 DNA binding residues [nucleotide binding] 205914005436 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 205914005437 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 205914005438 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 205914005439 anti-sigma E factor; Provisional; Region: rseB; PRK09455 205914005440 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 205914005441 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 205914005442 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 205914005443 Walker A motif; other site 205914005444 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 205914005445 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 205914005446 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 205914005447 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 205914005448 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 205914005449 putative active site [active] 205914005450 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 205914005451 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 205914005452 putative active site [active] 205914005453 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 205914005454 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 205914005455 NADP binding site [chemical binding]; other site 205914005456 homopentamer interface [polypeptide binding]; other site 205914005457 substrate binding site [chemical binding]; other site 205914005458 active site 205914005459 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 205914005460 RmuC family; Region: RmuC; pfam02646 205914005461 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 205914005462 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 205914005463 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914005464 trimer interface [polypeptide binding]; other site 205914005465 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914005466 trimer interface [polypeptide binding]; other site 205914005467 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914005468 trimer interface [polypeptide binding]; other site 205914005469 YadA-like C-terminal region; Region: YadA; pfam03895 205914005470 excinuclease ABC subunit B; Provisional; Region: PRK05298 205914005471 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 205914005472 ATP binding site [chemical binding]; other site 205914005473 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 205914005474 nucleotide binding region [chemical binding]; other site 205914005475 ATP-binding site [chemical binding]; other site 205914005476 Ultra-violet resistance protein B; Region: UvrB; pfam12344 205914005477 UvrB/uvrC motif; Region: UVR; pfam02151 205914005478 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 205914005479 nucleoside/Zn binding site; other site 205914005480 dimer interface [polypeptide binding]; other site 205914005481 catalytic motif [active] 205914005482 thymidylate synthase; Reviewed; Region: thyA; PRK01827 205914005483 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 205914005484 dimerization interface [polypeptide binding]; other site 205914005485 active site 205914005486 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 205914005487 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 205914005488 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 plant...; Region: Ap4A_hydrolase_plant_like; cd03671 205914005489 putative active site [active] 205914005490 Ap4A binding site [chemical binding]; other site 205914005491 nudix motif; other site 205914005492 putative metal binding site [ion binding]; other site 205914005493 S-adenosylmethionine synthetase; Validated; Region: PRK05250 205914005494 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 205914005495 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 205914005496 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 205914005497 hypothetical protein; Provisional; Region: PRK04860 205914005498 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 205914005499 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 205914005500 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 205914005501 purine monophosphate binding site [chemical binding]; other site 205914005502 dimer interface [polypeptide binding]; other site 205914005503 putative catalytic residues [active] 205914005504 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 205914005505 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 205914005506 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 205914005507 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 205914005508 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 205914005509 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 205914005510 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 205914005511 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 205914005512 dimer interface [polypeptide binding]; other site 205914005513 active site 205914005514 glycine-pyridoxal phosphate binding site [chemical binding]; other site 205914005515 folate binding site [chemical binding]; other site 205914005516 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 205914005517 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 205914005518 active site 205914005519 substrate-binding site [chemical binding]; other site 205914005520 metal-binding site [ion binding] 205914005521 ATP binding site [chemical binding]; other site 205914005522 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 205914005523 RNase E inhibitor protein; Provisional; Region: PRK11191 205914005524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 205914005525 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 205914005526 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 205914005527 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 205914005528 trimer interface [polypeptide binding]; other site 205914005529 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914005530 trimer interface [polypeptide binding]; other site 205914005531 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914005532 trimer interface [polypeptide binding]; other site 205914005533 Haemagglutinin; Region: HIM; pfam05662 205914005534 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 205914005535 trimer interface [polypeptide binding]; other site 205914005536 Haemagglutinin; Region: HIM; pfam05662 205914005537 YadA-like C-terminal region; Region: YadA; pfam03895 205914005538 DsrH like protein; Region: DsrH; cl17347 205914005539 sulfur relay protein TusC; Validated; Region: PRK00211 205914005540 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 205914005541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 205914005542 YheO-like PAS domain; Region: PAS_6; pfam08348 205914005543 HTH domain; Region: HTH_22; pfam13309 205914005544 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 205914005545 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 205914005546 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 