-- dump date 20140619_150759 -- class Genbank::misc_feature -- table misc_feature_note -- id note 886377000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 886377000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 886377000003 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 886377000004 Walker A motif; other site 886377000005 ATP binding site [chemical binding]; other site 886377000006 Walker B motif; other site 886377000007 arginine finger; other site 886377000008 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 886377000009 DnaA box-binding interface [nucleotide binding]; other site 886377000010 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 886377000011 Low molecular weight phosphatase family; Region: LMWPc; cd00115 886377000012 active site 886377000013 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 886377000014 putative SAM binding site [chemical binding]; other site 886377000015 homodimer interface [polypeptide binding]; other site 886377000016 YceG-like family; Region: YceG; pfam02618 886377000017 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 886377000018 dimerization interface [polypeptide binding]; other site 886377000019 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 886377000020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377000021 Coenzyme A binding pocket [chemical binding]; other site 886377000022 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 886377000023 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 886377000024 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 886377000025 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 886377000026 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 886377000027 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 886377000028 protein binding site [polypeptide binding]; other site 886377000029 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 886377000030 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 886377000031 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 886377000032 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 886377000033 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 886377000034 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 886377000035 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 886377000036 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 886377000037 fructuronate transporter; Provisional; Region: PRK10034; cl15264 886377000038 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 886377000039 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 886377000040 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 886377000041 oligomer interface [polypeptide binding]; other site 886377000042 active site 886377000043 metal binding site [ion binding]; metal-binding site 886377000044 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_33; cd04692 886377000045 nudix motif; other site 886377000046 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 886377000047 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 886377000048 dimer interface [polypeptide binding]; other site 886377000049 motif 1; other site 886377000050 active site 886377000051 motif 2; other site 886377000052 motif 3; other site 886377000053 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 886377000054 anticodon binding site; other site 886377000055 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 886377000056 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 886377000057 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 886377000058 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 886377000059 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 886377000060 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 886377000061 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377000062 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 886377000063 active site 886377000064 phosphorylation site [posttranslational modification] 886377000065 intermolecular recognition site; other site 886377000066 dimerization interface [polypeptide binding]; other site 886377000067 LytTr DNA-binding domain; Region: LytTR; smart00850 886377000068 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 886377000069 primosomal protein N' Region: priA; TIGR00595 886377000070 ATP binding site [chemical binding]; other site 886377000071 putative Mg++ binding site [ion binding]; other site 886377000072 helicase superfamily c-terminal domain; Region: HELICc; smart00490 886377000073 C2 domain; Region: C2; cl14603 886377000074 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 886377000075 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 886377000076 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 886377000077 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 886377000078 dimerization interface [polypeptide binding]; other site 886377000079 active site 886377000080 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 886377000081 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 886377000082 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 886377000083 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 886377000084 ligand binding site [chemical binding]; other site 886377000085 NAD binding site [chemical binding]; other site 886377000086 tetramer interface [polypeptide binding]; other site 886377000087 catalytic site [active] 886377000088 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 886377000089 L-serine binding site [chemical binding]; other site 886377000090 ACT domain interface; other site 886377000091 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 886377000092 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 886377000093 active site 886377000094 dimerization interface [polypeptide binding]; other site 886377000095 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 886377000096 DEAD-like helicases superfamily; Region: DEXDc; smart00487 886377000097 ATP binding site [chemical binding]; other site 886377000098 Mg++ binding site [ion binding]; other site 886377000099 motif III; other site 886377000100 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 886377000101 nucleotide binding region [chemical binding]; other site 886377000102 ATP-binding site [chemical binding]; other site 886377000103 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 886377000104 RNA binding site [nucleotide binding]; other site 886377000105 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377000106 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 886377000107 active site 886377000108 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 886377000109 active site 886377000110 catalytic site [active] 886377000111 catalytic site [active] 886377000112 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 886377000113 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377000114 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 886377000115 putative hydrophobic ligand binding site [chemical binding]; other site 886377000116 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 886377000117 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 886377000118 putative substrate binding site [chemical binding]; other site 886377000119 active site 886377000120 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 886377000121 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 886377000122 conserved cys residue [active] 886377000123 NAD-dependent deacetylase; Provisional; Region: PRK00481 886377000124 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 886377000125 NAD+ binding site [chemical binding]; other site 886377000126 substrate binding site [chemical binding]; other site 886377000127 Zn binding site [ion binding]; other site 886377000128 Haem-binding domain; Region: Haem_bd; pfam14376 886377000129 adenylosuccinate lyase; Provisional; Region: PRK09285 886377000130 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 886377000131 tetramer interface [polypeptide binding]; other site 886377000132 active site 886377000133 mechanosensitive channel MscS; Provisional; Region: PRK10334 886377000134 Conserved TM helix; Region: TM_helix; pfam05552 886377000135 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377000136 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 886377000137 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 886377000138 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000139 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377000140 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 886377000141 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 886377000142 DNA binding residues [nucleotide binding] 886377000143 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 886377000144 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 886377000145 Catalytic dyad [active] 886377000146 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 886377000147 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 886377000148 substrate binding site [chemical binding]; other site 886377000149 oxyanion hole (OAH) forming residues; other site 886377000150 trimer interface [polypeptide binding]; other site 886377000151 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 886377000152 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377000153 ligand binding site [chemical binding]; other site 886377000154 flexible hinge region; other site 886377000155 Uncharacterized conserved protein [Function unknown]; Region: COG2128 886377000156 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 886377000157 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 886377000158 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 886377000159 ATP-grasp domain; Region: ATP-grasp_4; cl17255 886377000160 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 886377000161 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 886377000162 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 886377000163 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 886377000164 ATP-grasp domain; Region: ATP-grasp_4; cl17255 886377000165 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 886377000166 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377000167 PIN domain; Region: PIN_3; pfam13470 886377000168 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 886377000169 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 886377000170 N-acetyl-D-glucosamine binding site [chemical binding]; other site 886377000171 catalytic residue [active] 886377000172 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 886377000173 Predicted acetyltransferase [General function prediction only]; Region: COG2388 886377000174 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 886377000175 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 886377000176 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 886377000177 FeS/SAM binding site; other site 886377000178 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 886377000179 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 886377000180 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 886377000181 Amidohydrolase; Region: Amidohydro_5; pfam13594 886377000182 Amidohydrolase; Region: Amidohydro_4; pfam13147 886377000183 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377000184 active site 886377000185 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377000186 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377000187 Domain of unknown function (DUF955); Region: DUF955; cl01076 886377000188 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 886377000189 active site 886377000190 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 886377000191 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 886377000192 active site 886377000193 metal binding site [ion binding]; metal-binding site 886377000194 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 886377000195 DoxX; Region: DoxX; cl17842 886377000196 DsrE/DsrF-like family; Region: DrsE; pfam02635 886377000197 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 886377000198 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 886377000199 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377000200 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 886377000201 active site 886377000202 phosphorylation site [posttranslational modification] 886377000203 intermolecular recognition site; other site 886377000204 dimerization interface [polypeptide binding]; other site 886377000205 LytTr DNA-binding domain; Region: LytTR; smart00850 886377000206 Histidine kinase; Region: His_kinase; pfam06580 886377000207 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 886377000208 Mg2+ binding site [ion binding]; other site 886377000209 hypothetical protein 886377000210 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 886377000211 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 886377000212 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 886377000213 putative trimer interface [polypeptide binding]; other site 886377000214 putative CoA binding site [chemical binding]; other site 886377000215 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 886377000216 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 886377000217 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 886377000218 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 886377000219 Ligand binding site; other site 886377000220 Putative Catalytic site; other site 886377000221 DXD motif; other site 886377000222 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 886377000223 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 886377000224 active site 886377000225 substrate binding site [chemical binding]; other site 886377000226 metal binding site [ion binding]; metal-binding site 886377000227 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 886377000228 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 886377000229 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 886377000230 Walker A/P-loop; other site 886377000231 ATP binding site [chemical binding]; other site 886377000232 Q-loop/lid; other site 886377000233 ABC transporter signature motif; other site 886377000234 Walker B; other site 886377000235 D-loop; other site 886377000236 H-loop/switch region; other site 886377000237 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377000238 16S rRNA methyltransferase B; Provisional; Region: PRK14902 886377000239 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 886377000240 S-adenosylmethionine binding site [chemical binding]; other site 886377000241 short chain dehydrogenase; Provisional; Region: PRK06180 886377000242 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 886377000243 NADP binding site [chemical binding]; other site 886377000244 active site 886377000245 steroid binding site; other site 886377000246 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377000247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377000248 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 886377000249 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 886377000250 putative metal binding site [ion binding]; other site 886377000251 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 886377000252 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 886377000253 dimerization interface [polypeptide binding]; other site 886377000254 ATP binding site [chemical binding]; other site 886377000255 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 886377000256 dimerization interface [polypeptide binding]; other site 886377000257 ATP binding site [chemical binding]; other site 886377000258 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 886377000259 putative active site [active] 886377000260 catalytic triad [active] 886377000261 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 886377000262 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 886377000263 acyl-activating enzyme (AAE) consensus motif; other site 886377000264 putative AMP binding site [chemical binding]; other site 886377000265 putative active site [active] 886377000266 putative CoA binding site [chemical binding]; other site 886377000267 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 886377000268 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377000269 Transcriptional regulators [Transcription]; Region: MarR; COG1846 886377000270 MarR family; Region: MarR; pfam01047 886377000271 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 886377000272 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 886377000273 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 886377000274 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 886377000275 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 886377000276 substrate binding site [chemical binding]; other site 886377000277 oxyanion hole (OAH) forming residues; other site 886377000278 trimer interface [polypeptide binding]; other site 886377000279 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 886377000280 four helix bundle protein; Region: TIGR02436 886377000281 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 886377000282 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 886377000283 dimer interface [polypeptide binding]; other site 886377000284 active site 886377000285 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 886377000286 four helix bundle protein; Region: TIGR02436 886377000287 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377000288 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377000289 active site 886377000290 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 886377000291 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 886377000292 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 886377000293 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 886377000294 active site 886377000295 homotetramer interface [polypeptide binding]; other site 886377000296 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 886377000297 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 886377000298 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 886377000299 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 886377000300 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 886377000301 putative metal binding site [ion binding]; other site 886377000302 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 886377000303 Interdomain contacts; other site 886377000304 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 886377000305 Zn binding site [ion binding]; other site 886377000306 Trehalose utilisation; Region: ThuA; pfam06283 886377000307 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 886377000308 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377000309 Cytochrome c; Region: Cytochrom_C; cl11414 886377000310 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 886377000311 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377000312 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 886377000313 putative substrate translocation pore; other site 886377000314 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377000315 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377000316 Amidohydrolase; Region: Amidohydro_4; pfam13147 886377000317 active site 886377000318 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 886377000319 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 886377000320 E-class dimer interface [polypeptide binding]; other site 886377000321 P-class dimer interface [polypeptide binding]; other site 886377000322 active site 886377000323 Cu2+ binding site [ion binding]; other site 886377000324 Zn2+ binding site [ion binding]; other site 886377000325 YceI-like domain; Region: YceI; cl01001 886377000326 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 886377000327 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000328 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 886377000329 DNA binding residues [nucleotide binding] 886377000330 Anti-sigma-K factor rskA; Region: RskA; pfam10099 886377000331 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 886377000332 oligomer interface [polypeptide binding]; other site 886377000333 metal binding site [ion binding]; metal-binding site 886377000334 metal binding site [ion binding]; metal-binding site 886377000335 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 886377000336 Cl binding site [ion binding]; other site 886377000337 aspartate ring; other site 886377000338 basic sphincter; other site 886377000339 putative hydrophobic gate; other site 886377000340 periplasmic entrance; other site 886377000341 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 886377000342 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377000343 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377000344 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 886377000345 TPR motif; other site 886377000346 binding surface 886377000347 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 886377000348 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 886377000349 Rhoptry-associated protein 1 (RAP-1); Region: RAP-1; pfam03085 886377000350 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377000351 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 886377000352 active site 886377000353 phosphorylation site [posttranslational modification] 886377000354 intermolecular recognition site; other site 886377000355 dimerization interface [polypeptide binding]; other site 886377000356 LytTr DNA-binding domain; Region: LytTR; smart00850 886377000357 2TM domain; Region: 2TM; pfam13239 886377000358 2TM domain; Region: 2TM; pfam13239 886377000359 2TM domain; Region: 2TM; pfam13239 886377000360 2TM domain; Region: 2TM; pfam13239 886377000362 Histidine kinase; Region: His_kinase; pfam06580 886377000363 2TM domain; Region: 2TM; pfam13239 886377000364 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 886377000365 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 886377000366 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 886377000367 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 886377000368 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377000369 Coenzyme A binding pocket [chemical binding]; other site 886377000370 Predicted membrane protein [Function unknown]; Region: COG2259 886377000371 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377000372 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 886377000373 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 886377000374 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 886377000375 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 886377000376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 886377000377 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 886377000378 dimerization interface [polypeptide binding]; other site 886377000379 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 886377000380 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 886377000381 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 886377000382 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 886377000383 dimer interface [polypeptide binding]; other site 886377000384 ADP-ribose binding site [chemical binding]; other site 886377000385 active site 886377000386 nudix motif; other site 886377000387 metal binding site [ion binding]; metal-binding site 886377000388 Uncharacterized conserved protein [Function unknown]; Region: COG5476 886377000389 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 886377000390 MlrC C-terminus; Region: MlrC_C; pfam07171 886377000391 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 886377000392 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 886377000393 four helix bundle protein; Region: TIGR02436 886377000394 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 886377000395 Tic20-like protein; Region: Tic20; pfam09685 886377000396 SnoaL-like domain; Region: SnoaL_2; pfam12680 886377000397 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 886377000398 Predicted transcriptional regulators [Transcription]; Region: COG1695 886377000399 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 886377000400 putative Zn2+ binding site [ion binding]; other site 886377000401 putative DNA binding site [nucleotide binding]; other site 886377000402 PspC domain; Region: PspC; pfam04024 886377000403 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 886377000404 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377000405 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377000406 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 886377000407 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 886377000408 active site 886377000409 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 886377000410 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377000411 catalytic residue [active] 886377000412 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 886377000413 NlpC/P60 family; Region: NLPC_P60; pfam00877 886377000414 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377000415 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377000416 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377000417 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377000418 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377000419 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 886377000420 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 886377000421 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 886377000422 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377000423 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 886377000424 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 886377000425 ATP-grasp domain; Region: ATP-grasp_4; cl17255 886377000426 Uncharacterized ACR, YagE family COG1723; Region: DUF155; pfam02582 886377000427 deoxyhypusine synthase; Region: dhys; TIGR00321 886377000428 Deoxyhypusine synthase; Region: DS; cl00826 886377000429 agmatinase; Region: agmatinase; TIGR01230 886377000430 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 886377000431 putative active site [active] 886377000432 Mn binding site [ion binding]; other site 886377000433 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 886377000434 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 886377000435 dimer interface [polypeptide binding]; other site 886377000436 active site 886377000437 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377000438 catalytic residues [active] 886377000439 substrate binding site [chemical binding]; other site 886377000440 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 886377000441 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377000442 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 886377000443 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377000444 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377000445 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 886377000446 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 886377000447 catalytic loop [active] 886377000448 iron binding site [ion binding]; other site 886377000449 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 886377000450 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 886377000451 putative catalytic site [active] 886377000452 putative metal binding site [ion binding]; other site 886377000453 putative phosphate binding site [ion binding]; other site 886377000454 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 886377000455 active site 886377000456 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 886377000457 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 886377000458 active site 886377000459 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 886377000460 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 886377000461 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 886377000462 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377000463 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377000464 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 886377000465 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 886377000466 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 886377000467 DNA binding site [nucleotide binding] 886377000468 active site 886377000469 Predicted transcriptional regulator [Transcription]; Region: COG2378 886377000470 HTH domain; Region: HTH_11; pfam08279 886377000471 WYL domain; Region: WYL; pfam13280 886377000472 DinB family; Region: DinB; cl17821 886377000473 DinB superfamily; Region: DinB_2; pfam12867 886377000474 VPS10 domain; Region: VPS10; smart00602 886377000475 BNR repeat-like domain; Region: BNR_2; pfam13088 886377000476 VPS10 domain; Region: VPS10; smart00602 886377000477 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 886377000478 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 886377000479 conserved cys residue [active] 886377000480 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377000481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377000482 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 886377000483 RibD C-terminal domain; Region: RibD_C; cl17279 886377000484 DinB superfamily; Region: DinB_2; pfam12867 886377000485 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 886377000486 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377000487 active site 886377000488 metal binding site [ion binding]; metal-binding site 886377000489 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_24; cd09012 886377000490 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377000491 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 886377000492 dimer interface [polypeptide binding]; other site 886377000493 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377000494 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377000495 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 886377000496 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 886377000497 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 886377000498 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000499 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 886377000500 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 886377000501 DNA binding residues [nucleotide binding] 886377000502 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 886377000503 putative metal binding site [ion binding]; other site 886377000504 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 886377000505 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 886377000506 Galactose oxidase, central domain; Region: Kelch_3; cl02701 886377000507 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 886377000508 Histidine kinase; Region: His_kinase; pfam06580 886377000509 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 886377000510 Response regulator receiver domain; Region: Response_reg; pfam00072 886377000511 active site 886377000512 phosphorylation site [posttranslational modification] 886377000513 intermolecular recognition site; other site 886377000514 dimerization interface [polypeptide binding]; other site 886377000515 LytTr DNA-binding domain; Region: LytTR; smart00850 886377000516 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377000517 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 886377000518 Outer membrane efflux protein; Region: OEP; pfam02321 886377000519 Outer membrane efflux protein; Region: OEP; pfam02321 886377000520 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377000521 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377000522 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 886377000523 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 886377000524 Walker A/P-loop; other site 886377000525 ATP binding site [chemical binding]; other site 886377000526 Q-loop/lid; other site 886377000527 ABC transporter signature motif; other site 886377000528 Walker B; other site 886377000529 D-loop; other site 886377000530 H-loop/switch region; other site 886377000531 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 886377000532 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 886377000533 Walker A/P-loop; other site 886377000534 ATP binding site [chemical binding]; other site 886377000535 Q-loop/lid; other site 886377000536 ABC transporter signature motif; other site 886377000537 Walker B; other site 886377000538 D-loop; other site 886377000539 H-loop/switch region; other site 886377000540 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 886377000541 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 886377000542 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 886377000543 ABC-2 type transporter; Region: ABC2_membrane; cl17235 886377000544 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 886377000545 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 886377000546 ATP cone domain; Region: ATP-cone; pfam03477 886377000547 Restriction endonuclease; Region: Mrr_cat; pfam04471 886377000548 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 886377000549 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 886377000550 Sulfate transporter family; Region: Sulfate_transp; pfam00916 886377000551 Sulfate transporter family; Region: Sulfate_transp; pfam00916 886377000552 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 886377000553 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 886377000554 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 886377000555 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 886377000556 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 886377000557 NAD(P) binding site [chemical binding]; other site 886377000558 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 886377000559 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 886377000560 active site 886377000561 phosphorylation site [posttranslational modification] 886377000562 intermolecular recognition site; other site 886377000563 dimerization interface [polypeptide binding]; other site 886377000564 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 886377000565 Walker A motif; other site 886377000566 ATP binding site [chemical binding]; other site 886377000567 Walker B motif; other site 886377000568 arginine finger; other site 886377000569 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 886377000570 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 886377000571 dimer interface [polypeptide binding]; other site 886377000572 phosphorylation site [posttranslational modification] 886377000573 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 886377000574 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 886377000575 ATP binding site [chemical binding]; other site 886377000576 Mg2+ binding site [ion binding]; other site 886377000577 G-X-G motif; other site 886377000578 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 886377000579 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 886377000580 non-specific DNA binding site [nucleotide binding]; other site 886377000581 salt bridge; other site 886377000582 sequence-specific DNA binding site [nucleotide binding]; other site 886377000583 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 886377000584 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 886377000585 cofactor binding site; other site 886377000586 DNA binding site [nucleotide binding] 886377000587 substrate interaction site [chemical binding]; other site 886377000588 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 886377000589 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 886377000590 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377000591 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 886377000592 ATP binding site [chemical binding]; other site 886377000593 Mg2+ binding site [ion binding]; other site 886377000594 G-X-G motif; other site 886377000595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 886377000596 phosphorylation site [posttranslational modification] 886377000597 intermolecular recognition site; other site 886377000598 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377000599 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000600 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; cl17257 886377000601 DNA binding residues [nucleotide binding] 886377000602 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 886377000603 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 886377000604 non-specific DNA binding site [nucleotide binding]; other site 886377000605 salt bridge; other site 886377000606 sequence-specific DNA binding site [nucleotide binding]; other site 886377000607 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 886377000608 active site 886377000609 DNA binding site [nucleotide binding] 886377000610 Int/Topo IB signature motif; other site 886377000611 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 886377000612 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 886377000613 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 886377000614 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 886377000615 putative active site [active] 886377000616 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 886377000617 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 886377000618 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 886377000619 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 886377000620 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 886377000621 active site 886377000622 trimer interface [polypeptide binding]; other site 886377000623 allosteric site; other site 886377000624 active site lid [active] 886377000625 hexamer (dimer of trimers) interface [polypeptide binding]; other site 886377000626 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 886377000627 muropeptide transporter; Validated; Region: ampG; cl17669 886377000628 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 886377000629 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 886377000630 Methyltransferase domain; Region: Methyltransf_23; pfam13489 886377000631 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 886377000632 S-adenosylmethionine binding site [chemical binding]; other site 886377000633 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 886377000634 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 886377000635 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 886377000636 putative substrate translocation pore; other site 886377000637 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377000638 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377000639 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 886377000640 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 886377000641 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 886377000642 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 886377000643 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 886377000644 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 886377000645 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 886377000646 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 886377000647 carboxyltransferase (CT) interaction site; other site 886377000648 biotinylation site [posttranslational modification]; other site 886377000649 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 886377000650 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 886377000651 ATP-binding site [chemical binding]; other site 886377000652 Sugar specificity; other site 886377000653 Pyrimidine base specificity; other site 886377000654 Septum formation initiator; Region: DivIC; cl17659 886377000655 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 886377000656 heterodimer interface [polypeptide binding]; other site 886377000657 substrate interaction site [chemical binding]; other site 886377000658 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 886377000659 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 886377000660 active site 886377000661 substrate binding site [chemical binding]; other site 886377000662 coenzyme B12 binding site [chemical binding]; other site 886377000663 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 886377000664 B12 binding site [chemical binding]; other site 886377000665 cobalt ligand [ion binding]; other site 886377000666 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 886377000667 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 886377000668 P-loop; other site 886377000669 Magnesium ion binding site [ion binding]; other site 886377000670 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 886377000671 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 886377000672 Magnesium ion binding site [ion binding]; other site 886377000673 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 886377000674 ParB-like nuclease domain; Region: ParBc; pfam02195 886377000675 dihydrodipicolinate reductase; Provisional; Region: PRK00048 886377000676 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 886377000677 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 886377000678 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 886377000679 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 886377000680 Catalytic site [active] 886377000681 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 886377000682 WbqC-like protein family; Region: WbqC; pfam08889 886377000683 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 886377000684 putative catalytic site [active] 886377000685 putative metal binding site [ion binding]; other site 886377000686 putative phosphate binding site [ion binding]; other site 886377000687 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 886377000688 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 886377000689 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 886377000690 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 886377000691 ATP binding site [chemical binding]; other site 886377000692 Mg2+ binding site [ion binding]; other site 886377000693 G-X-G motif; other site 886377000694 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 886377000695 ATP binding site [chemical binding]; other site 886377000696 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 886377000697 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 886377000698 homopentamer interface [polypeptide binding]; other site 886377000699 active site 886377000700 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 886377000701 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 886377000702 binding surface 886377000703 TPR motif; other site 886377000704 recombination protein F; Reviewed; Region: recF; PRK00064 886377000705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377000706 Walker A/P-loop; other site 886377000707 ATP binding site [chemical binding]; other site 886377000708 Q-loop/lid; other site 886377000709 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377000710 ABC transporter signature motif; other site 886377000711 Walker B; other site 886377000712 D-loop; other site 886377000713 H-loop/switch region; other site 886377000714 Protein of unknown function (DUF721); Region: DUF721; pfam05258 886377000715 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 886377000716 active site 886377000717 multimer interface [polypeptide binding]; other site 886377000718 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 886377000719 putative active site [active] 886377000720 putative metal binding site [ion binding]; other site 886377000721 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 886377000722 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 886377000723 DHH family; Region: DHH; pfam01368 886377000724 DHHA1 domain; Region: DHHA1; pfam02272 886377000725 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 886377000726 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 886377000727 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 886377000728 active site 886377000729 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 886377000730 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 886377000731 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377000732 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377000733 active site 886377000734 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377000735 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 886377000736 active site 886377000737 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377000738 Amidohydrolase; Region: Amidohydro_4; pfam13147 886377000739 active site 886377000740 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 886377000741 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 886377000742 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 886377000743 Peptidase family M48; Region: Peptidase_M48; pfam01435 886377000744 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 886377000745 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 886377000746 Zn2+ binding site [ion binding]; other site 886377000747 Mg2+ binding site [ion binding]; other site 886377000748 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 886377000749 synthetase active site [active] 886377000750 NTP binding site [chemical binding]; other site 886377000751 metal binding site [ion binding]; metal-binding site 886377000752 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 886377000753 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 886377000754 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 886377000755 metal binding site 2 [ion binding]; metal-binding site 886377000756 putative DNA binding helix; other site 886377000757 metal binding site 1 [ion binding]; metal-binding site 886377000758 dimer interface [polypeptide binding]; other site 886377000759 structural Zn2+ binding site [ion binding]; other site 886377000760 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 886377000761 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 886377000762 GDP-binding site [chemical binding]; other site 886377000763 ACT binding site; other site 886377000764 IMP binding site; other site 886377000765 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 886377000766 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 886377000767 dimerization interface [polypeptide binding]; other site 886377000768 DPS ferroxidase diiron center [ion binding]; other site 886377000769 ion pore; other site 886377000770 OstA-like protein; Region: OstA_2; pfam13100 886377000771 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 886377000772 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 886377000773 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 886377000774 inhibitor-cofactor binding pocket; inhibition site 886377000775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377000776 catalytic residue [active] 886377000777 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 886377000778 TPR motif; other site 886377000779 TPR repeat; Region: TPR_11; pfam13414 886377000780 binding surface 886377000781 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 886377000782 TPR motif; other site 886377000783 binding surface 886377000784 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 886377000785 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 886377000786 binding surface 886377000787 TPR motif; other site 886377000788 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 886377000789 TPR motif; other site 886377000790 binding surface 886377000791 Domain of unknown function (DUF368); Region: DUF368; pfam04018 886377000792 Domain of unknown function (DUF368); Region: DUF368; pfam04018 886377000793 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 886377000794 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 886377000795 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 886377000796 shikimate binding site; other site 886377000797 NAD(P) binding site [chemical binding]; other site 886377000798 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000799 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000800 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000801 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000802 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000803 FOG: CBS domain [General function prediction only]; Region: COG0517 886377000804 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 886377000805 phosphodiesterase; Provisional; Region: PRK12704 886377000806 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 886377000807 Zn2+ binding site [ion binding]; other site 886377000808 Mg2+ binding site [ion binding]; other site 886377000809 Cell division protein ZapA; Region: ZapA; pfam05164 886377000810 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 886377000811 Peptidase family M23; Region: Peptidase_M23; pfam01551 886377000812 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 886377000813 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 886377000814 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377000815 catalytic residue [active] 886377000816 Smr domain; Region: Smr; pfam01713 886377000817 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 886377000818 Interferon-induced transmembrane protein; Region: CD225; pfam04505 886377000819 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 886377000820 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 886377000821 ATP binding site [chemical binding]; other site 886377000822 putative Mg++ binding site [ion binding]; other site 886377000823 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 886377000824 nucleotide binding region [chemical binding]; other site 886377000825 ATP-binding site [chemical binding]; other site 886377000826 RQC domain; Region: RQC; pfam09382 886377000827 HRDC domain; Region: HRDC; pfam00570 886377000828 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 886377000829 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 886377000830 putative active site [active] 886377000831 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 886377000832 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 886377000833 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 886377000834 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 886377000835 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 886377000836 Walker A/P-loop; other site 886377000837 ATP binding site [chemical binding]; other site 886377000838 Q-loop/lid; other site 886377000839 ABC transporter signature motif; other site 886377000840 Walker B; other site 886377000841 D-loop; other site 886377000842 H-loop/switch region; other site 886377000843 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 886377000844 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 886377000845 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 886377000846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377000847 Walker A/P-loop; other site 886377000848 ATP binding site [chemical binding]; other site 886377000849 Q-loop/lid; other site 886377000850 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 886377000851 ABC transporter signature motif; other site 886377000852 Walker B; other site 886377000853 D-loop; other site 886377000854 ABC transporter; Region: ABC_tran_2; pfam12848 886377000855 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 886377000856 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 886377000857 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 886377000858 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 886377000859 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 886377000860 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; cl17351 886377000861 nucleotide binding region [chemical binding]; other site 886377000862 ATP-binding site [chemical binding]; other site 886377000863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 886377000864 Histidine kinase; Region: HisKA_2; pfam07568 886377000865 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 886377000866 ATP binding site [chemical binding]; other site 886377000867 Mg2+ binding site [ion binding]; other site 886377000868 G-X-G motif; other site 886377000869 methionine sulfoxide reductase A; Provisional; Region: PRK14054 886377000870 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 886377000871 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000872 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 886377000873 DNA binding residues [nucleotide binding] 886377000874 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 886377000875 membrane ATPase/protein kinase; Provisional; Region: PRK09435 886377000876 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 886377000877 Walker A; other site 886377000878 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 886377000879 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 886377000880 Ligand binding site; other site 886377000881 Putative Catalytic site; other site 886377000882 DXD motif; other site 886377000883 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 886377000884 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 886377000885 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 886377000886 PAP2_like_4 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_4; cd03395 886377000887 active site 886377000888 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 886377000889 multidrug efflux protein; Reviewed; Region: PRK01766 886377000890 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 886377000891 cation binding site [ion binding]; other site 886377000892 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 886377000893 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 886377000894 homodimer interface [polypeptide binding]; other site 886377000895 metal binding site [ion binding]; metal-binding site 886377000896 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 886377000897 homodimer interface [polypeptide binding]; other site 886377000898 active site 886377000899 putative chemical substrate binding site [chemical binding]; other site 886377000900 metal binding site [ion binding]; metal-binding site 886377000901 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_7; cd04502 886377000902 active site 886377000903 catalytic triad [active] 886377000904 oxyanion hole [active] 886377000905 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 886377000906 A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the...; Region: GH20_SpHex_like; cd06568 886377000907 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 886377000908 active site 886377000909 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 886377000910 active site 886377000911 catalytic residues [active] 886377000912 metal binding site [ion binding]; metal-binding site 886377000913 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 886377000914 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 886377000915 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 886377000916 trimer interface [polypeptide binding]; other site 886377000917 active site 886377000918 substrate binding site [chemical binding]; other site 886377000919 CoA binding site [chemical binding]; other site 886377000920 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 886377000921 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 886377000922 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 886377000923 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 886377000924 UDP-galactopyranose mutase; Region: GLF; pfam03275 886377000925 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 886377000926 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 886377000927 putative metal binding site; other site 886377000928 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 886377000929 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 886377000930 Substrate binding site; other site 886377000931 metal-binding site 886377000932 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 886377000933 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 886377000934 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 886377000935 active site 886377000936 NTP binding site [chemical binding]; other site 886377000937 metal binding triad [ion binding]; metal-binding site 886377000938 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 886377000939 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 886377000940 Zn2+ binding site [ion binding]; other site 886377000941 Mg2+ binding site [ion binding]; other site 886377000942 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 886377000943 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 886377000944 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 886377000945 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 886377000946 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 886377000947 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 886377000948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377000949 Walker A/P-loop; other site 886377000950 ATP binding site [chemical binding]; other site 886377000951 Q-loop/lid; other site 886377000952 ABC transporter signature motif; other site 886377000953 Walker B; other site 886377000954 D-loop; other site 886377000955 H-loop/switch region; other site 886377000956 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 886377000957 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 886377000958 excinuclease ABC subunit B; Provisional; Region: PRK05298 886377000959 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 886377000960 ATP binding site [chemical binding]; other site 886377000961 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 886377000962 nucleotide binding region [chemical binding]; other site 886377000963 ATP-binding site [chemical binding]; other site 886377000964 Ultra-violet resistance protein B; Region: UvrB; pfam12344 886377000965 UvrB/uvrC motif; Region: UVR; pfam02151 886377000966 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 886377000967 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 886377000968 putative dimer interface [polypeptide binding]; other site 886377000969 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 886377000970 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 886377000971 CoA-ligase; Region: Ligase_CoA; pfam00549 886377000972 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 886377000973 diaminopimelate decarboxylase; Region: lysA; TIGR01048 886377000974 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 886377000975 active site 886377000976 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377000977 substrate binding site [chemical binding]; other site 886377000978 catalytic residues [active] 886377000979 dimer interface [polypeptide binding]; other site 886377000980 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 886377000981 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377000982 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 886377000983 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 886377000984 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 886377000985 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 886377000986 active site 886377000987 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 886377000988 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 886377000989 N-terminal plug; other site 886377000990 ligand-binding site [chemical binding]; other site 886377000991 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 886377000992 active site 886377000993 catalytic residues [active] 886377000994 metal binding site [ion binding]; metal-binding site 886377000995 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 886377000996 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 886377000997 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 886377000998 quinone interaction residues [chemical binding]; other site 886377000999 active site 886377001000 catalytic residues [active] 886377001001 FMN binding site [chemical binding]; other site 886377001002 substrate binding site [chemical binding]; other site 886377001003 peptidase T; Region: peptidase-T; TIGR01882 886377001004 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 886377001005 metal binding site [ion binding]; metal-binding site 886377001006 dimer interface [polypeptide binding]; other site 886377001007 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 886377001008 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 886377001010 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377001011 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 886377001012 active site 886377001013 metal binding site [ion binding]; metal-binding site 886377001015 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377001016 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 886377001017 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 886377001018 PA/protease or protease-like domain interface [polypeptide binding]; other site 886377001019 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 886377001020 Peptidase family M28; Region: Peptidase_M28; pfam04389 886377001021 metal binding site [ion binding]; metal-binding site 886377001022 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 886377001023 Response regulator receiver domain; Region: Response_reg; pfam00072 886377001024 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 886377001025 active site 886377001026 phosphorylation site [posttranslational modification] 886377001027 intermolecular recognition site; other site 886377001028 dimerization interface [polypeptide binding]; other site 886377001029 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 886377001030 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 886377001031 Walker A motif; other site 886377001032 ATP binding site [chemical binding]; other site 886377001033 Walker B motif; other site 886377001034 arginine finger; other site 886377001035 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377001036 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 886377001037 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 886377001038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377001039 Walker A/P-loop; other site 886377001040 ATP binding site [chemical binding]; other site 886377001041 Q-loop/lid; other site 886377001042 ABC transporter signature motif; other site 886377001043 Walker B; other site 886377001044 D-loop; other site 886377001045 H-loop/switch region; other site 886377001046 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 886377001047 chaperone protein DnaJ; Provisional; Region: PRK14289 886377001048 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 886377001049 HSP70 interaction site [polypeptide binding]; other site 886377001050 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 886377001051 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 886377001052 dimer interface [polypeptide binding]; other site 886377001053 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 886377001054 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 886377001055 dimer interface [polypeptide binding]; other site 886377001056 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 886377001057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377001058 TIGR01777 family protein; Region: yfcH 886377001059 NAD(P) binding site [chemical binding]; other site 886377001060 active site 886377001061 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 886377001062 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 886377001063 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 886377001064 homodimer interface [polypeptide binding]; other site 886377001065 substrate-cofactor binding pocket; other site 886377001066 catalytic residue [active] 886377001067 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 886377001068 metal binding site [ion binding]; metal-binding site 886377001069 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 886377001070 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 886377001071 Nitrogen regulatory protein P-II; Region: P-II; smart00938 886377001072 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 886377001073 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 886377001074 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 886377001075 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 886377001076 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 886377001077 dimerization interface [polypeptide binding]; other site 886377001078 putative Zn2+ binding site [ion binding]; other site 886377001079 putative DNA binding site [nucleotide binding]; other site 886377001080 AsnC family; Region: AsnC_trans_reg; pfam01037 886377001081 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 886377001082 B12 binding site [chemical binding]; other site 886377001083 cobalt ligand [ion binding]; other site 886377001084 LAO/AO transport system ATPase; Region: lao; TIGR00750 886377001085 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 886377001086 Walker A; other site 886377001087 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 886377001088 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 886377001089 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 886377001090 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 886377001091 putative active site [active] 886377001092 putative substrate binding site [chemical binding]; other site 886377001093 putative cosubstrate binding site; other site 886377001094 catalytic site [active] 886377001095 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 886377001096 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377001097 putative substrate translocation pore; other site 886377001098 maltose phosphorylase; Provisional; Region: PRK13807 886377001099 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 886377001100 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 886377001101 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 886377001102 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 886377001103 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 886377001104 active site 886377001105 dimer interface [polypeptide binding]; other site 886377001106 peptide chain release factor 1; Validated; Region: prfA; PRK00591 886377001107 PCRF domain; Region: PCRF; pfam03462 886377001108 RF-1 domain; Region: RF-1; pfam00472 886377001109 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 886377001110 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 886377001111 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 886377001112 ApbE family; Region: ApbE; pfam02424 886377001113 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 886377001114 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377001115 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 886377001116 iron-sulfur cluster [ion binding]; other site 886377001117 [2Fe-2S] cluster binding site [ion binding]; other site 886377001118 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 886377001119 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 886377001120 dimerization interface [polypeptide binding]; other site 886377001121 ATP binding site [chemical binding]; other site 886377001122 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 886377001123 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 