205914005547 hypothetical protein; Provisional; Region: PRK02119 205914005548 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 205914005549 nudix motif; other site 205914005550 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 205914005551 pseudouridine synthase; Region: TIGR00093 205914005552 active site 205914005553 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 205914005554 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 205914005555 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 205914005556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 205914005557 Putative esterase; Region: Esterase; pfam00756 205914005558 elongation factor Tu; Reviewed; Region: PRK00049 205914005559 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 205914005560 G1 box; other site 205914005561 GEF interaction site [polypeptide binding]; other site 205914005562 GTP/Mg2+ binding site [chemical binding]; other site 205914005563 Switch I region; other site 205914005564 G2 box; other site 205914005565 G3 box; other site 205914005566 Switch II region; other site 205914005567 G4 box; other site 205914005568 G5 box; other site 205914005569 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 205914005570 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 205914005571 Antibiotic Binding Site [chemical binding]; other site 205914005572 elongation factor G; Reviewed; Region: PRK00007 205914005573 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 205914005574 G1 box; other site 205914005575 putative GEF interaction site [polypeptide binding]; other site 205914005576 GTP/Mg2+ binding site [chemical binding]; other site 205914005577 Switch I region; other site 205914005578 G2 box; other site 205914005579 G3 box; other site 205914005580 Switch II region; other site 205914005581 G4 box; other site 205914005582 G5 box; other site 205914005583 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 205914005584 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 205914005585 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 205914005586 30S ribosomal protein S7; Validated; Region: PRK05302 205914005587 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 205914005588 S17 interaction site [polypeptide binding]; other site 205914005589 S8 interaction site; other site 205914005590 16S rRNA interaction site [nucleotide binding]; other site 205914005591 streptomycin interaction site [chemical binding]; other site 205914005592 23S rRNA interaction site [nucleotide binding]; other site 205914005593 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 205914005594 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 205914005595 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 205914005596 dimerization interface [polypeptide binding]; other site 205914005597 domain crossover interface; other site 205914005598 redox-dependent activation switch; other site 205914005599 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 205914005600 RNA binding surface [nucleotide binding]; other site 205914005601 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 205914005602 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 205914005603 active site 205914005604 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 205914005605 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 205914005606 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 205914005607 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 205914005608 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 205914005609 putative active site [active] 205914005610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 205914005611 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 205914005612 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 205914005613 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 205914005614 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 205914005615 hypothetical protein; Validated; Region: PRK05445 205914005616 hypothetical protein; Validated; Region: PRK05090 205914005617 YGGT family; Region: YGGT; pfam02325 205914005618 YGGT family; Region: YGGT; cl00508 205914005619 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 205914005620 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 205914005621 Cl binding site [ion binding]; other site 205914005622 oligomer interface [polypeptide binding]; other site 205914005623 hypothetical protein; Provisional; Region: PRK11702 205914005624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 205914005625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 205914005626 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 205914005627 putative dimerization interface [polypeptide binding]; other site 205914005628 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; cl17221 205914005629 transmembrane helices; other site 205914005630 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 205914005631 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 205914005632 catalytic core [active] 205914005633 Domain of unknown function DUF302; Region: DUF302; cl01364 205914005634 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 205914005635 adenine DNA glycosylase; Provisional; Region: PRK10880 205914005636 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 205914005637 minor groove reading motif; other site 205914005638 helix-hairpin-helix signature motif; other site 205914005639 substrate binding pocket [chemical binding]; other site 205914005640 active site 205914005641 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 205914005642 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 205914005643 DNA binding and oxoG recognition site [nucleotide binding] 205914005644 oxidative damage protection protein; Provisional; Region: PRK05408 205914005645 murein transglycosylase C; Provisional; Region: mltC; PRK11671 205914005646 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 205914005647 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 205914005648 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 205914005649 N-acetyl-D-glucosamine binding site [chemical binding]; other site 205914005650 catalytic residue [active] 205914005651 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 205914005652 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 205914005653 active site 205914005654 substrate binding site [chemical binding]; other site 205914005655 metal binding site [ion binding]; metal-binding site 205914005656 ketol-acid reductoisomerase; Validated; Region: PRK05225 205914005657 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 205914005658 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 205914005659 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 205914005660 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 205914005661 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 205914005662 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 205914005663 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 