886377001124 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 886377001125 glutamine synthetase; Region: PLN02284 886377001126 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 886377001127 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 886377001128 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 886377001129 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 886377001130 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 886377001131 Penicillinase repressor; Region: Pencillinase_R; pfam03965 886377001132 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 886377001133 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377001134 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377001135 active site 886377001136 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 886377001137 Sulfatase; Region: Sulfatase; cl17466 886377001138 gliding motility-associated lipoprotein GldK; Region: GldK_short; TIGR03529 886377001139 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 886377001140 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 886377001141 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 886377001142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377001143 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 886377001144 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377001145 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 886377001146 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 886377001147 Ligand Binding Site [chemical binding]; other site 886377001148 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 886377001149 Ligand Binding Site [chemical binding]; other site 886377001150 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 886377001151 Ligand Binding Site [chemical binding]; other site 886377001152 Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]; Region: UspA; COG0589 886377001153 Ligand Binding Site [chemical binding]; other site 886377001154 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377001155 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 886377001156 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377001157 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377001158 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 886377001159 FtsX-like permease family; Region: FtsX; pfam02687 886377001160 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377001161 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 886377001162 Walker A/P-loop; other site 886377001163 ATP binding site [chemical binding]; other site 886377001164 Q-loop/lid; other site 886377001165 ABC transporter signature motif; other site 886377001166 Walker B; other site 886377001167 D-loop; other site 886377001168 H-loop/switch region; other site 886377001169 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 886377001170 Ligand Binding Site [chemical binding]; other site 886377001171 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 886377001172 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 886377001173 putative dimer interface [polypeptide binding]; other site 886377001174 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 886377001175 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 886377001176 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 886377001177 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 886377001178 Soluble P-type ATPase [General function prediction only]; Region: COG4087 886377001179 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 886377001180 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377001181 PAS domain; Region: PAS_9; pfam13426 886377001182 putative active site [active] 886377001183 heme pocket [chemical binding]; other site 886377001184 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377001185 PAS domain; Region: PAS_9; pfam13426 886377001186 putative active site [active] 886377001187 heme pocket [chemical binding]; other site 886377001188 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 886377001189 GAF domain; Region: GAF; pfam01590 886377001190 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 886377001191 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 886377001192 dimer interface [polypeptide binding]; other site 886377001193 phosphorylation site [posttranslational modification] 886377001194 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 886377001195 ATP binding site [chemical binding]; other site 886377001196 Mg2+ binding site [ion binding]; other site 886377001197 G-X-G motif; other site 886377001198 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 886377001199 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 886377001200 active site 886377001201 phosphorylation site [posttranslational modification] 886377001202 intermolecular recognition site; other site 886377001203 dimerization interface [polypeptide binding]; other site 886377001204 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 886377001205 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377001206 ligand binding site [chemical binding]; other site 886377001207 flexible hinge region; other site 886377001208 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 886377001209 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 886377001210 mce related protein; Region: MCE; pfam02470 886377001211 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 886377001212 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 886377001213 Walker A/P-loop; other site 886377001214 ATP binding site [chemical binding]; other site 886377001215 Q-loop/lid; other site 886377001216 ABC transporter signature motif; other site 886377001217 Walker B; other site 886377001218 D-loop; other site 886377001219 H-loop/switch region; other site 886377001220 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 886377001221 Permease; Region: Permease; pfam02405 886377001222 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 886377001223 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 886377001224 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 886377001225 active site 886377001226 dimer interface [polypeptide binding]; other site 886377001227 effector binding site; other site 886377001228 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 886377001229 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 886377001230 Ligand Binding Site [chemical binding]; other site 886377001231 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377001232 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377001233 active site 886377001234 Methyltransferase domain; Region: Methyltransf_23; pfam13489 886377001235 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 886377001236 S-adenosylmethionine binding site [chemical binding]; other site 886377001237 Dodecin; Region: Dodecin; pfam07311 886377001238 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 886377001239 phosphoenolpyruvate synthase; Validated; Region: PRK06464 886377001240 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 886377001241 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 886377001242 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 886377001243 Domain of unknown function DUF302; Region: DUF302; pfam03625 886377001244 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 886377001245 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 886377001246 classical (c) SDRs; Region: SDR_c; cd05233 886377001247 NAD(P) binding site [chemical binding]; other site 886377001248 active site 886377001249 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 886377001250 Flavodoxin domain; Region: Flavodoxin_5; cl17428 886377001251 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 886377001252 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377001253 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377001254 Cupin domain; Region: Cupin_2; pfam07883 886377001255 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 886377001256 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 886377001257 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 886377001258 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001259 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377001260 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 886377001261 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 886377001262 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 886377001263 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 886377001264 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 886377001265 S-adenosylmethionine binding site [chemical binding]; other site 886377001266 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 886377001267 triosephosphate isomerase; Provisional; Region: PRK14567 886377001268 substrate binding site [chemical binding]; other site 886377001269 dimer interface [polypeptide binding]; other site 886377001270 catalytic triad [active] 886377001271 DoxX; Region: DoxX; cl17842 886377001272 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 886377001273 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 886377001274 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 886377001275 dihydropteroate synthase; Region: DHPS; TIGR01496 886377001276 substrate binding pocket [chemical binding]; other site 886377001277 dimer interface [polypeptide binding]; other site 886377001278 inhibitor binding site; inhibition site 886377001279 Uncharacterized conserved protein [Function unknown]; Region: COG1624 886377001280 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 886377001281 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 886377001282 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 886377001283 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377001284 Walker A/P-loop; other site 886377001285 ATP binding site [chemical binding]; other site 886377001286 Q-loop/lid; other site 886377001287 ABC transporter signature motif; other site 886377001288 Walker B; other site 886377001289 D-loop; other site 886377001290 H-loop/switch region; other site 886377001291 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 886377001292 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 886377001293 dimerization interface 3.5A [polypeptide binding]; other site 886377001294 active site 886377001295 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 886377001296 active site 886377001297 metal binding site [ion binding]; metal-binding site 886377001298 homotetramer interface [polypeptide binding]; other site 886377001299 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 886377001300 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 886377001301 transcription termination factor Rho; Provisional; Region: PRK12608 886377001302 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 886377001303 RNA binding site [nucleotide binding]; other site 886377001304 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 886377001305 multimer interface [polypeptide binding]; other site 886377001306 Walker A motif; other site 886377001307 ATP binding site [chemical binding]; other site 886377001308 Walker B motif; other site 886377001309 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 886377001310 prolyl-tRNA synthetase; Provisional; Region: PRK08661 886377001311 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_arch_euk; cd00778 886377001312 dimer interface [polypeptide binding]; other site 886377001313 motif 1; other site 886377001314 active site 886377001315 motif 2; other site 886377001316 motif 3; other site 886377001317 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 886377001318 anticodon binding site; other site 886377001319 zinc-binding site [ion binding]; other site 886377001320 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 886377001321 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 886377001322 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 886377001323 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 886377001324 GTP cyclohydrolase I; Provisional; Region: PLN03044 886377001325 active site 886377001326 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 886377001327 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377001328 active site 886377001329 HIGH motif; other site 886377001330 nucleotide binding site [chemical binding]; other site 886377001331 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 886377001332 KMSKS motif; other site 886377001333 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 886377001334 tRNA binding surface [nucleotide binding]; other site 886377001335 anticodon binding site; other site 886377001336 Haemolytic domain; Region: Haemolytic; pfam01809 886377001337 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 886377001338 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 886377001339 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 886377001340 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 886377001341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377001342 ABC transporter signature motif; other site 886377001343 Walker B; other site 886377001344 D-loop; other site 886377001345 H-loop/switch region; other site 886377001346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377001347 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 886377001348 Walker A/P-loop; other site 886377001349 ATP binding site [chemical binding]; other site 886377001350 Q-loop/lid; other site 886377001351 ABC transporter signature motif; other site 886377001352 Walker B; other site 886377001353 D-loop; other site 886377001354 H-loop/switch region; other site 886377001355 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose; Region: GT1_Trehalose_phosphorylase; cd03792 886377001356 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377001357 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 886377001358 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 886377001359 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 886377001360 Protein export membrane protein; Region: SecD_SecF; pfam02355 886377001361 malate dehydrogenase; Reviewed; Region: PRK06223 886377001362 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 886377001363 dimer interface [polypeptide binding]; other site 886377001364 NAD(P) binding site [chemical binding]; other site 886377001365 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377001366 substrate binding site [chemical binding]; other site 886377001367 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 886377001368 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 886377001369 Mg2+ binding site [ion binding]; other site 886377001370 G-X-G motif; other site 886377001371 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 886377001372 anchoring element; other site 886377001373 dimer interface [polypeptide binding]; other site 886377001374 ATP binding site [chemical binding]; other site 886377001375 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 886377001376 active site 886377001377 putative metal-binding site [ion binding]; other site 886377001378 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 886377001379 asparagine synthetase B; Provisional; Region: asnB; PRK09431 886377001380 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 886377001381 active site 886377001382 dimer interface [polypeptide binding]; other site 886377001383 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 886377001384 Ligand Binding Site [chemical binding]; other site 886377001385 Molecular Tunnel; other site 886377001386 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 886377001387 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 886377001388 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 886377001389 active site 886377001390 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 886377001391 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 886377001392 TPR motif; other site 886377001393 binding surface 886377001394 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 886377001395 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 886377001396 binding surface 886377001397 TPR motif; other site 886377001398 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 886377001399 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 886377001400 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 886377001401 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 886377001402 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377001403 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 886377001404 Walker A/P-loop; other site 886377001405 ATP binding site [chemical binding]; other site 886377001406 Q-loop/lid; other site 886377001407 ABC transporter signature motif; other site 886377001408 Walker B; other site 886377001409 D-loop; other site 886377001410 H-loop/switch region; other site 886377001411 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 886377001412 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 886377001413 nucleotide binding site [chemical binding]; other site 886377001414 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 886377001415 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 886377001416 G1 box; other site 886377001417 putative GEF interaction site [polypeptide binding]; other site 886377001418 GTP/Mg2+ binding site [chemical binding]; other site 886377001419 Switch I region; other site 886377001420 G2 box; other site 886377001421 G3 box; other site 886377001422 Switch II region; other site 886377001423 G4 box; other site 886377001424 G5 box; other site 886377001425 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 886377001426 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 886377001427 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 886377001428 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 886377001429 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001430 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 886377001431 N-terminal plug; other site 886377001432 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377001433 ligand-binding site [chemical binding]; other site 886377001434 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 886377001435 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 886377001436 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 886377001437 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 886377001438 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 886377001439 Protein of unknown function (DUF808); Region: DUF808; cl01002 886377001440 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 886377001441 Polymerase and Histidinol Phosphatase domain of Chlorobi like; Region: PHP_HisPPase_Chlorobi_like; cd12112 886377001442 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 886377001443 active site 886377001444 dimer interface [polypeptide binding]; other site 886377001445 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 886377001446 Saccharopine Dehydrogenase like proteins; Region: SDH_like; cd05199 886377001447 active site 886377001448 ligand binding site [chemical binding]; other site 886377001449 NAD(P) binding site [chemical binding]; other site 886377001451 Uncharacterized conserved protein [Function unknown]; Region: COG5324 886377001454 Bacterial Ig-like domain; Region: Big_5; pfam13205 886377001455 Bacterial Ig-like domain; Region: Big_5; pfam13205 886377001456 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 886377001457 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 886377001458 transmembrane helices; other site 886377001459 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 886377001460 active site 886377001461 catalytic triad [active] 886377001462 oxyanion hole [active] 886377001463 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 886377001464 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377001465 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001466 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001467 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 886377001468 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 886377001469 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 886377001470 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 886377001471 active site 886377001472 substrate-binding site [chemical binding]; other site 886377001473 metal-binding site [ion binding] 886377001474 ATP binding site [chemical binding]; other site 886377001475 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 886377001476 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 886377001477 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 886377001478 Fn3 associated; Region: Fn3_assoc; pfam13287 886377001479 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 886377001480 sugar binding site [chemical binding]; other site 886377001481 LrgB-like family; Region: LrgB; pfam04172 886377001482 LrgA family; Region: LrgA; pfam03788 886377001483 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 886377001484 Kelch motif; Region: Kelch_1; pfam01344 886377001485 Kelch motif; Region: Kelch_1; pfam01344 886377001486 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 886377001487 putative transporter; Provisional; Region: PRK10484 886377001488 Na binding site [ion binding]; other site 886377001489 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 886377001490 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 886377001491 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 886377001492 active site 886377001493 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 886377001494 catalytic site [active] 886377001495 BNR repeat-like domain; Region: BNR_2; pfam13088 886377001496 Asp-box motif; other site 886377001497 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 886377001498 dimerization interface [polypeptide binding]; other site 886377001499 putative active cleft [active] 886377001500 Transcriptional regulators [Transcription]; Region: FadR; COG2186 886377001501 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 886377001502 DNA-binding site [nucleotide binding]; DNA binding site 886377001503 FCD domain; Region: FCD; pfam07729 886377001504 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377001505 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001506 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001507 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 886377001508 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 886377001509 Class I aldolases; Region: Aldolase_Class_I; cl17187 886377001510 N-acetylneuraminate lyase; Provisional; Region: PRK04147 886377001511 catalytic residue [active] 886377001512 HPP family; Region: HPP; pfam04982 886377001513 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 886377001514 binding surface 886377001515 TPR motif; other site 886377001516 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377001517 Family description; Region: VCBS; pfam13517 886377001518 Family description; Region: VCBS; pfam13517 886377001519 Family description; Region: VCBS; pfam13517 886377001520 Family description; Region: VCBS; pfam13517 886377001521 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377001522 Family description; Region: VCBS; pfam13517 886377001523 Family description; Region: VCBS; pfam13517 886377001524 Family description; Region: VCBS; pfam13517 886377001525 Family description; Region: VCBS; pfam13517 886377001526 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377001527 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377001528 SusD family; Region: SusD; pfam07980 886377001529 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001530 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001531 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377001532 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377001533 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377001534 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 886377001535 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377001536 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 886377001537 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377001538 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 886377001539 galactokinase; Provisional; Region: PRK03817 886377001540 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 886377001541 Family description; Region: VCBS; pfam13517 886377001542 Family description; Region: VCBS; pfam13517 886377001543 Family description; Region: VCBS; pfam13517 886377001544 Family description; Region: VCBS; pfam13517 886377001545 Family description; Region: VCBS; pfam13517 886377001546 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377001547 Family description; Region: VCBS; pfam13517 886377001548 Family description; Region: VCBS; pfam13517 886377001549 Family description; Region: VCBS; pfam13517 886377001550 Family description; Region: VCBS; pfam13517 886377001551 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377001552 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377001553 SusD family; Region: SusD; pfam07980 886377001554 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001555 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001556 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 886377001557 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 886377001558 DNA-binding site [nucleotide binding]; DNA binding site 886377001559 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 886377001560 putative ligand binding site [chemical binding]; other site 886377001561 putative dimerization interface [polypeptide binding]; other site 886377001562 Transcriptional regulators [Transcription]; Region: PurR; COG1609 886377001563 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 886377001564 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 886377001565 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 886377001566 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 886377001567 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 886377001568 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 886377001569 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 886377001570 Uncharacterized conserved protein [Function unknown]; Region: COG1262 886377001571 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 886377001572 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377001573 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377001574 Fatty acid desaturase; Region: FA_desaturase; pfam00487 886377001575 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 886377001576 putative di-iron ligands [ion binding]; other site 886377001577 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 886377001578 DEAD-like helicases superfamily; Region: DEXDc; smart00487 886377001579 ATP binding site [chemical binding]; other site 886377001580 putative Mg++ binding site [ion binding]; other site 886377001581 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 886377001582 nucleotide binding region [chemical binding]; other site 886377001583 ATP-binding site [chemical binding]; other site 886377001584 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 886377001585 DNA-binding site [nucleotide binding]; DNA binding site 886377001586 RNA-binding motif; other site 886377001587 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 886377001588 DNA-binding site [nucleotide binding]; DNA binding site 886377001589 RNA-binding motif; other site 886377001591 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377001592 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 886377001593 active site 886377001594 metal binding site [ion binding]; metal-binding site 886377001595 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 886377001596 active site 886377001597 metal binding site [ion binding]; metal-binding site 886377001598 4-aminobutyrate aminotransferase; Provisional; Region: PRK06082 886377001599 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 886377001600 inhibitor-cofactor binding pocket; inhibition site 886377001601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377001602 catalytic residue [active] 886377001603 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 886377001604 Sulfatase; Region: Sulfatase; cl17466 886377001605 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 886377001606 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 886377001607 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377001608 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377001609 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001610 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001611 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377001612 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 886377001613 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 886377001614 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 886377001615 sequence-specific DNA binding site [nucleotide binding]; other site 886377001616 salt bridge; other site 886377001617 Cupin domain; Region: Cupin_2; pfam07883 886377001618 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 886377001619 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 886377001620 motif II; other site 886377001621 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 886377001622 hydroxyglutarate oxidase; Provisional; Region: PRK11728 886377001623 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 886377001624 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377001625 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 886377001626 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377001627 catalytic residues [active] 886377001628 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 886377001629 Ligand Binding Site [chemical binding]; other site 886377001630 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 886377001631 Ligand Binding Site [chemical binding]; other site 886377001632 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 886377001633 Ligand Binding Site [chemical binding]; other site 886377001634 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 886377001635 Ligand Binding Site [chemical binding]; other site 886377001636 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 886377001637 putative transporter; Provisional; Region: PRK10484 886377001638 Na binding site [ion binding]; other site 886377001639 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 886377001640 active site 886377001641 catalytic residues [active] 886377001642 L-arabinose isomerase; Provisional; Region: PRK02929 886377001643 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 886377001644 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 886377001645 trimer interface [polypeptide binding]; other site 886377001646 putative substrate binding site [chemical binding]; other site 886377001647 putative metal binding site [ion binding]; other site 886377001648 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 886377001649 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 886377001650 intersubunit interface [polypeptide binding]; other site 886377001651 active site 886377001652 Zn2+ binding site [ion binding]; other site 886377001653 ribulokinase; Provisional; Region: PRK04123 886377001654 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 886377001655 N- and C-terminal domain interface [polypeptide binding]; other site 886377001656 active site 886377001657 MgATP binding site [chemical binding]; other site 886377001658 catalytic site [active] 886377001659 metal binding site [ion binding]; metal-binding site 886377001660 carbohydrate binding site [chemical binding]; other site 886377001661 homodimer interface [polypeptide binding]; other site 886377001662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 886377001663 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 886377001664 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 886377001665 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 886377001666 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 886377001667 nudix motif; other site 886377001668 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 886377001669 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 886377001670 active site 886377001671 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 886377001672 sugar binding site [chemical binding]; other site 886377001673 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 886377001674 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 886377001675 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 886377001676 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 886377001677 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 886377001678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 886377001679 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 886377001680 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377001681 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377001682 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 886377001683 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 886377001684 hydroxyglutarate oxidase; Provisional; Region: PRK11728 886377001685 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 886377001686 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 886377001687 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 886377001688 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 886377001689 dimer interface [polypeptide binding]; other site 886377001690 NADP binding site [chemical binding]; other site 886377001691 catalytic residues [active] 886377001692 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 886377001693 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 886377001694 inhibitor site; inhibition site 886377001695 active site 886377001696 dimer interface [polypeptide binding]; other site 886377001697 catalytic residue [active] 886377001698 Cupin domain; Region: Cupin_2; cl17218 886377001699 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377001700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377001701 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377001702 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377001703 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001704 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001705 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 886377001706 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377001707 active site 886377001708 catalytic site [active] 886377001709 substrate binding site [chemical binding]; other site 886377001710 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 886377001711 GIY-YIG motif/motif A; other site 886377001712 active site 886377001713 catalytic site [active] 886377001714 putative DNA binding site [nucleotide binding]; other site 886377001715 metal binding site [ion binding]; metal-binding site 886377001716 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 886377001717 active site 886377001718 catalytic residues [active] 886377001719 glutamate carboxypeptidase; Reviewed; Region: PRK06133 886377001720 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 886377001721 metal binding site [ion binding]; metal-binding site 886377001722 dimer interface [polypeptide binding]; other site 886377001723 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377001724 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 886377001725 FtsX-like permease family; Region: FtsX; pfam02687 886377001726 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 886377001727 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 886377001728 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 886377001729 Flagellin N-methylase; Region: FliB; pfam03692 886377001730 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 886377001731 S-adenosylmethionine binding site [chemical binding]; other site 886377001732 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 886377001733 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 886377001734 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 886377001735 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 886377001736 homotrimer interaction site [polypeptide binding]; other site 886377001737 putative active site [active] 886377001738 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 886377001739 Domain of unknown function DUF87; Region: DUF87; pfam01935 886377001740 Zonular occludens toxin (Zot); Region: Zot; cl17485 886377001741 Predicted transcriptional regulators [Transcription]; Region: COG1733 886377001742 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 886377001743 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 886377001744 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 886377001745 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_18; cd08357 886377001746 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377001747 putative metal binding site [ion binding]; other site 886377001748 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 886377001749 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 886377001750 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 886377001751 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 886377001752 homodimer interface [polypeptide binding]; other site 886377001753 NADP binding site [chemical binding]; other site 886377001754 substrate binding site [chemical binding]; other site 886377001755 signal recognition particle protein; Provisional; Region: PRK10867 886377001756 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 886377001757 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 886377001758 P loop; other site 886377001759 GTP binding site [chemical binding]; other site 886377001760 Signal peptide binding domain; Region: SRP_SPB; pfam02978 886377001761 Transposase; Region: DEDD_Tnp_IS110; pfam01548 886377001762 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 886377001763 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 886377001764 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377001765 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377001766 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 886377001767 DNA binding residues [nucleotide binding] 886377001768 FecR protein; Region: FecR; pfam04773 886377001769 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001770 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 886377001771 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 886377001772 putative active site [active] 886377001773 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 886377001774 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 886377001775 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377001776 active site 886377001777 HIGH motif; other site 886377001778 nucleotide binding site [chemical binding]; other site 886377001779 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 886377001780 KMSK motif region; other site 886377001781 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 886377001782 tRNA binding surface [nucleotide binding]; other site 886377001783 anticodon binding site; other site 886377001784 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 886377001785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377001786 NAD(P) binding site [chemical binding]; other site 886377001787 active site 886377001788 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 886377001789 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001790 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 886377001791 Amidinotransferase; Region: Amidinotransf; pfam02274 886377001792 Amidinotransferase; Region: Amidinotransf; cl12043 886377001793 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 886377001794 dimer interface [polypeptide binding]; other site 886377001795 Citrate synthase; Region: Citrate_synt; pfam00285 886377001796 active site 886377001797 citrylCoA binding site [chemical binding]; other site 886377001798 NADH binding [chemical binding]; other site 886377001799 cationic pore residues; other site 886377001800 oxalacetate/citrate binding site [chemical binding]; other site 886377001801 coenzyme A binding site [chemical binding]; other site 886377001802 catalytic triad [active] 886377001803 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 886377001804 glycogen synthase; Provisional; Region: glgA; PRK00654 886377001805 ADP-binding pocket [chemical binding]; other site 886377001806 homodimer interface [polypeptide binding]; other site 886377001807 enolase; Provisional; Region: eno; PRK00077 886377001808 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 886377001809 dimer interface [polypeptide binding]; other site 886377001810 metal binding site [ion binding]; metal-binding site 886377001811 substrate binding pocket [chemical binding]; other site 886377001812 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 886377001813 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 886377001814 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 886377001815 catalytic site [active] 886377001816 subunit interface [polypeptide binding]; other site 886377001817 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 886377001818 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 886377001819 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 886377001820 alphaNTD homodimer interface [polypeptide binding]; other site 886377001821 alphaNTD - beta interaction site [polypeptide binding]; other site 886377001822 alphaNTD - beta' interaction site [polypeptide binding]; other site 886377001823 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 886377001824 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 886377001825 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 886377001826 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 886377001827 RNA binding surface [nucleotide binding]; other site 886377001828 30S ribosomal protein S11; Validated; Region: PRK05309 886377001829 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 886377001830 30S ribosomal protein S13; Region: bact_S13; TIGR03631 886377001831 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 886377001832 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 886377001833 rRNA binding site [nucleotide binding]; other site 886377001834 predicted 30S ribosome binding site; other site 886377001835 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 886377001836 SecY translocase; Region: SecY; pfam00344 886377001837 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 886377001838 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 886377001839 23S rRNA binding site [nucleotide binding]; other site 886377001840 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 886377001841 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 886377001842 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 886377001843 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 886377001844 5S rRNA interface [nucleotide binding]; other site 886377001845 L27 interface [polypeptide binding]; other site 886377001846 23S rRNA interface [nucleotide binding]; other site 886377001847 L5 interface [polypeptide binding]; other site 886377001848 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 886377001849 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 886377001850 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 886377001851 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 886377001852 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 886377001853 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 886377001854 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 886377001855 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 886377001856 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 886377001857 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 886377001858 RNA binding site [nucleotide binding]; other site 886377001859 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 886377001860 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 886377001861 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 886377001862 putative translocon interaction site; other site 886377001863 signal recognition particle (SRP54) interaction site; other site 886377001864 L23 interface [polypeptide binding]; other site 886377001865 trigger factor interaction site; other site 886377001866 23S rRNA interface [nucleotide binding]; other site 886377001867 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 886377001868 23S rRNA interface [nucleotide binding]; other site 886377001869 5S rRNA interface [nucleotide binding]; other site 886377001870 putative antibiotic binding site [chemical binding]; other site 886377001871 L25 interface [polypeptide binding]; other site 886377001872 L27 interface [polypeptide binding]; other site 886377001873 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 886377001874 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 886377001875 G-X-X-G motif; other site 886377001876 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 886377001877 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 886377001878 putative translocon binding site; other site 886377001879 protein-rRNA interface [nucleotide binding]; other site 886377001880 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 886377001881 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 886377001882 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 886377001883 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 886377001884 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 886377001885 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 886377001886 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 886377001887 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 886377001888 elongation factor G; Reviewed; Region: PRK12739 886377001889 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 886377001890 G1 box; other site 886377001891 putative GEF interaction site [polypeptide binding]; other site 886377001892 GTP/Mg2+ binding site [chemical binding]; other site 886377001893 Switch I region; other site 886377001894 G2 box; other site 886377001895 G3 box; other site 886377001896 Switch II region; other site 886377001897 G4 box; other site 886377001898 G5 box; other site 886377001899 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 886377001900 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 886377001901 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 886377001902 30S ribosomal protein S7; Validated; Region: PRK05302 886377001903 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 886377001904 S17 interaction site [polypeptide binding]; other site 886377001905 S8 interaction site; other site 886377001906 16S rRNA interaction site [nucleotide binding]; other site 886377001907 streptomycin interaction site [chemical binding]; other site 886377001908 23S rRNA interaction site [nucleotide binding]; other site 886377001909 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 886377001910 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001911 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377001912 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377001913 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 886377001914 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377001915 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 886377001916 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 886377001917 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 886377001918 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 886377001919 Rhomboid family; Region: Rhomboid; cl11446 886377001920 recombination factor protein RarA; Reviewed; Region: PRK13342 886377001921 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 886377001922 Walker A motif; other site 886377001923 ATP binding site [chemical binding]; other site 886377001924 Walker B motif; other site 886377001925 arginine finger; other site 886377001926 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 886377001927 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 886377001928 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 886377001929 motif II; other site 886377001930 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 886377001931 putative active site [active] 886377001932 hypothetical protein; Reviewed; Region: PRK00024 886377001933 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 886377001934 MPN+ (JAMM) motif; other site 886377001935 Zinc-binding site [ion binding]; other site 886377001936 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 886377001937 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 886377001938 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 886377001939 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 886377001940 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 886377001941 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 886377001942 putative NAD(P) binding site [chemical binding]; other site 886377001943 putative active site [active] 886377001944 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377001945 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 886377001946 active site 886377001947 phosphorylation site [posttranslational modification] 886377001948 intermolecular recognition site; other site 886377001949 dimerization interface [polypeptide binding]; other site 886377001950 LytTr DNA-binding domain; Region: LytTR; smart00850 886377001951 Histidine kinase; Region: His_kinase; pfam06580 886377001952 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 886377001953 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 886377001954 GTPase CgtA; Reviewed; Region: obgE; PRK12299 886377001955 GTP1/OBG; Region: GTP1_OBG; pfam01018 886377001956 Obg GTPase; Region: Obg; cd01898 886377001957 G1 box; other site 886377001958 GTP/Mg2+ binding site [chemical binding]; other site 886377001959 Switch I region; other site 886377001960 G2 box; other site 886377001961 G3 box; other site 886377001962 Switch II region; other site 886377001963 G4 box; other site 886377001964 G5 box; other site 886377001965 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377001966 active site 886377001967 adenylate kinase; Reviewed; Region: adk; PRK00279 886377001968 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 886377001969 AMP-binding site [chemical binding]; other site 886377001970 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 886377001971 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 886377001972 ATP-grasp domain; Region: ATP-grasp; pfam02222 886377001973 AIR carboxylase; Region: AIRC; pfam00731 886377001974 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 886377001975 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 886377001976 active site 886377001977 Zn binding site [ion binding]; other site 886377001978 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377001979 PAS fold; Region: PAS_3; pfam08447 886377001980 putative active site [active] 886377001981 heme pocket [chemical binding]; other site 886377001982 PAS domain S-box; Region: sensory_box; TIGR00229 886377001983 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377001984 putative active site [active] 886377001985 heme pocket [chemical binding]; other site 886377001986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377001987 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 886377001988 ATP binding site [chemical binding]; other site 886377001989 Mg2+ binding site [ion binding]; other site 886377001990 G-X-G motif; other site 886377001991 Response regulator receiver domain; Region: Response_reg; pfam00072 886377001992 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 886377001993 active site 886377001994 phosphorylation site [posttranslational modification] 886377001995 intermolecular recognition site; other site 886377001996 dimerization interface [polypeptide binding]; other site 886377001997 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377001998 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 886377001999 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 886377002000 DNA binding residues [nucleotide binding] 886377002001 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 886377002002 glycine dehydrogenase; Provisional; Region: PRK05367 886377002003 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 886377002004 tetramer interface [polypeptide binding]; other site 886377002005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377002006 catalytic residue [active] 886377002007 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 886377002008 tetramer interface [polypeptide binding]; other site 886377002009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377002010 catalytic residue [active] 886377002011 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 886377002012 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 886377002013 dimer interface [polypeptide binding]; other site 886377002014 active site 886377002015 CoA binding pocket [chemical binding]; other site 886377002016 Methyltransferase domain; Region: Methyltransf_23; pfam13489 886377002017 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 886377002018 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 886377002019 DXD motif; other site 886377002020 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 886377002021 binding surface 886377002022 TPR repeat; Region: TPR_11; pfam13414 886377002023 TPR motif; other site 886377002024 TPR repeat; Region: TPR_11; pfam13414 886377002025 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 886377002026 binding surface 886377002027 TPR motif; other site 886377002028 TPR repeat; Region: TPR_11; pfam13414 886377002029 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 886377002030 binding surface 886377002031 TPR motif; other site 886377002032 TPR repeat; Region: TPR_11; pfam13414 886377002033 Sulfatase; Region: Sulfatase; cl17466 886377002034 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 886377002035 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 886377002036 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 886377002037 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 886377002038 Permease; Region: Permease; pfam02405 886377002039 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 886377002040 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 886377002041 Walker A/P-loop; other site 886377002042 ATP binding site [chemical binding]; other site 886377002043 Q-loop/lid; other site 886377002044 ABC transporter signature motif; other site 886377002045 Walker B; other site 886377002046 D-loop; other site 886377002047 H-loop/switch region; other site 886377002048 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377002049 Domain of unknown function (DUF389); Region: DUF389; pfam04087 886377002050 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 886377002051 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 886377002052 Substrate binding site; other site 886377002053 Cupin domain; Region: Cupin_2; cl17218 886377002054 SprT-like family; Region: SprT-like; pfam10263 886377002055 short chain dehydrogenase; Provisional; Region: PRK12828 886377002056 classical (c) SDRs; Region: SDR_c; cd05233 886377002057 NAD(P) binding site [chemical binding]; other site 886377002058 active site 886377002059 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 886377002060 Peptidase family M28; Region: Peptidase_M28; pfam04389 886377002061 metal binding site [ion binding]; metal-binding site 886377002062 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 886377002063 E3 interaction surface; other site 886377002064 lipoyl attachment site [posttranslational modification]; other site 886377002065 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 886377002066 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 886377002067 E3 interaction surface; other site 886377002068 lipoyl attachment site [posttranslational modification]; other site 886377002069 e3 binding domain; Region: E3_binding; pfam02817 886377002070 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 886377002071 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 886377002072 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 886377002073 tetramer interface [polypeptide binding]; other site 886377002074 TPP-binding site [chemical binding]; other site 886377002075 heterodimer interface [polypeptide binding]; other site 886377002076 phosphorylation loop region [posttranslational modification] 886377002077 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 886377002078 active site 886377002079 catalytic motif [active] 886377002080 Zn binding site [ion binding]; other site 886377002081 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 886377002082 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 886377002083 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 886377002084 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377002085 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 886377002086 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 886377002087 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 886377002088 non-specific DNA binding site [nucleotide binding]; other site 886377002089 salt bridge; other site 886377002090 sequence-specific DNA binding site [nucleotide binding]; other site 886377002091 Protein of unknown function (DUF972); Region: DUF972; pfam06156 886377002092 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 886377002093 active site 886377002094 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377002095 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 886377002096 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377002098 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377002099 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377002100 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 886377002101 Helix-turn-helix domain; Region: HTH_28; pfam13518 886377002102 Homeodomain-like domain; Region: HTH_32; pfam13565 886377002103 putative transposase OrfB; Reviewed; Region: PHA02517 886377002104 Integrase core domain; Region: rve; pfam00665 886377002105 Integrase core domain; Region: rve_3; pfam13683 886377002106 Transposase; Region: HTH_Tnp_1; pfam01527 886377002107 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 886377002108 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 886377002109 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377002110 Gram-negative bacterial tonB protein; Region: TonB; cl10048 886377002111 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 886377002112 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 886377002113 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 886377002114 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 886377002115 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 886377002116 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377002117 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377002118 active site 886377002119 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 886377002120 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 886377002121 active site 886377002122 dimer interface [polypeptide binding]; other site 886377002123 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 886377002124 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 886377002125 active site 886377002126 FMN binding site [chemical binding]; other site 886377002127 substrate binding site [chemical binding]; other site 886377002128 3Fe-4S cluster binding site [ion binding]; other site 886377002129 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 886377002130 domain interface; other site 886377002131 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 886377002132 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 886377002133 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 886377002134 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377002135 SusD family; Region: SusD; pfam07980 886377002136 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377002137 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377002138 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377002139 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 886377002140 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 886377002141 RNA/DNA hybrid binding site [nucleotide binding]; other site 886377002142 active site 886377002143 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377002144 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377002145 ligand binding site [chemical binding]; other site 886377002146 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 886377002147 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377002148 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377002149 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 886377002150 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 886377002151 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 886377002152 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377002153 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 886377002154 DNA binding residues [nucleotide binding] 886377002155 dimerization interface [polypeptide binding]; other site 886377002156 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 886377002157 catalytic residues [active] 886377002158 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 886377002159 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 886377002160 dimer interface [polypeptide binding]; other site 886377002161 putative anticodon binding site; other site 886377002162 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 886377002163 motif 1; other site 886377002164 active site 886377002165 motif 2; other site 886377002166 motif 3; other site 886377002167 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377002168 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 886377002169 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377002170 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 886377002171 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 886377002172 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 886377002173 transmembrane helices; other site 886377002174 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 886377002175 active site 886377002176 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 886377002177 FMN-binding domain; Region: FMN_bind; pfam04205 886377002178 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 886377002179 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 886377002180 N-terminal plug; other site 886377002181 ligand-binding site [chemical binding]; other site 886377002182 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 886377002183 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 886377002184 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 886377002185 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 886377002186 non-specific DNA binding site [nucleotide binding]; other site 886377002187 salt bridge; other site 886377002188 sequence-specific DNA binding site [nucleotide binding]; other site 886377002189 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 886377002190 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 886377002191 inhibitor-cofactor binding pocket; inhibition site 886377002192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377002193 catalytic residue [active] 886377002194 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 886377002195 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 886377002196 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 886377002197 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 886377002198 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 886377002199 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377002200 catalytic residue [active] 886377002201 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 886377002202 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 886377002203 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 886377002204 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 886377002205 cofactor binding site; other site 886377002206 metal binding site [ion binding]; metal-binding site 886377002207 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 886377002208 GSCFA family; Region: GSCFA; pfam08885 886377002209 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 886377002210 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 886377002211 motif 1; other site 886377002212 active site 886377002213 motif 2; other site 886377002214 motif 3; other site 886377002215 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 886377002216 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 886377002217 Peptidase family M23; Region: Peptidase_M23; pfam01551 886377002218 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 886377002219 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 886377002220 DNA binding residues [nucleotide binding] 886377002221 LemA family; Region: LemA; cl00742 886377002222 Repair protein; Region: Repair_PSII; pfam04536 886377002223 Repair protein; Region: Repair_PSII; pfam04536 886377002224 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 886377002225 MG2 domain; Region: A2M_N; pfam01835 886377002226 Alpha-2-macroglobulin family; Region: A2M; pfam00207 886377002227 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 886377002228 surface patch; other site 886377002229 thioester region; other site 886377002230 specificity defining residues; other site 886377002231 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 886377002232 Transglycosylase; Region: Transgly; pfam00912 886377002233 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 886377002234 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 886377002235 HNH endonuclease; Region: HNH_2; pfam13391 886377002237 GTP-binding protein Der; Reviewed; Region: PRK00093 886377002238 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 886377002239 G1 box; other site 886377002240 GTP/Mg2+ binding site [chemical binding]; other site 886377002241 Switch I region; other site 886377002242 G2 box; other site 886377002243 Switch II region; other site 886377002244 G3 box; other site 886377002245 G4 box; other site 886377002246 G5 box; other site 886377002247 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 886377002248 G1 box; other site 886377002249 GTP/Mg2+ binding site [chemical binding]; other site 886377002250 Switch I region; other site 886377002251 G2 box; other site 886377002252 G3 box; other site 886377002253 Switch II region; other site 886377002254 G4 box; other site 886377002255 G5 box; other site 886377002256 GTPase Era; Reviewed; Region: era; PRK00089 886377002257 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 886377002258 G1 box; other site 886377002259 GTP/Mg2+ binding site [chemical binding]; other site 886377002260 Switch I region; other site 886377002261 G2 box; other site 886377002262 Switch II region; other site 886377002263 G3 box; other site 886377002264 G4 box; other site 886377002265 G5 box; other site 886377002266 KH domain; Region: KH_2; pfam07650 886377002267 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 886377002268 