205914005664 molybdopterin cofactor binding site [chemical binding]; other site 205914005665 substrate binding site [chemical binding]; other site 205914005666 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 205914005667 molybdopterin cofactor binding site; other site 205914005668 chaperone protein TorD; Validated; Region: torD; PRK04976 205914005669 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 205914005670 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 205914005671 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 205914005672 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 205914005673 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 205914005674 catalytic residues [active] 205914005675 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 205914005676 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 205914005677 Ligand Binding Site [chemical binding]; other site 205914005678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 205914005679 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 205914005680 ApbE family; Region: ApbE; pfam02424 205914005681 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 205914005682 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 205914005683 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 205914005684 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+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 205914005685 FAD binding pocket [chemical binding]; other site 205914005686 FAD binding motif [chemical binding]; other site 205914005687 phosphate binding motif [ion binding]; other site 205914005688 beta-alpha-beta structure motif; other site 205914005689 NAD binding pocket [chemical binding]; other site 205914005690 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 205914005691 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 205914005692 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 205914005693 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 205914005694 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 205914005695 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 205914005696 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 205914005697 E3 interaction surface; other site 205914005698 lipoyl attachment site [posttranslational modification]; other site 205914005699 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 205914005700 BolA-like protein; Region: BolA; cl00386 205914005701 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 205914005702 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 205914005703 gamma subunit interface [polypeptide binding]; other site 205914005704 epsilon subunit interface [polypeptide binding]; other site 205914005705 LBP interface [polypeptide binding]; other site 205914005706 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 205914005707 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 205914005708 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 205914005709 alpha subunit interaction interface [polypeptide binding]; other site 205914005710 Walker A motif; other site 205914005711 ATP binding site [chemical binding]; other site 205914005712 Walker B motif; other site 205914005713 inhibitor binding site; inhibition site 205914005714 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 205914005715 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 205914005716 core domain interface [polypeptide binding]; other site 205914005717 delta subunit interface [polypeptide binding]; other site 205914005718 epsilon subunit interface [polypeptide binding]; other site 205914005719 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 205914005720 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 205914005721 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 205914005722 beta subunit interaction interface [polypeptide binding]; other site 205914005723 Walker A motif; other site 205914005724 ATP binding site [chemical binding]; other site 205914005725 Walker B motif; other site 205914005726 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 205914005727 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 205914005728 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 205914005729 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 205914005730 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 205914005731 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 205914005732 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 205914005733 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 205914005734 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 205914005735 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 205914005736 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 205914005737 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 205914005738 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 205914005739 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 205914005740 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 205914005741 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 205914005742 FMN-binding protein MioC; Provisional; Region: PRK09004 205914005743 Protein of unknown function (DUF904); Region: DUF904; pfam06005 205914005744 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 205914005745 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 205914005746 ATP binding site [chemical binding]; other site 205914005747 Mg2+ binding site [ion binding]; other site 205914005748 G-X-G motif; other site 205914005749 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 205914005750 anchoring element; other site 205914005751 dimer interface [polypeptide binding]; other site 205914005752 ATP binding site [chemical binding]; other site 205914005753 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 205914005754 active site 205914005755 putative metal-binding site [ion binding]; other site 205914005756 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 205914005757 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 205914005758 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 205914005759 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 205914005760 ATP binding site [chemical binding]; other site 205914005761 putative Mg++ binding site [ion binding]; other site 205914005762 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 205914005763 nucleotide binding region [chemical binding]; other site 205914005764 ATP-binding site [chemical binding]; other site 205914005765 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 205914005766 HRDC domain; Region: HRDC; pfam00570 205914005767 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...; Region: Frataxin; cd00503 205914005768 putative iron binding site [ion binding]; other site 205914005769 diaminopimelate decarboxylase; Region: lysA; TIGR01048 205914005770 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 205914005771 active site 205914005772 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 