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 886377002269 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377002271 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377002272 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377002273 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377002274 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 886377002275 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377002276 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377002277 MFS transport protein AraJ; Provisional; Region: PRK10091 886377002278 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 886377002279 putative substrate translocation pore; other site 886377002280 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 886377002281 active site 886377002282 catalytic residues [active] 886377002283 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 886377002284 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 886377002285 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377002286 Protein export membrane protein; Region: SecD_SecF; cl14618 886377002287 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377002288 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377002289 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 886377002290 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 886377002291 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 886377002292 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 886377002293 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 886377002294 ABC transporter; Region: ABC_tran_2; pfam12848 886377002295 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 886377002296 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 886377002297 gliding motility associated protien GldN; Region: GldN; TIGR03523 886377002298 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 886377002299 GldM N-terminal domain; Region: GldM_N; pfam12081 886377002300 GldM C-terminal domain; Region: GldM_C; pfam12080 886377002301 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 886377002302 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 886377002303 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 886377002304 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 886377002305 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 886377002306 putative active site [active] 886377002307 putative metal binding site [ion binding]; other site 886377002308 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 886377002309 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 886377002310 active site 886377002311 interdomain interaction site; other site 886377002312 putative metal-binding site [ion binding]; other site 886377002313 nucleotide binding site [chemical binding]; other site 886377002314 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 886377002315 domain I; other site 886377002316 DNA binding groove [nucleotide binding] 886377002317 phosphate binding site [ion binding]; other site 886377002318 domain II; other site 886377002319 domain III; other site 886377002320 nucleotide binding site [chemical binding]; other site 886377002321 catalytic site [active] 886377002322 domain IV; other site 886377002323 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 886377002324 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 886377002325 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 886377002326 Asp-box motif; other site 886377002327 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 886377002328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 886377002329 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 886377002330 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 886377002331 FeS/SAM binding site; other site 886377002332 TRAM domain; Region: TRAM; pfam01938 886377002333 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 886377002334 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 886377002335 Walker A motif; other site 886377002336 ATP binding site [chemical binding]; other site 886377002337 Walker B motif; other site 886377002338 arginine finger; other site 886377002339 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 886377002340 Lipopolysaccharide-assembly; Region: LptE; cl01125 886377002341 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 886377002342 oligomerisation interface [polypeptide binding]; other site 886377002343 mobile loop; other site 886377002344 roof hairpin; other site 886377002345 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 886377002346 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 886377002347 ring oligomerisation interface [polypeptide binding]; other site 886377002348 ATP/Mg binding site [chemical binding]; other site 886377002349 stacking interactions; other site 886377002350 hinge regions; other site 886377002351 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377002352 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377002353 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 886377002354 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 886377002355 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 886377002356 metal-binding site [ion binding] 886377002357 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 886377002358 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 886377002359 Soluble P-type ATPase [General function prediction only]; Region: COG4087 886377002360 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377002361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377002362 Outer membrane efflux protein; Region: OEP; pfam02321 886377002363 Outer membrane efflux protein; Region: OEP; pfam02321 886377002364 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 886377002365 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 886377002366 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 886377002367 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 886377002368 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 886377002369 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 886377002370 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 886377002371 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 886377002372 purine monophosphate binding site [chemical binding]; other site 886377002373 dimer interface [polypeptide binding]; other site 886377002374 putative catalytic residues [active] 886377002375 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 886377002376 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 886377002377 rod shape-determining protein MreB; Provisional; Region: PRK13927 886377002378 MreB and similar proteins; Region: MreB_like; cd10225 886377002379 nucleotide binding site [chemical binding]; other site 886377002380 Mg binding site [ion binding]; other site 886377002381 putative protofilament interaction site [polypeptide binding]; other site 886377002382 RodZ interaction site [polypeptide binding]; other site 886377002383 Chibby, a nuclear inhibitor of Wnt/beta-catenin mediated transcription, and similar proteins; Region: Cby_like; cd07429 886377002384 rod shape-determining protein MreC; Provisional; Region: PRK13922 886377002385 rod shape-determining protein MreC; Region: MreC; pfam04085 886377002386 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 886377002387 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 886377002388 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 886377002389 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 886377002390 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 886377002391 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 886377002392 active site 886377002393 substrate binding site [chemical binding]; other site 886377002394 Mg2+ binding site [ion binding]; other site 886377002395 C-terminal peptidase (prc); Region: prc; TIGR00225 886377002396 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 886377002397 protein binding site [polypeptide binding]; other site 886377002398 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 886377002399 Catalytic dyad [active] 886377002400 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 886377002401 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 886377002402 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 886377002403 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 886377002404 NlpC/P60 family; Region: NLPC_P60; pfam00877 886377002405 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 886377002406 Competence protein; Region: Competence; pfam03772 886377002407 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 886377002408 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 886377002409 putative substrate translocation pore; other site 886377002410 POT family; Region: PTR2; cl17359 886377002411 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 886377002412 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 886377002413 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377002414 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 886377002415 homodimer interface [polypeptide binding]; other site 886377002416 catalytic residues [active] 886377002417 NAD binding site [chemical binding]; other site 886377002418 substrate binding pocket [chemical binding]; other site 886377002419 flexible flap; other site 886377002420 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 886377002421 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 886377002422 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377002423 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377002424 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377002425 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377002426 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377002427 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 886377002428 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 886377002429 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377002430 SurA N-terminal domain; Region: SurA_N_3; cl07813 886377002431 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 886377002432 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 886377002433 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 886377002434 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 886377002435 Domain of unknown function DUF21; Region: DUF21; pfam01595 886377002436 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 886377002437 Transporter associated domain; Region: CorC_HlyC; smart01091 886377002438 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 886377002439 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 886377002440 binding surface 886377002441 TPR motif; other site 886377002442 pantothenate kinase; Reviewed; Region: PRK13320 886377002443 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 886377002444 DnaA N-terminal domain; Region: DnaA_N; pfam11638 886377002445 TIR domain; Region: TIR_2; pfam13676 886377002446 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 886377002447 non-specific DNA binding site [nucleotide binding]; other site 886377002448 salt bridge; other site 886377002449 sequence-specific DNA binding site [nucleotide binding]; other site 886377002450 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377002451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377002452 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 886377002453 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 886377002454 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 886377002455 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 886377002456 putative active site [active] 886377002457 catalytic site [active] 886377002458 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 886377002459 putative active site [active] 886377002460 catalytic site [active] 886377002461 GH3 auxin-responsive promoter; Region: GH3; pfam03321 886377002462 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 886377002463 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 886377002464 substrate binding [chemical binding]; other site 886377002465 active site 886377002466 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 886377002467 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 886377002468 purine nucleoside phosphorylase; Provisional; Region: PRK08202 886377002469 Methyltransferase domain; Region: Methyltransf_31; pfam13847 886377002470 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 886377002471 S-adenosylmethionine binding site [chemical binding]; other site 886377002472 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 886377002473 active site 886377002474 metal binding site [ion binding]; metal-binding site 886377002475 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; cl02713 886377002476 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 886377002477 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 886377002478 4Fe-4S binding domain; Region: Fer4_5; pfam12801 886377002479 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 886377002480 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 886377002481 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 886377002482 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 886377002483 Ligand binding site; other site 886377002484 Putative Catalytic site; other site 886377002485 DXD motif; other site 886377002486 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 886377002487 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 886377002488 DXD motif; other site 886377002489 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 886377002490 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 886377002491 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377002492 Coenzyme A binding pocket [chemical binding]; other site 886377002493 argininosuccinate synthase; Provisional; Region: PRK13820 886377002494 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 886377002495 Ligand Binding Site [chemical binding]; other site 886377002496 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 886377002497 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 886377002498 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 886377002499 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 886377002500 acetylornithine aminotransferase; Provisional; Region: PRK02627 886377002501 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 886377002502 inhibitor-cofactor binding pocket; inhibition site 886377002503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377002504 catalytic residue [active] 886377002505 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 886377002506 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 886377002507 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 886377002508 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 886377002509 classical (c) SDRs; Region: SDR_c; cd05233 886377002510 NAD(P) binding site [chemical binding]; other site 886377002511 active site 886377002512 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 886377002513 nucleotide binding site [chemical binding]; other site 886377002514 N-acetyl-L-glutamate binding site [chemical binding]; other site 886377002515 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 886377002516 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 886377002517 metal binding site [ion binding]; metal-binding site 886377002518 dimer interface [polypeptide binding]; other site 886377002519 argininosuccinate lyase; Provisional; Region: PRK00855 886377002520 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 886377002521 active sites [active] 886377002522 tetramer interface [polypeptide binding]; other site 886377002523 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 886377002524 putative ligand binding site [chemical binding]; other site 886377002525 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 886377002526 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 886377002527 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 886377002528 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 886377002529 RNA binding surface [nucleotide binding]; other site 886377002530 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 886377002531 active site 886377002532 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 886377002533 UbiA prenyltransferase family; Region: UbiA; pfam01040 886377002534 mevalonate kinase; Region: mevalon_kin; TIGR00549 886377002535 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 886377002536 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 886377002537 diphosphomevalonate decarboxylase; Region: PLN02407 886377002538 TspO/MBR family; Region: TspO_MBR; pfam03073 886377002539 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 886377002540 glycerol kinase; Provisional; Region: glpK; PRK00047 886377002541 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 886377002542 N- and C-terminal domain interface [polypeptide binding]; other site 886377002543 active site 886377002544 MgATP binding site [chemical binding]; other site 886377002545 catalytic site [active] 886377002546 metal binding site [ion binding]; metal-binding site 886377002547 glycerol binding site [chemical binding]; other site 886377002548 homotetramer interface [polypeptide binding]; other site 886377002549 homodimer interface [polypeptide binding]; other site 886377002550 FBP binding site [chemical binding]; other site 886377002551 protein IIAGlc interface [polypeptide binding]; other site 886377002552 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 886377002553 amphipathic channel; other site 886377002554 Asn-Pro-Ala signature motifs; other site 886377002555 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 886377002556 flavoprotein, HI0933 family; Region: TIGR00275 886377002557 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 886377002558 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 886377002559 active site 886377002560 catalytic site [active] 886377002561 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 886377002562 active site 886377002563 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 886377002564 catalytic site [active] 886377002565 Transcriptional regulators [Transcription]; Region: PurR; COG1609 886377002566 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 886377002567 DNA binding site [nucleotide binding] 886377002568 domain linker motif; other site 886377002569 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 886377002570 dimerization interface [polypeptide binding]; other site 886377002571 ligand binding site [chemical binding]; other site 886377002572 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377002573 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377002574 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 886377002575 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 886377002576 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377002577 SusD family; Region: SusD; pfam07980 886377002578 Family description; Region: VCBS; pfam13517 886377002579 Family description; Region: VCBS; pfam13517 886377002580 Family description; Region: VCBS; pfam13517 886377002581 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377002582 Family description; Region: VCBS; pfam13517 886377002583 Family description; Region: VCBS; pfam13517 886377002584 Family description; Region: VCBS; pfam13517 886377002585 Family description; Region: VCBS; pfam13517 886377002586 Family description; Region: VCBS; pfam13517 886377002587 Family description; Region: VCBS; pfam13517 886377002588 Family description; Region: VCBS; pfam13517 886377002589 Family description; Region: VCBS; pfam13517 886377002590 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377002591 Family description; Region: VCBS; pfam13517 886377002592 Family description; Region: VCBS; pfam13517 886377002593 Family description; Region: VCBS; pfam13517 886377002594 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377002595 Family description; Region: VCBS; pfam13517 886377002596 Family description; Region: VCBS; pfam13517 886377002597 Family description; Region: VCBS; pfam13517 886377002598 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 886377002599 active site 886377002600 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 886377002601 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 886377002602 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 886377002603 ATP binding site [chemical binding]; other site 886377002604 putative Mg++ binding site [ion binding]; other site 886377002605 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 886377002606 nucleotide binding region [chemical binding]; other site 886377002607 ATP-binding site [chemical binding]; other site 886377002608 RQC domain; Region: RQC; pfam09382 886377002609 HRDC domain; Region: HRDC; pfam00570 886377002610 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 886377002611 active site 886377002612 metal binding site [ion binding]; metal-binding site 886377002613 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377002614 Surface antigen; Region: Bac_surface_Ag; pfam01103 886377002615 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 886377002616 Zn2+ binding site [ion binding]; other site 886377002617 Mg2+ binding site [ion binding]; other site 886377002618 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 886377002619 putative active site [active] 886377002620 putative metal binding site [ion binding]; other site 886377002621 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 886377002622 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377002623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377002624 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 886377002625 Acyltransferase family; Region: Acyl_transf_3; pfam01757 886377002626 Penicillin amidase; Region: Penicil_amidase; pfam01804 886377002627 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 886377002628 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 886377002629 active site 886377002630 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 886377002631 Repair protein; Region: Repair_PSII; pfam04536 886377002632 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 886377002633 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 886377002634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377002635 Walker A/P-loop; other site 886377002636 ATP binding site [chemical binding]; other site 886377002637 Q-loop/lid; other site 886377002638 ABC transporter signature motif; other site 886377002639 Walker B; other site 886377002640 D-loop; other site 886377002641 H-loop/switch region; other site 886377002642 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 886377002643 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 886377002644 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 886377002645 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 886377002646 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 886377002647 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 886377002648 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 886377002649 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377002650 NifU-like domain; Region: NifU; pfam01106 886377002651 Domain of unknown function DUF59; Region: DUF59; pfam01883 886377002652 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 886377002653 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 886377002654 Walker A motif; other site 886377002655 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 886377002656 Amidase; Region: Amidase; pfam01425 886377002657 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 886377002658 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 886377002659 DNA binding site [nucleotide binding] 886377002660 active site 886377002661 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 886377002662 S-adenosylmethionine binding site [chemical binding]; other site 886377002663 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 886377002664 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 886377002665 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 886377002666 dimer interface [polypeptide binding]; other site 886377002667 phosphorylation site [posttranslational modification] 886377002668 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 886377002669 ATP binding site [chemical binding]; other site 886377002670 Mg2+ binding site [ion binding]; other site 886377002671 G-X-G motif; other site 886377002672 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 886377002673 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 886377002674 active site 886377002675 phosphorylation site [posttranslational modification] 886377002676 intermolecular recognition site; other site 886377002677 dimerization interface [polypeptide binding]; other site 886377002678 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 886377002679 DNA binding site [nucleotide binding] 886377002680 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377002681 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 886377002682 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 886377002683 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 886377002684 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377002685 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377002686 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 886377002687 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 886377002688 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 886377002689 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 886377002690 active site 886377002691 HIGH motif; other site 886377002692 dimer interface [polypeptide binding]; other site 886377002693 KMSKS motif; other site 886377002694 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 886377002695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002696 NAD(P) binding site [chemical binding]; other site 886377002697 active site 886377002698 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 886377002699 dihydroorotase; Reviewed; Region: PRK09236 886377002700 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377002701 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 886377002702 active site 886377002703 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 886377002704 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 886377002705 Ligand binding site; other site 886377002706 Putative Catalytic site; other site 886377002707 DXD motif; other site 886377002708 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 886377002709 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 886377002710 Late embryogenesis abundant protein; Region: LEA_2; cl12118 886377002711 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 886377002712 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 886377002713 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 886377002714 active site 886377002715 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 886377002716 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 886377002717 active site 886377002718 substrate-binding site [chemical binding]; other site 886377002719 metal-binding site [ion binding] 886377002720 ATP binding site [chemical binding]; other site 886377002721 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 886377002722 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 886377002723 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377002724 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 886377002725 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 886377002726 putative DNA binding site [nucleotide binding]; other site 886377002727 putative Zn2+ binding site [ion binding]; other site 886377002728 AsnC family; Region: AsnC_trans_reg; pfam01037 886377002729 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 886377002730 Ferritin-like domain; Region: Ferritin; pfam00210 886377002731 ferroxidase diiron center [ion binding]; other site 886377002732 DinB family; Region: DinB; cl17821 886377002733 DinB superfamily; Region: DinB_2; pfam12867 886377002734 Predicted transcriptional regulators [Transcription]; Region: COG1733 886377002735 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 886377002736 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 886377002737 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 886377002738 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 886377002739 hexamer interface [polypeptide binding]; other site 886377002740 ligand binding site [chemical binding]; other site 886377002741 putative active site [active] 886377002742 NAD(P) binding site [chemical binding]; other site 886377002743 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 886377002744 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002745 active site 886377002746 HIGH motif; other site 886377002747 nucleotide binding site [chemical binding]; other site 886377002748 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 886377002749 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002750 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002751 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002752 active site 886377002753 KMSKS motif; other site 886377002754 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 886377002755 tRNA binding surface [nucleotide binding]; other site 886377002756 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 886377002757 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 886377002758 FtsX-like permease family; Region: FtsX; pfam02687 886377002759 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 886377002760 Bacitracin resistance protein BacA; Region: BacA; pfam02673 886377002761 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 886377002762 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 886377002763 RNA binding site [nucleotide binding]; other site 886377002764 active site 886377002765 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 886377002766 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 886377002767 catalytic residues [active] 886377002768 Outer membrane efflux protein; Region: OEP; pfam02321 886377002769 Outer membrane efflux protein; Region: OEP; pfam02321 886377002770 HlyD family secretion protein; Region: HlyD; pfam00529 886377002771 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 886377002772 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 886377002773 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377002774 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 886377002775 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377002776 Walker A/P-loop; other site 886377002777 ATP binding site [chemical binding]; other site 886377002778 Q-loop/lid; other site 886377002779 ABC transporter signature motif; other site 886377002780 Walker B; other site 886377002781 D-loop; other site 886377002782 H-loop/switch region; other site 886377002783 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377002784 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 886377002785 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 886377002786 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 886377002787 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 886377002788 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377002789 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 886377002790 phosphorylation site [posttranslational modification] 886377002791 dimer interface [polypeptide binding]; other site 886377002792 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 886377002793 ATP binding site [chemical binding]; other site 886377002794 Mg2+ binding site [ion binding]; other site 886377002795 G-X-G motif; other site 886377002796 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 886377002797 nucleotide binding site/active site [active] 886377002798 HIT family signature motif; other site 886377002799 catalytic residue [active] 886377002800 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 886377002801 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 886377002802 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 886377002803 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 886377002804 iron-sulfur cluster [ion binding]; other site 886377002805 [2Fe-2S] cluster binding site [ion binding]; other site 886377002806 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 886377002807 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 886377002808 active site 886377002809 catalytic tetrad [active] 886377002810 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377002811 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 886377002812 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377002813 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 886377002814 dimer interface [polypeptide binding]; other site 886377002815 phosphorylation site [posttranslational modification] 886377002816 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 886377002817 ATP binding site [chemical binding]; other site 886377002818 Mg2+ binding site [ion binding]; other site 886377002819 G-X-G motif; other site 886377002820 Response regulator receiver domain; Region: Response_reg; pfam00072 886377002821 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 886377002822 active site 886377002823 phosphorylation site [posttranslational modification] 886377002824 intermolecular recognition site; other site 886377002825 dimerization interface [polypeptide binding]; other site 886377002826 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 886377002827 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 886377002828 active site 886377002829 phosphorylation site [posttranslational modification] 886377002830 intermolecular recognition site; other site 886377002831 dimerization interface [polypeptide binding]; other site 886377002832 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 886377002833 Walker A motif; other site 886377002834 ATP binding site [chemical binding]; other site 886377002835 Walker B motif; other site 886377002836 arginine finger; other site 886377002837 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 886377002838 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 886377002839 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 886377002840 AAA domain; Region: AAA_28; pfam13521 886377002841 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 886377002842 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 886377002843 Domain of unknown function DUF77; Region: DUF77; cl00307 886377002844 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 886377002845 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 886377002846 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 886377002847 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 886377002848 homotetramer interface [polypeptide binding]; other site 886377002849 ligand binding site [chemical binding]; other site 886377002850 catalytic site [active] 886377002851 NAD binding site [chemical binding]; other site 886377002852 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 886377002853 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 886377002854 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 886377002855 dimer interface [polypeptide binding]; other site 886377002856 active site 886377002857 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377002858 substrate binding site [chemical binding]; other site 886377002859 catalytic residue [active] 886377002861 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 886377002862 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 886377002863 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 886377002864 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 886377002865 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 886377002866 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 886377002867 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 886377002868 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 886377002869 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 886377002870 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 886377002871 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 886377002872 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 886377002873 N-terminal plug; other site 886377002874 ligand-binding site [chemical binding]; other site 886377002875 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 886377002876 Domain of unknown function DUF21; Region: DUF21; pfam01595 886377002877 gliding motility-associated protein GldE; Region: GldE; TIGR03520 886377002878 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 886377002879 Transporter associated domain; Region: CorC_HlyC; smart01091 886377002880 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 886377002881 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 886377002882 dimer interface [polypeptide binding]; other site 886377002883 ssDNA binding site [nucleotide binding]; other site 886377002884 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377002885 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 886377002886 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 886377002887 minor groove reading motif; other site 886377002888 helix-hairpin-helix signature motif; other site 886377002889 substrate binding pocket [chemical binding]; other site 886377002890 active site 886377002891 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 886377002892 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 886377002893 DNA binding and oxoG recognition site [nucleotide binding] 886377002894 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 886377002895 IHF - DNA interface [nucleotide binding]; other site 886377002896 IHF dimer interface [polypeptide binding]; other site 886377002897 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 886377002898 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 886377002899 homodimer interface [polypeptide binding]; other site 886377002900 oligonucleotide binding site [chemical binding]; other site 886377002901 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 886377002902 Protein of unknown function, DUF608; Region: DUF608; pfam04685 886377002903 RecX family; Region: RecX; pfam02631 886377002904 Cupin-like domain; Region: Cupin_8; pfam13621 886377002906 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 886377002907 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 886377002908 N-terminal plug; other site 886377002909 ligand-binding site [chemical binding]; other site 886377002910 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 886377002911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 886377002912 DNA-binding site [nucleotide binding]; DNA binding site 886377002913 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 886377002914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377002915 homodimer interface [polypeptide binding]; other site 886377002916 catalytic residue [active] 886377002917 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 886377002918 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 886377002919 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 886377002920 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 886377002922 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 886377002923 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 886377002924 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 886377002925 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 886377002926 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 886377002927 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 886377002928 Coenzyme A binding pocket [chemical binding]; other site 886377002929 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 886377002930 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 886377002931 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 886377002932 tetramerization interface [polypeptide binding]; other site 886377002933 active site 886377002934 Pantoate-beta-alanine ligase; Region: PanC; cd00560 886377002935 pantoate--beta-alanine ligase; Region: panC; TIGR00018 886377002936 active site 886377002937 ATP-binding site [chemical binding]; other site 886377002938 pantoate-binding site; other site 886377002939 HXXH motif; other site 886377002940 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 886377002941 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 886377002942 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 886377002943 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 886377002944 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 886377002945 glutaminase active site [active] 886377002946 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 886377002947 dimer interface [polypeptide binding]; other site 886377002948 active site 886377002949 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 886377002950 dimer interface [polypeptide binding]; other site 886377002951 active site 886377002952 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377002953 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377002954 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377002955 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 886377002956 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 886377002957 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 886377002958 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 886377002959 alpha subunit interaction interface [polypeptide binding]; other site 886377002960 Walker A motif; other site 886377002961 ATP binding site [chemical binding]; other site 886377002962 Walker B motif; other site 886377002963 inhibitor binding site; inhibition site 886377002964 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 886377002965 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 886377002966 gamma subunit interface [polypeptide binding]; other site 886377002967 LBP interface [polypeptide binding]; other site 886377002968 DNA repair protein RadA; Provisional; Region: PRK11823 886377002969 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 886377002970 Walker A motif/ATP binding site; other site 886377002971 ATP binding site [chemical binding]; other site 886377002972 Walker B motif; other site 886377002973 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 886377002974 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 886377002975 Trp docking motif [polypeptide binding]; other site 886377002976 putative active site [active] 886377002977 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 886377002978 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 886377002979 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 886377002980 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 886377002981 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 886377002982 active site 886377002983 catalytic tetrad [active] 886377002984 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 886377002985 putative catalytic site [active] 886377002986 putative metal binding site [ion binding]; other site 886377002987 putative phosphate binding site [ion binding]; other site 886377002988 Isochorismatase family; Region: Isochorismatase; pfam00857 886377002989 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 886377002990 catalytic triad [active] 886377002991 conserved cis-peptide bond; other site 886377002992 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377002993 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377002994 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 886377002995 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377002996 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 886377002997 N-terminal plug; other site 886377002998 ligand-binding site [chemical binding]; other site 886377002999 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 886377003000 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 886377003001 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 886377003002 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 886377003003 Potassium binding sites [ion binding]; other site 886377003004 Cesium cation binding sites [ion binding]; other site 886377003005 glycyl-tRNA synthetase; Provisional; Region: PRK04173 886377003006 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 886377003007 motif 1; other site 886377003008 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 886377003009 active site 886377003010 motif 2; other site 886377003011 motif 3; other site 886377003012 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 886377003013 anticodon binding site; other site 886377003014 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 886377003015 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377003016 active site 886377003017 Bacterial Ig-like domain; Region: Big_5; pfam13205 886377003018 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 886377003019 C-N hydrolase family amidase; Provisional; Region: PRK10438 886377003020 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 886377003021 putative active site [active] 886377003022 catalytic triad [active] 886377003023 dimer interface [polypeptide binding]; other site 886377003024 multimer interface [polypeptide binding]; other site 886377003025 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 886377003026 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 886377003027 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 886377003028 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 886377003029 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 886377003030 heme binding site [chemical binding]; other site 886377003031 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 886377003032 DinB superfamily; Region: DinB_2; pfam12867 886377003033 Protein of unknown function (DUF664); Region: DUF664; pfam04978 886377003034 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 886377003035 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377003036 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 886377003037 putative catalytic site [active] 886377003038 putative metal binding site [ion binding]; other site 886377003039 putative phosphate binding site [ion binding]; other site 886377003040 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377003041 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377003042 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 886377003043 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 886377003044 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 886377003045 active site 886377003046 dimer interface [polypeptide binding]; other site 886377003047 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 886377003048 dimer interface [polypeptide binding]; other site 886377003049 active site 886377003050 putative peptidase; Provisional; Region: PRK11649 886377003051 Peptidase family M23; Region: Peptidase_M23; pfam01551 886377003052 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 886377003053 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 886377003054 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 886377003055 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 886377003056 active site 886377003057 nucleophile elbow; other site 886377003058 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 886377003059 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 886377003060 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 886377003061 GIY-YIG motif/motif A; other site 886377003062 active site 886377003063 catalytic site [active] 886377003064 putative DNA binding site [nucleotide binding]; other site 886377003065 metal binding site [ion binding]; metal-binding site 886377003066 UvrB/uvrC motif; Region: UVR; pfam02151 886377003067 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 886377003068 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 886377003069 DNA binding site [nucleotide binding] 886377003070 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 886377003071 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 886377003072 lipoprotein signal peptidase; Provisional; Region: PRK14788 886377003073 lipoprotein signal peptidase; Provisional; Region: PRK14787 886377003074 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 886377003075 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 886377003076 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 886377003077 HIGH motif; other site 886377003078 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377003079 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377003080 active site 886377003081 KMSKS motif; other site 886377003082 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 886377003083 tRNA binding surface [nucleotide binding]; other site 886377003084 anticodon binding site; other site 886377003085 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377003086 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 886377003087 N-terminal plug; other site 886377003088 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 886377003089 ligand-binding site [chemical binding]; other site 886377003090 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 886377003091 Recombination protein O N terminal; Region: RecO_N; pfam11967 886377003092 Recombination protein O C terminal; Region: RecO_C; pfam02565 886377003093 glutamate dehydrogenase; Provisional; Region: PRK09414 886377003094 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 886377003095 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 886377003096 NAD(P) binding site [chemical binding]; other site 886377003097 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 886377003098 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 886377003099 homodimer interface [polypeptide binding]; other site 886377003100 substrate-cofactor binding pocket; other site 886377003101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377003102 catalytic residue [active] 886377003103 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 886377003104 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 886377003105 DinB superfamily; Region: DinB_2; pfam12867 886377003106 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 886377003107 ArsC family; Region: ArsC; pfam03960 886377003108 catalytic residue [active] 886377003109 EamA-like transporter family; Region: EamA; pfam00892 886377003110 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 886377003111 EamA-like transporter family; Region: EamA; pfam00892 886377003112 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 886377003113 catalytic residues [active] 886377003114 GLPGLI family protein; Region: GLPGLI; TIGR01200 886377003115 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377003116 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 886377003117 active site 886377003118 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 886377003119 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 886377003120 FMN binding site [chemical binding]; other site 886377003121 substrate binding site [chemical binding]; other site 886377003122 putative catalytic residue [active] 886377003123 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 886377003124 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 886377003125 Cytochrome c; Region: Cytochrom_C; pfam00034 886377003126 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 886377003127 RibD C-terminal domain; Region: RibD_C; cl17279 886377003128 META domain; Region: META; pfam03724 886377003129 Predicted membrane protein [Function unknown]; Region: COG3650 886377003130 META domain; Region: META; pfam03724 886377003131 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 886377003132 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 886377003133 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 886377003134 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 886377003135 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 886377003136 GLPGLI family protein; Region: GLPGLI; TIGR01200 886377003137 GLPGLI family protein; Region: GLPGLI; TIGR01200 886377003138 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 886377003139 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 886377003140 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 886377003141 Colicin V production protein; Region: Colicin_V; pfam02674 886377003142 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 886377003143 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 886377003144 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 886377003145 aldehyde dehydrogenase family 7 member; Region: PLN02315 886377003146 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 886377003147 tetrameric interface [polypeptide binding]; other site 886377003148 NAD binding site [chemical binding]; other site 886377003149 catalytic residues [active] 886377003150 Uncharacterized conserved protein [Function unknown]; Region: COG3743 886377003151 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 886377003152 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 886377003153 homodimer interface [polypeptide binding]; other site 886377003154 putative substrate binding pocket [chemical binding]; other site 886377003155 diiron center [ion binding]; other site 886377003156 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377003157 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 886377003158 active site 886377003159 metal binding site [ion binding]; metal-binding site 886377003160 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 886377003161 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 886377003162 putative substrate binding site [chemical binding]; other site 886377003163 putative ATP binding site [chemical binding]; other site 886377003164 Divergent AAA domain; Region: AAA_4; pfam04326 886377003165 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 886377003166 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 886377003167 putative NAD(P) binding site [chemical binding]; other site 886377003168 homotetramer interface [polypeptide binding]; other site 886377003169 homodimer interface [polypeptide binding]; other site 886377003170 active site 886377003171 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 886377003172 active site 886377003173 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 886377003174 catalytic tetrad [active] 886377003175 MoxR-like ATPases [General function prediction only]; Region: COG0714 886377003176 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 886377003177 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 886377003178 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 886377003179 metal ion-dependent adhesion site (MIDAS); other site 886377003180 Aerotolerance regulator N-terminal; Region: BatA; cl06567 886377003181 VWA BatA type: 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_BatA_type; cd01467 886377003182 metal ion-dependent adhesion site (MIDAS); other site 886377003183 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 886377003184 metal ion-dependent adhesion site (MIDAS); other site 886377003185 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 886377003186 binding surface 886377003187 TPR motif; other site 886377003188 TPR repeat; Region: TPR_11; pfam13414 886377003189 Oxygen tolerance; Region: BatD; pfam13584 886377003190 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 886377003191 binding surface 886377003192 TPR repeat; Region: TPR_11; pfam13414 886377003193 TPR motif; other site 886377003194 Bacterial SH3 domain; Region: SH3_3; pfam08239 886377003195 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 886377003196 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 886377003197 Sulfate transporter family; Region: Sulfate_transp; pfam00916 886377003198 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_cladeC; cd03378 886377003199 active site clefts [active] 886377003200 zinc binding site [ion binding]; other site 886377003201 dimer interface [polypeptide binding]; other site 886377003202 high affinity sulphate transporter 1; Region: sulP; TIGR00815 886377003203 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 886377003204 Sulfate transporter family; Region: Sulfate_transp; pfam00916 886377003205 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 886377003206 Ceramidase; Region: Ceramidase; pfam05875 886377003207 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 886377003208 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 886377003209 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 886377003210 dimer interface [polypeptide binding]; other site 886377003211 motif 1; other site 886377003212 active site 886377003213 motif 2; other site 886377003214 motif 3; other site 886377003215 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377003216 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 886377003217 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377003218 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377003219 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 886377003220 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377003221 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 886377003222 allantoate amidohydrolase; Reviewed; Region: PRK09290 886377003223 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 886377003224 active site 886377003225 metal binding site [ion binding]; metal-binding site 886377003226 dimer interface [polypeptide binding]; other site 886377003227 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 886377003228 non-specific DNA binding site [nucleotide binding]; other site 886377003229 salt bridge; other site 886377003230 sequence-specific DNA binding site [nucleotide binding]; other site 886377003232 YhhN-like protein; Region: YhhN; pfam07947 886377003233 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 886377003234 putative active site [active] 886377003235 putative metal binding residues [ion binding]; other site 886377003236 signature motif; other site 886377003237 putative dimer interface [polypeptide binding]; other site 886377003238 putative phosphate binding site [ion binding]; other site 886377003239 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 886377003240 active site 886377003241 DNA polymerase IV; Validated; Region: PRK02406 886377003242 DNA binding site [nucleotide binding] 886377003243 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 886377003244 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 886377003245 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 886377003246 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 886377003247 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 886377003248 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 886377003249 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377003250 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 886377003251 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 886377003252 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 886377003253 domain interfaces; other site 886377003254 active site 886377003255 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 886377003256 dimerization interface [polypeptide binding]; other site 886377003257 active site 886377003258 metal binding site [ion binding]; metal-binding site 886377003259 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 886377003260 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 886377003261 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 886377003262 dimer interface [polypeptide binding]; other site 886377003263 active site 886377003264 acyl carrier protein; Provisional; Region: acpP; PRK00982 886377003265 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 886377003266 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 886377003267 active site 886377003268 substrate binding site [chemical binding]; other site 886377003269 cosubstrate binding site; other site 886377003270 catalytic site [active] 886377003271 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 886377003272 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 886377003273 active site 886377003274 RNA/DNA hybrid binding site [nucleotide binding]; other site 886377003275 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 886377003276 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 886377003277 substrate binding site [chemical binding]; other site 886377003278 ATP binding site [chemical binding]; other site 886377003279 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 886377003280 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 886377003281 active site 886377003282 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377003283 active site 886377003284 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 886377003285 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 886377003286 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 886377003287 putative recombination protein RecB; Provisional; Region: PRK13909 886377003288 Family description; Region: UvrD_C_2; pfam13538 886377003289 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 886377003290 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 886377003291 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 886377003292 substrate-cofactor binding pocket; other site 886377003293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377003294 catalytic residue [active] 886377003295 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 886377003296 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377003297 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377003298 ligand binding site [chemical binding]; other site 886377003299 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 886377003300 short chain dehydrogenase; Provisional; Region: PRK07326 886377003301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003302 NAD(P) binding site [chemical binding]; other site 886377003303 active site 886377003304 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 886377003305 active site 886377003306 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 886377003307 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 886377003308 active site 886377003309 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 886377003310 Ligand Binding Site [chemical binding]; other site 886377003311 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 886377003312 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377003313 Coenzyme A binding pocket [chemical binding]; other site 886377003314 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 886377003315 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 886377003316 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 886377003317 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 886377003318 substrate binding site [chemical binding]; other site 886377003319 oxyanion hole (OAH) forming residues; other site 886377003320 trimer interface [polypeptide binding]; other site 886377003321 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 886377003322 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 886377003323 putative active site [active] 886377003324 putative metal binding site [ion binding]; other site 886377003325 enterobactin exporter EntS; Provisional; Region: PRK10489 886377003326 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 886377003327 putative substrate translocation pore; other site 886377003328 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 886377003329 DHH family; Region: DHH; pfam01368 886377003330 DHHA1 domain; Region: DHHA1; pfam02272 886377003331 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 886377003332 GIY-YIG motif/motif A; other site 886377003333 putative active site [active] 886377003334 putative metal binding site [ion binding]; other site 886377003335 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 886377003336 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 886377003337 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 886377003338 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 886377003339 putative uracil binding site [chemical binding]; other site 886377003340 putative active site [active] 886377003341 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 886377003342 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377003343 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377003344 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377003345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377003346 hypothetical protein; Provisional; Region: PRK07206 886377003347 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 886377003348 non-specific DNA binding site [nucleotide binding]; other site 886377003349 salt bridge; other site 886377003350 sequence-specific DNA binding site [nucleotide binding]; other site 886377003351 Predicted methyltransferases [General function prediction only]; Region: COG0313 886377003352 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 886377003353 putative SAM binding site [chemical binding]; other site 886377003354 putative homodimer interface [polypeptide binding]; other site 886377003355 thymidine kinase; Provisional; Region: PRK04296 886377003356 alanine racemase; Reviewed; Region: alr; PRK00053 886377003357 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 886377003358 active site 886377003359 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377003360 dimer interface [polypeptide binding]; other site 886377003361 substrate binding site [chemical binding]; other site 886377003362 catalytic residues [active] 886377003363 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 886377003364 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 886377003365 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 886377003366 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 886377003367 GLPGLI family protein; Region: GLPGLI; TIGR01200 886377003368 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 886377003369 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377003370 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 886377003371 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377003372 Walker A/P-loop; other site 886377003373 ATP binding site [chemical binding]; other site 886377003374 Q-loop/lid; other site 886377003375 ABC transporter signature motif; other site 886377003376 Walker B; other site 886377003377 D-loop; other site 886377003378 H-loop/switch region; other site 886377003379 hypothetical protein; Provisional; Region: PRK09256 886377003380 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 886377003381 active site 886377003382 Zn binding site [ion binding]; other site 886377003383 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 886377003384 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 886377003385 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 886377003386 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 886377003387 Na binding site [ion binding]; other site 886377003388 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 886377003389 Lumazine binding domain; Region: Lum_binding; pfam00677 