205914005773 substrate binding site [chemical binding]; other site 205914005774 catalytic residues [active] 205914005775 dimer interface [polypeptide binding]; other site 205914005776 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 205914005777 Na2 binding site [ion binding]; other site 205914005778 putative substrate binding site 1 [chemical binding]; other site 205914005779 Na binding site 1 [ion binding]; other site 205914005780 putative substrate binding site 2 [chemical binding]; other site 205914005781 TfoX N-terminal domain; Region: TfoX_N; pfam04993 205914005782 TfoX C-terminal domain; Region: TfoX_C; pfam04994 205914005783 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 205914005784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 205914005785 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 205914005786 dimerization interface [polypeptide binding]; other site 205914005787 substrate binding pocket [chemical binding]; other site 205914005788 permease DsdX; Provisional; Region: PRK09921 205914005789 gluconate transporter; Region: gntP; TIGR00791 205914005790 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 205914005791 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 205914005792 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 205914005793 catalytic residue [active] 205914005794 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 205914005795 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 205914005796 P-loop; other site 205914005797 Magnesium ion binding site [ion binding]; other site 205914005798 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 205914005799 Magnesium ion binding site [ion binding]; other site 205914005800 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 205914005801 replicative DNA helicase; Region: DnaB; TIGR00665 205914005802 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 205914005803 Walker A motif; other site 205914005804 ATP binding site [chemical binding]; other site 205914005805 Walker B motif; other site 205914005806 DNA binding loops [nucleotide binding] 205914005807 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 205914005808 ParB-like nuclease domain; Region: ParBc; pfam02195 205914005809 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 205914005810 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 205914005811 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 205914005812 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 205914005813 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 205914005814 dimer interface [polypeptide binding]; other site 205914005815 ssDNA binding site [nucleotide binding]; other site 205914005816 tetramer (dimer of dimers) interface [polypeptide binding]; other site 205914005817 DNA topoisomerase III; Provisional; Region: PRK07726 205914005818 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 205914005819 active site 205914005820 putative interdomain interaction site [polypeptide binding]; other site 205914005821 putative metal-binding site [ion binding]; other site 205914005822 putative nucleotide binding site [chemical binding]; other site 205914005823 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 205914005824 domain I; other site 205914005825 DNA binding groove [nucleotide binding] 205914005826 phosphate binding site [ion binding]; other site 205914005827 domain II; other site 205914005828 domain III; other site 205914005829 nucleotide binding site [chemical binding]; other site 205914005830 catalytic site [active] 205914005831 domain IV; other site 205914005832 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 205914005833 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 205914005834 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 205914005835 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 205914005836 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 205914005837 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 205914005838 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 205914005839 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 205914005840 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 205914005841 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 205914005842 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 205914005843 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 205914005844 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 205914005845 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 205914005846 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 205914005847 Protein of unknown function (DUF2976); Region: DUF2976; pfam11190 205914005848 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 205914005849 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 205914005850 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 205914005851 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 205914005852 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 205914005853 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 205914005854 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 205914005855 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 205914005856 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 205914005857 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 205914005858 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 205914005859 oligomeric interface; other site 205914005860 putative active site [active] 205914005861 homodimer interface [polypeptide binding]; other site 205914005862 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 205914005863 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 205914005864 oligomeric interface; other site 205914005865 putative active site [active] 205914005866 homodimer interface [polypeptide binding]; other site 205914005867 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 205914005868 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 205914005869 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 205914005870 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 205914005871 integrating conjugative element protein, PFL_4709 family; Region: conj_TIGR03757 205914005872 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 205914005873 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 205914005874 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 205914005875 Coenzyme A binding pocket [chemical binding]; other site 205914005876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 205914005877 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 205914005878 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 205914005879 sequence-specific DNA binding site [nucleotide binding]; other site 205914005880 salt bridge; other site 205914005881 PIN domain; Region: PIN; pfam01850 205914005882 putative active site [active] 205914005883 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 205914005884 AAA domain; Region: AAA_21; pfam13304