886377003390 Lumazine binding domain; Region: Lum_binding; pfam00677 886377003391 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 886377003392 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 886377003393 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 886377003394 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 886377003395 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 886377003396 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 886377003397 dimer interface [polypeptide binding]; other site 886377003398 active site 886377003399 CoA binding pocket [chemical binding]; other site 886377003400 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 886377003401 carboxyltransferase (CT) interaction site; other site 886377003402 biotinylation site [posttranslational modification]; other site 886377003403 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 886377003404 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 886377003405 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 886377003406 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 886377003407 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 886377003408 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 886377003409 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377003410 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 886377003411 Walker A/P-loop; other site 886377003412 ATP binding site [chemical binding]; other site 886377003413 Q-loop/lid; other site 886377003414 ABC transporter signature motif; other site 886377003415 Walker B; other site 886377003416 D-loop; other site 886377003417 H-loop/switch region; other site 886377003418 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 886377003419 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003420 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003421 FtsX-like permease family; Region: FtsX; pfam02687 886377003422 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003423 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377003424 FtsX-like permease family; Region: FtsX; pfam02687 886377003425 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377003426 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003427 FtsX-like permease family; Region: FtsX; pfam02687 886377003428 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003429 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377003430 FtsX-like permease family; Region: FtsX; pfam02687 886377003431 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003432 FtsX-like permease family; Region: FtsX; pfam02687 886377003433 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003434 FtsX-like permease family; Region: FtsX; pfam02687 886377003435 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377003436 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377003437 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003438 FtsX-like permease family; Region: FtsX; pfam02687 886377003439 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003440 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 886377003441 FtsX-like permease family; Region: FtsX; pfam02687 886377003442 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003443 FtsX-like permease family; Region: FtsX; pfam02687 886377003444 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377003445 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 886377003446 Walker A/P-loop; other site 886377003447 ATP binding site [chemical binding]; other site 886377003448 Q-loop/lid; other site 886377003449 ABC transporter signature motif; other site 886377003450 Walker B; other site 886377003451 D-loop; other site 886377003452 H-loop/switch region; other site 886377003453 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377003454 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 886377003455 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377003456 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377003457 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 886377003458 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 886377003459 active site 886377003460 phosphorylation site [posttranslational modification] 886377003461 intermolecular recognition site; other site 886377003462 dimerization interface [polypeptide binding]; other site 886377003463 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 886377003464 Walker A motif; other site 886377003465 ATP binding site [chemical binding]; other site 886377003466 Walker B motif; other site 886377003467 arginine finger; other site 886377003468 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 886377003469 PAS domain; Region: PAS; smart00091 886377003470 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 886377003471 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 886377003472 ATP binding site [chemical binding]; other site 886377003473 Mg2+ binding site [ion binding]; other site 886377003474 G-X-G motif; other site 886377003475 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 886377003476 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 886377003477 Uncharacterized conserved protein, YhbC family [Function unknown]; Region: COG0782 886377003478 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 886377003479 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 886377003480 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 886377003481 active site 886377003482 phosphorylation site [posttranslational modification] 886377003483 intermolecular recognition site; other site 886377003484 dimerization interface [polypeptide binding]; other site 886377003485 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 886377003486 Walker A motif; other site 886377003487 ATP binding site [chemical binding]; other site 886377003488 Walker B motif; other site 886377003489 arginine finger; other site 886377003490 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 886377003491 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377003492 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 886377003493 dimer interface [polypeptide binding]; other site 886377003494 phosphorylation site [posttranslational modification] 886377003495 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 886377003496 ATP binding site [chemical binding]; other site 886377003497 Mg2+ binding site [ion binding]; other site 886377003498 G-X-G motif; other site 886377003499 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 886377003500 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 886377003501 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 886377003502 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377003503 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 886377003504 dimer interface [polypeptide binding]; other site 886377003505 substrate binding site [chemical binding]; other site 886377003506 metal binding site [ion binding]; metal-binding site 886377003507 Ribosome-binding factor A; Region: RBFA; pfam02033 886377003508 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 886377003509 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003510 FtsX-like permease family; Region: FtsX; pfam02687 886377003511 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 886377003512 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 886377003513 FMN binding site [chemical binding]; other site 886377003514 active site 886377003515 catalytic residues [active] 886377003516 substrate binding site [chemical binding]; other site 886377003517 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 886377003518 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377003519 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 886377003520 GTP-binding protein LepA; Provisional; Region: PRK05433 886377003521 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 886377003522 G1 box; other site 886377003523 putative GEF interaction site [polypeptide binding]; other site 886377003524 GTP/Mg2+ binding site [chemical binding]; other site 886377003525 Switch I region; other site 886377003526 G2 box; other site 886377003527 G3 box; other site 886377003528 Switch II region; other site 886377003529 G4 box; other site 886377003530 G5 box; other site 886377003531 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 886377003532 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 886377003533 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 886377003534 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 886377003535 oligomer interface [polypeptide binding]; other site 886377003536 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 886377003537 transmembrane helices; other site 886377003538 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 886377003539 TrkA-C domain; Region: TrkA_C; pfam02080 886377003540 TrkA-C domain; Region: TrkA_C; pfam02080 886377003541 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 886377003542 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 886377003543 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 886377003544 TrkA-N domain; Region: TrkA_N; pfam02254 886377003545 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 886377003546 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 886377003547 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 886377003548 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 886377003549 active site 886377003550 catalytic triad [active] 886377003551 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 886377003552 Zn binding site [ion binding]; other site 886377003554 Transposase; Region: DEDD_Tnp_IS110; pfam01548 886377003555 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 886377003556 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 886377003557 ribonuclease P; Reviewed; Region: rnpA; PRK01903 886377003558 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 886377003559 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 886377003560 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 886377003561 protein binding site [polypeptide binding]; other site 886377003562 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 886377003563 Catalytic dyad [active] 886377003564 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 886377003565 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 886377003566 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 886377003567 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 886377003568 cofactor binding site; other site 886377003569 DNA binding site [nucleotide binding] 886377003570 substrate interaction site [chemical binding]; other site 886377003571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377003572 Coenzyme A binding pocket [chemical binding]; other site 886377003573 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 886377003574 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 886377003575 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 886377003576 ribonuclease R; Region: RNase_R; TIGR02063 886377003577 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 886377003578 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 886377003579 RNB domain; Region: RNB; pfam00773 886377003580 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 886377003581 RNA binding site [nucleotide binding]; other site 886377003582 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377003583 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 886377003584 Dihydroneopterin aldolase; Region: FolB; pfam02152 886377003585 active site 886377003586 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377003587 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 886377003588 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 886377003589 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 886377003590 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 886377003591 Sporulation related domain; Region: SPOR; pfam05036 886377003592 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 886377003593 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 886377003594 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377003595 active site 886377003596 HIGH motif; other site 886377003597 nucleotide binding site [chemical binding]; other site 886377003598 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377003599 active site 886377003600 KMSKS motif; other site 886377003601 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 886377003602 YtxH-like protein; Region: YtxH; pfam12732 886377003603 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14334 886377003604 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 886377003605 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 886377003606 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 886377003607 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 886377003608 active site 886377003609 HIGH motif; other site 886377003610 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 886377003611 active site 886377003612 KMSKS motif; other site 886377003613 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 886377003614 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 886377003615 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 886377003616 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 886377003617 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 886377003618 Methyltransferase domain; Region: Methyltransf_31; pfam13847 886377003619 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 886377003620 S-adenosylmethionine binding site [chemical binding]; other site 886377003621 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 886377003622 Predicted membrane protein [Function unknown]; Region: COG4270 886377003623 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 886377003624 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377003625 ligand binding site [chemical binding]; other site 886377003626 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 886377003627 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 886377003628 DNA polymerase III subunit delta'; Validated; Region: PRK08485 886377003629 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 886377003630 Phosphoglycerate kinase; Region: PGK; pfam00162 886377003631 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 886377003632 substrate binding site [chemical binding]; other site 886377003633 hinge regions; other site 886377003634 ADP binding site [chemical binding]; other site 886377003635 catalytic site [active] 886377003636 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 886377003637 N-acetyl-D-glucosamine binding site [chemical binding]; other site 886377003638 catalytic residue [active] 886377003639 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 886377003640 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 886377003641 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377003642 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 886377003643 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377003644 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377003645 ligand binding site [chemical binding]; other site 886377003646 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 886377003647 Peptidase family M23; Region: Peptidase_M23; pfam01551 886377003648 GH3 auxin-responsive promoter; Region: GH3; pfam03321 886377003649 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 886377003650 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 886377003651 NADP binding site [chemical binding]; other site 886377003652 active site 886377003653 putative substrate binding site [chemical binding]; other site 886377003654 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 886377003655 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 886377003656 NAD binding site [chemical binding]; other site 886377003657 substrate binding site [chemical binding]; other site 886377003658 homodimer interface [polypeptide binding]; other site 886377003659 active site 886377003660 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 886377003661 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 886377003662 substrate binding site; other site 886377003663 tetramer interface; other site 886377003664 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 886377003665 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 886377003666 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 886377003667 active site 886377003668 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 886377003669 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 886377003670 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 886377003671 AAA domain; Region: AAA_18; pfam13238 886377003672 ligand-binding site [chemical binding]; other site 886377003673 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 886377003674 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 886377003675 Active Sites [active] 886377003676 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 886377003677 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 886377003678 CysD dimerization site [polypeptide binding]; other site 886377003679 G1 box; other site 886377003680 putative GEF interaction site [polypeptide binding]; other site 886377003681 GTP/Mg2+ binding site [chemical binding]; other site 886377003682 Switch I region; other site 886377003683 G2 box; other site 886377003684 G3 box; other site 886377003685 Switch II region; other site 886377003686 G4 box; other site 886377003687 G5 box; other site 886377003688 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 886377003689 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 886377003691 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 886377003692 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 886377003693 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 886377003694 active site 886377003695 substrate binding site [chemical binding]; other site 886377003696 trimer interface [polypeptide binding]; other site 886377003697 CoA binding site [chemical binding]; other site 886377003698 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 886377003699 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 886377003700 O-Antigen ligase; Region: Wzy_C; pfam04932 886377003701 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 886377003702 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 886377003703 active site 886377003704 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377003705 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 886377003706 putative ADP-binding pocket [chemical binding]; other site 886377003707 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 886377003708 Bacterial sugar transferase; Region: Bac_transf; pfam02397 886377003709 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 886377003710 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 886377003711 NAD binding site [chemical binding]; other site 886377003712 putative substrate binding site 2 [chemical binding]; other site 886377003713 putative substrate binding site 1 [chemical binding]; other site 886377003714 active site 886377003715 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 886377003716 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 886377003717 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 886377003718 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 886377003719 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 886377003720 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 886377003721 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 886377003722 putative active site [active] 886377003723 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 886377003724 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 886377003725 FeS/SAM binding site; other site 886377003726 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 886377003727 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 886377003728 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 886377003729 Fasciclin domain; Region: Fasciclin; pfam02469 886377003730 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 886377003731 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 886377003732 active site 886377003733 nucleophile elbow; other site 886377003734 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 886377003735 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 886377003736 FAD binding pocket [chemical binding]; other site 886377003737 FAD binding motif [chemical binding]; other site 886377003738 phosphate binding motif [ion binding]; other site 886377003739 beta-alpha-beta structure motif; other site 886377003740 NAD(p) ribose binding residues [chemical binding]; other site 886377003741 NAD binding pocket [chemical binding]; other site 886377003742 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 886377003743 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 886377003744 catalytic loop [active] 886377003745 iron binding site [ion binding]; other site 886377003746 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 886377003747 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 886377003748 Walker A/P-loop; other site 886377003749 ATP binding site [chemical binding]; other site 886377003750 Q-loop/lid; other site 886377003751 ABC transporter signature motif; other site 886377003752 Walker B; other site 886377003753 D-loop; other site 886377003754 H-loop/switch region; other site 886377003755 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 886377003756 TPR motif; other site 886377003757 binding surface 886377003758 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 886377003759 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 886377003760 ATP synthase A chain; Region: ATP-synt_A; cl00413 886377003761 ATP synthase subunit C; Region: ATP-synt_C; cl00466 886377003762 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 886377003763 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 886377003764 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 886377003765 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 886377003766 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 886377003767 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 886377003768 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 886377003769 beta subunit interaction interface [polypeptide binding]; other site 886377003770 Walker A motif; other site 886377003771 ATP binding site [chemical binding]; other site 886377003772 Walker B motif; other site 886377003773 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 886377003774 four helix bundle protein; Region: TIGR02436 886377003775 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 886377003776 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 886377003777 core domain interface [polypeptide binding]; other site 886377003778 delta subunit interface [polypeptide binding]; other site 886377003779 epsilon subunit interface [polypeptide binding]; other site 886377003780 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 886377003781 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 886377003782 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 886377003783 trimer interface [polypeptide binding]; other site 886377003784 active site 886377003785 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 886377003786 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 886377003787 active site 886377003788 Substrate binding site; other site 886377003789 Mg++ binding site; other site 886377003790 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 886377003791 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 886377003792 TPR motif; other site 886377003793 binding surface 886377003794 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 886377003795 Protein of unknown function (DUF837); Region: DUF837; pfam05769 886377003796 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 886377003797 Peptidase family M23; Region: Peptidase_M23; pfam01551 886377003798 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 886377003799 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 886377003800 active site 886377003801 catalytic tetrad [active] 886377003802 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 886377003803 Sporulation related domain; Region: SPOR; pfam05036 886377003804 DNA protecting protein DprA; Region: dprA; TIGR00732 886377003805 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 886377003806 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 886377003807 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 886377003808 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 886377003809 homodimer interface [polypeptide binding]; other site 886377003810 homotetramer interface [polypeptide binding]; other site 886377003811 active site pocket [active] 886377003812 cleavage site 886377003813 DinB superfamily; Region: DinB_2; pfam12867 886377003814 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377003815 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377003816 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377003817 VPS10 domain; Region: VPS10; smart00602 886377003818 Snf7; Region: Snf7; pfam03357 886377003819 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 886377003820 Asp-box motif; other site 886377003821 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 886377003822 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 886377003823 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 886377003824 additional DNA contacts [nucleotide binding]; other site 886377003825 mismatch recognition site; other site 886377003826 active site 886377003827 zinc binding site [ion binding]; other site 886377003828 DNA intercalation site [nucleotide binding]; other site 886377003829 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 886377003830 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 886377003831 non-specific DNA binding site [nucleotide binding]; other site 886377003832 salt bridge; other site 886377003833 sequence-specific DNA binding site [nucleotide binding]; other site 886377003834 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 886377003835 Catalytic site [active] 886377003836 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 886377003837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377003838 Coenzyme A binding pocket [chemical binding]; other site 886377003839 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 886377003840 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 886377003841 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 886377003842 Transglycosylase; Region: Transgly; pfam00912 886377003843 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 886377003844 GldH lipoprotein; Region: GldH_lipo; pfam14109 886377003845 PSP1 C-terminal conserved region; Region: PSP1; cl00770 886377003846 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 886377003847 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 886377003848 active site residue [active] 886377003849 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 886377003850 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 886377003851 hexamer interface [polypeptide binding]; other site 886377003852 Walker A motif; other site 886377003853 ATP binding site [chemical binding]; other site 886377003854 Walker B motif; other site 886377003855 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377003856 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377003857 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 886377003858 DNA binding residues [nucleotide binding] 886377003859 membrane-attack complex/perforin (MACPF) Superfamily; Provisional; Region: PTZ00482 886377003860 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 886377003861 GAF domain; Region: GAF_2; pfam13185 886377003862 Histidine kinase; Region: His_kinase; pfam06580 886377003863 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 886377003864 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 886377003865 Histidine kinase; Region: His_kinase; pfam06580 886377003866 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377003867 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 886377003868 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 886377003869 putative acyl-acceptor binding pocket; other site 886377003870 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 886377003871 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 886377003872 active site 886377003873 HIGH motif; other site 886377003874 dimer interface [polypeptide binding]; other site 886377003875 KMSKS motif; other site 886377003876 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 886377003877 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 886377003878 FeS/SAM binding site; other site 886377003879 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 886377003880 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 886377003881 substrate binding site [chemical binding]; other site 886377003882 oxyanion hole (OAH) forming residues; other site 886377003883 trimer interface [polypeptide binding]; other site 886377003884 HAMP domain; Region: HAMP; pfam00672 886377003885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 886377003886 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 886377003887 dimer interface [polypeptide binding]; other site 886377003888 phosphorylation site [posttranslational modification] 886377003889 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 886377003890 ATP binding site [chemical binding]; other site 886377003891 Mg2+ binding site [ion binding]; other site 886377003892 G-X-G motif; other site 886377003893 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 886377003894 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 886377003895 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 886377003896 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 886377003897 four helix bundle protein; Region: TIGR02436 886377003898 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 886377003899 L-aspartate oxidase; Provisional; Region: PRK06175 886377003900 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 886377003901 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 886377003902 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 886377003903 putative Iron-sulfur protein interface [polypeptide binding]; other site 886377003904 proximal heme binding site [chemical binding]; other site 886377003905 distal heme binding site [chemical binding]; other site 886377003906 putative dimer interface [polypeptide binding]; other site 886377003907 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 886377003908 ATP-grasp domain; Region: ATP-grasp_4; cl17255 886377003909 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13296 886377003910 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 886377003911 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 886377003912 proline aminopeptidase P II; Provisional; Region: PRK10879 886377003913 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 886377003914 active site 886377003915 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377003916 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377003917 Cation efflux family; Region: Cation_efflux; cl00316 886377003918 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 886377003919 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 886377003920 S-adenosylmethionine binding site [chemical binding]; other site 886377003921 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 886377003922 thiamine-monophosphate kinase; Region: thiL; TIGR01379 886377003923 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 886377003924 ATP binding site [chemical binding]; other site 886377003925 dimerization interface [polypeptide binding]; other site 886377003926 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 886377003927 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 886377003928 putative ABC transporter; Region: ycf24; CHL00085 886377003929 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 886377003930 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 886377003931 Walker A/P-loop; other site 886377003932 ATP binding site [chemical binding]; other site 886377003933 Q-loop/lid; other site 886377003934 ABC transporter signature motif; other site 886377003935 Walker B; other site 886377003936 D-loop; other site 886377003937 H-loop/switch region; other site 886377003938 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 886377003939 four helix bundle protein; Region: TIGR02436 886377003940 FeS assembly protein SufD; Region: sufD; TIGR01981 886377003941 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 886377003942 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 886377003943 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 886377003944 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 886377003945 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377003946 catalytic residue [active] 886377003947 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 886377003948 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 886377003949 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 886377003950 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 886377003951 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 886377003952 binding surface 886377003953 TPR motif; other site 886377003954 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003955 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 886377003956 binding surface 886377003957 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003958 TPR motif; other site 886377003959 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003960 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003961 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377003962 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 886377003963 dimer interface [polypeptide binding]; other site 886377003964 phosphorylation site [posttranslational modification] 886377003965 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 886377003966 ATP binding site [chemical binding]; other site 886377003967 Mg2+ binding site [ion binding]; other site 886377003968 G-X-G motif; other site 886377003969 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 886377003970 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 886377003971 active site 886377003972 phosphorylation site [posttranslational modification] 886377003973 intermolecular recognition site; other site 886377003974 dimerization interface [polypeptide binding]; other site 886377003975 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377003976 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377003977 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 886377003978 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377003979 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 886377003980 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 886377003981 HflX GTPase family; Region: HflX; cd01878 886377003982 G1 box; other site 886377003983 GTP/Mg2+ binding site [chemical binding]; other site 886377003984 Switch I region; other site 886377003985 G2 box; other site 886377003986 G3 box; other site 886377003987 Switch II region; other site 886377003988 G4 box; other site 886377003989 G5 box; other site 886377003990 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 886377003991 putative catalytic site [active] 886377003992 putative metal binding site [ion binding]; other site 886377003993 putative phosphate binding site [ion binding]; other site 886377003994 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 886377003995 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 886377003996 active site 886377003997 catalytic triad [active] 886377003998 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 886377003999 Interdomain contacts; other site 886377004000 Cytokine receptor motif; other site 886377004001 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377004002 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 886377004003 active site 886377004004 catalytic site [active] 886377004005 substrate binding site [chemical binding]; other site 886377004006 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 886377004007 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 886377004008 DNA binding site [nucleotide binding] 886377004009 active site 886377004010 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 886377004011 Domain of unknown function DUF21; Region: DUF21; pfam01595 886377004012 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 886377004013 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377004014 Beta-lactamase; Region: Beta-lactamase; cl17358 886377004015 DNA polymerase III PolC; Validated; Region: polC; PRK00448 886377004016 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 886377004017 dimer interface [polypeptide binding]; other site 886377004018 allosteric magnesium binding site [ion binding]; other site 886377004019 active site 886377004020 aspartate-rich active site metal binding site; other site 886377004021 Schiff base residues; other site 886377004022 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 886377004023 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 886377004024 Restriction endonuclease EcoRV; Region: Endonuc-EcoRV; pfam09233 886377004025 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 886377004026 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 886377004027 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 886377004028 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 886377004029 substrate binding site [chemical binding]; other site 886377004030 active site 886377004031 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 886377004032 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 886377004033 active site 886377004034 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 886377004035 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 886377004036 domain interfaces; other site 886377004037 active site 886377004038 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 886377004039 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 886377004040 tRNA; other site 886377004041 putative tRNA binding site [nucleotide binding]; other site 886377004042 putative NADP binding site [chemical binding]; other site 886377004043 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 886377004044 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377004045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377004046 Trehalose utilisation; Region: ThuA; pfam06283 886377004047 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 886377004048 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 886377004049 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377004050 ferrochelatase; Reviewed; Region: hemH; PRK00035 886377004051 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 886377004052 C-terminal domain interface [polypeptide binding]; other site 886377004053 active site 886377004054 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 886377004055 active site 886377004056 N-terminal domain interface [polypeptide binding]; other site 886377004057 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 886377004058 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 886377004059 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 886377004060 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377004061 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377004062 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377004063 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377004064 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 886377004065 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 886377004066 Zn2+ binding site [ion binding]; other site 886377004067 Mg2+ binding site [ion binding]; other site 886377004068 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 886377004069 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 886377004070 putative acyl-acceptor binding pocket; other site 886377004071 Disulphide isomerase; Region: Disulph_isomer; pfam06491 886377004072 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 886377004073 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 886377004074 putative metal binding site [ion binding]; other site 886377004075 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 886377004076 HSP70 interaction site [polypeptide binding]; other site 886377004077 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 886377004078 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 886377004079 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 886377004080 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 886377004081 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 886377004082 catalytic motif [active] 886377004083 Zn binding site [ion binding]; other site 886377004084 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 886377004085 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 886377004086 protein binding site [polypeptide binding]; other site 886377004087 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 886377004088 Catalytic dyad [active] 886377004089 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 886377004090 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 886377004091 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377004092 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 886377004093 binding surface 886377004094 TPR motif; other site 886377004095 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377004096 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 886377004097 binding surface 886377004098 TPR motif; other site 886377004099 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377004100 Histidine kinase; Region: His_kinase; pfam06580 886377004101 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 886377004102 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377004103 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 886377004104 active site 886377004105 phosphorylation site [posttranslational modification] 886377004106 intermolecular recognition site; other site 886377004107 dimerization interface [polypeptide binding]; other site 886377004108 LytTr DNA-binding domain; Region: LytTR; smart00850 886377004109 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377004110 Predicted oxidoreductase [General function prediction only]; Region: COG3573 886377004111 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377004112 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377004113 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 886377004114 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 886377004115 DinB family; Region: DinB; cl17821 886377004116 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 886377004117 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 886377004118 putative substrate translocation pore; other site 886377004119 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 886377004120 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377004121 putative substrate translocation pore; other site 886377004122 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377004123 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377004124 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 886377004125 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 886377004126 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 886377004127 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 886377004128 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377004129 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377004130 hypothetical protein; Provisional; Region: PRK11820 886377004131 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 886377004132 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 886377004133 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 886377004134 Guanylate kinase; Region: Guanylate_kin; pfam00625 886377004135 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 886377004136 catalytic site [active] 886377004137 G-X2-G-X-G-K; other site 886377004138 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 886377004139 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 886377004140 active site 886377004141 (T/H)XGH motif; other site 886377004142 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 886377004143 active site 886377004144 Phosphate transporter family; Region: PHO4; pfam01384 886377004145 Phosphate transporter family; Region: PHO4; cl00396 886377004146 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 886377004147 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 886377004148 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 886377004149 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 886377004150 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 886377004151 TPP-binding site; other site 886377004152 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 886377004153 PYR/PP interface [polypeptide binding]; other site 886377004154 dimer interface [polypeptide binding]; other site 886377004155 TPP binding site [chemical binding]; other site 886377004156 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377004157 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 886377004158 nucleoside/Zn binding site; other site 886377004159 dimer interface [polypeptide binding]; other site 886377004160 catalytic motif [active] 886377004161 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 886377004162 DNA-binding site [nucleotide binding]; DNA binding site 886377004163 RNA-binding motif; other site 886377004164 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 886377004165 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 886377004166 Cl- selectivity filter; other site 886377004167 Cl- binding residues [ion binding]; other site 886377004168 pore gating glutamate residue; other site 886377004169 dimer interface [polypeptide binding]; other site 886377004170 FOG: CBS domain [General function prediction only]; Region: COG0517 886377004171 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 886377004172 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 886377004173 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 886377004174 dimer interface [polypeptide binding]; other site 886377004175 anticodon binding site; other site 886377004176 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 886377004177 homodimer interface [polypeptide binding]; other site 886377004178 motif 1; other site 886377004179 active site 886377004180 motif 2; other site 886377004181 GAD domain; Region: GAD; pfam02938 886377004182 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 886377004183 active site 886377004184 motif 3; other site 886377004185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 886377004186 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377004187 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377004188 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 886377004189 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377004190 Outer membrane efflux protein; Region: OEP; pfam02321 886377004191 Outer membrane efflux protein; Region: OEP; pfam02321 886377004192 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377004193 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 886377004194 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377004195 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 886377004196 DNA binding residues [nucleotide binding] 886377004197 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 886377004198 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 886377004199 substrate binding pocket [chemical binding]; other site 886377004200 chain length determination region; other site 886377004201 substrate-Mg2+ binding site; other site 886377004202 catalytic residues [active] 886377004203 aspartate-rich region 1; other site 886377004204 active site lid residues [active] 886377004205 aspartate-rich region 2; other site 886377004206 lycopene cyclase; Region: lycopene_cycl; TIGR01789 886377004207 Uncharacterized conserved protein [Function unknown]; Region: COG2361 886377004208 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 886377004209 active site 886377004210 NTP binding site [chemical binding]; other site 886377004211 metal binding triad [ion binding]; metal-binding site 886377004212 antibiotic binding site [chemical binding]; other site 886377004213 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377004214 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 886377004215 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 886377004216 N-terminal plug; other site 886377004217 ligand-binding site [chemical binding]; other site 886377004218 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 886377004219 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 886377004220 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 886377004221 FeoA domain; Region: FeoA; pfam04023 886377004222 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 886377004223 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377004224 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377004225 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 886377004226 Outer membrane efflux protein; Region: OEP; pfam02321 886377004227 Outer membrane efflux protein; Region: OEP; pfam02321 886377004228 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 886377004229 Asp-box motif; other site 886377004230 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 886377004231 classical (c) SDRs; Region: SDR_c; cd05233 886377004232 NAD(P) binding site [chemical binding]; other site 886377004233 active site 886377004234 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 886377004235 Protein of unknown function (DUF423); Region: DUF423; pfam04241 886377004236 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 886377004237 Putative zinc-finger; Region: zf-HC2; pfam13490 886377004238 HEAT repeats; Region: HEAT_2; pfam13646 886377004239 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377004240 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377004241 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 886377004242 DNA binding residues [nucleotide binding] 886377004243 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 886377004244 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 886377004245 G1 box; other site 886377004246 GTP/Mg2+ binding site [chemical binding]; other site 886377004247 Switch I region; other site 886377004248 G2 box; other site 886377004249 G3 box; other site 886377004250 Switch II region; other site 886377004251 G4 box; other site 886377004252 G5 box; other site 886377004253 Nucleoside recognition; Region: Gate; pfam07670 886377004254 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 886377004255 Nucleoside recognition; Region: Gate; pfam07670 886377004256 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 886377004257 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 886377004258 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 886377004259 Cu(I) binding site [ion binding]; other site 886377004260 zinc metallopeptidase RseP; Provisional; Region: PRK10779 886377004261 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 886377004262 active site 886377004263 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 886377004264 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 886377004265 protein binding site [polypeptide binding]; other site 886377004266 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 886377004267 putative substrate binding region [chemical binding]; other site 886377004269 peroxiredoxin; Provisional; Region: PRK13189 886377004270 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 886377004271 dimer interface [polypeptide binding]; other site 886377004272 decamer (pentamer of dimers) interface [polypeptide binding]; other site 886377004273 catalytic triad [active] 886377004274 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 886377004275 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 886377004276 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 886377004277 active site residue [active] 886377004278 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 886377004279 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 886377004280 dimerization interface [polypeptide binding]; other site 886377004281 DPS ferroxidase diiron center [ion binding]; other site 886377004282 ion pore; other site 886377004283 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 886377004284 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 886377004285 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 886377004286 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 886377004287 Response regulator receiver domain; Region: Response_reg; pfam00072 886377004288 active site 886377004289 phosphorylation site [posttranslational modification] 886377004290 intermolecular recognition site; other site 886377004291 dimerization interface [polypeptide binding]; other site 886377004292 Predicted transporter component [General function prediction only]; Region: COG2391 886377004293 Sulphur transport; Region: Sulf_transp; pfam04143 886377004294 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 886377004295 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377004296 Protein export membrane protein; Region: SecD_SecF; cl14618 886377004297 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377004298 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 886377004299 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377004300 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 886377004301 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 886377004302 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 886377004303 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 886377004304 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 886377004305 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 886377004306 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 886377004307 metal-binding site [ion binding] 886377004308 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 886377004309 active site residue [active] 886377004310 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 886377004311 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 886377004312 active site residue [active] 886377004313 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 886377004314 active site residue [active] 886377004315 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 886377004316 high affinity sulphate transporter 1; Region: sulP; TIGR00815 886377004317 Sulfate transporter family; Region: Sulfate_transp; pfam00916 886377004318 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 886377004319 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377004320 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; cl00047 886377004321 Sulfatase; Region: Sulfatase; cl17466 886377004322 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 886377004323 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 886377004324 nucleotide binding site [chemical binding]; other site 886377004325 xylose isomerase; Provisional; Region: PRK05474 886377004326 xylose isomerase; Region: xylose_isom_A; TIGR02630 886377004327 putative transporter; Provisional; Region: PRK10484 886377004328 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 886377004329 Na binding site [ion binding]; other site 886377004330 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377004331 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 886377004332 active site 886377004333 phosphorylation site [posttranslational modification] 886377004334 intermolecular recognition site; other site 886377004335 dimerization interface [polypeptide binding]; other site 886377004336 LytTr DNA-binding domain; Region: LytTR; smart00850 886377004337 Histidine kinase; Region: His_kinase; pfam06580 886377004338 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 886377004339 Uncharacterized conserved protein [Function unknown]; Region: COG2353 886377004340 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377004341 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 886377004342 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377004343 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 886377004344 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 886377004345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377004346 NAD(P) binding site [chemical binding]; other site 886377004347 active site 886377004348 SnoaL-like domain; Region: SnoaL_3; pfam13474 886377004349 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377004350 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 886377004351 NADH(P)-binding; Region: NAD_binding_10; pfam13460 886377004352 putative NAD(P) binding site [chemical binding]; other site 886377004353 M28 Zn-peptidase Endoplasmic reticulum metallopeptidase 1; Region: M28_Fxna_like; cd03875 886377004354 metal binding site [ion binding]; metal-binding site 886377004355 Peptidase family M28; Region: Peptidase_M28; pfam04389 886377004356 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 886377004357 FOG: CBS domain [General function prediction only]; Region: COG0517 886377004358 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 886377004359 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 886377004360 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 886377004361 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 886377004362 Asp-box motif; other site 886377004363 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 886377004364 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 886377004365 glycerate kinase; Region: TIGR00045 886377004366 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 886377004367 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 886377004368 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 886377004369 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 886377004370 dimerization interface [polypeptide binding]; other site 886377004371 DPS ferroxidase diiron center [ion binding]; other site 886377004372 ion pore; other site 886377004373 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 886377004374 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 886377004375 dimer interface [polypeptide binding]; other site 886377004376 ssDNA binding site [nucleotide binding]; other site 886377004377 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377004378 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377004379 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377004380 Peptidase family M28; Region: Peptidase_M28; pfam04389 886377004381 metal binding site [ion binding]; metal-binding site 886377004382 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 886377004383 active site 886377004384 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 886377004385 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 886377004386 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 886377004387 putative active site [active] 886377004388 Zn binding site [ion binding]; other site 886377004389 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 886377004390 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 886377004391 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 886377004392 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 886377004393 RNA binding site [nucleotide binding]; other site 886377004394 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 886377004395 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 886377004396 active site 886377004397 HIGH motif; other site 886377004398 KMSKS motif; other site 886377004399 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 886377004400 tRNA binding surface [nucleotide binding]; other site 886377004401 anticodon binding site; other site 886377004402 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 886377004403 dimer interface [polypeptide binding]; other site 886377004404 putative tRNA-binding site [nucleotide binding]; other site 886377004405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 886377004406 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377004407 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 886377004408 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 886377004409 Family description; Region: ACT_7; pfam13840 886377004410 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 886377004411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 886377004412 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377004413 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377004414 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 886377004415 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 886377004416 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 886377004417 ATP binding site [chemical binding]; other site 886377004418 putative Mg++ binding site [ion binding]; other site 886377004419 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 886377004420 nucleotide binding region [chemical binding]; other site 886377004421 ATP-binding site [chemical binding]; other site 886377004422 TRCF domain; Region: TRCF; pfam03461 886377004423 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 886377004424 putative active site [active] 886377004425 putative metal binding site [ion binding]; other site 886377004426 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 886377004427 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 886377004428 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 886377004429 ATP binding site [chemical binding]; other site 886377004430 putative Mg++ binding site [ion binding]; other site 886377004431 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 886377004432 nucleotide binding region [chemical binding]; other site 886377004433 ATP-binding site [chemical binding]; other site 886377004434 DEAD/H associated; Region: DEAD_assoc; pfam08494 886377004435 tellurium resistance terB-like protein; Region: terB_like; cl11965 886377004436 metal binding site [ion binding]; metal-binding site 886377004437 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 886377004438 AMP binding site [chemical binding]; other site 886377004439 metal binding site [ion binding]; metal-binding site 886377004440 active site 886377004441 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 886377004442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377004443 Coenzyme A binding pocket [chemical binding]; other site 886377004444 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 886377004445 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 886377004446 nucleotide binding site [chemical binding]; other site 886377004447 substrate binding site [chemical binding]; other site 886377004448 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 886377004449 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 886377004450 putative acyl-acceptor binding pocket; other site 886377004451 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 886377004452 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 886377004453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377004454 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 886377004455 Coenzyme A binding pocket [chemical binding]; other site 886377004456 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 886377004457 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 886377004458 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 886377004459 putative ligand binding site [chemical binding]; other site 886377004460 putative NAD binding site [chemical binding]; other site 886377004461 catalytic site [active] 886377004462 Cupin domain; Region: Cupin_2; cl17218 886377004463 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 886377004464 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 886377004465 MgtE intracellular N domain; Region: MgtE_N; smart00924 886377004466 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 886377004467 Divalent cation transporter; Region: MgtE; pfam01769 886377004468 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 886377004469 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 886377004470 S-adenosylmethionine binding site [chemical binding]; other site 886377004471 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 886377004472 putative active site pocket [active] 886377004473 dimerization interface [polypeptide binding]; other site 886377004474 putative catalytic residue [active] 886377004475 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 886377004476 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 886377004477 TPR motif; other site 886377004478 binding surface 886377004479 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 886377004480 binding surface 886377004481 TPR motif; other site 886377004482 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 886377004483 seryl-tRNA synthetase; Provisional; Region: PRK05431 886377004484 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 886377004485 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 886377004486 dimer interface [polypeptide binding]; other site 886377004487 active site 886377004488 motif 1; other site 886377004489 motif 2; other site 886377004490 motif 3; other site 886377004491 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 886377004492 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 886377004493 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 886377004494 active site 886377004495 Riboflavin kinase; Region: Flavokinase; pfam01687 886377004496 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 886377004497 active site 886377004498 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 886377004499 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 886377004500 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377004501 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 886377004502 putative active site [active] 886377004503 catalytic residue [active] 886377004504 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 886377004505 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 886377004506 5S rRNA interface [nucleotide binding]; other site 886377004507 CTC domain interface [polypeptide binding]; other site 886377004508 L16 interface [polypeptide binding]; other site 886377004509 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 886377004510 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 886377004511 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377004512 active site 886377004513 ATP cone domain; Region: ATP-cone; pfam03477 886377004514 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 886377004515 dimer interface [polypeptide binding]; other site 886377004516 putative radical transfer pathway; other site 886377004517 diiron center [ion binding]; other site 886377004518 tyrosyl radical; other site 886377004519 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 886377004520 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 886377004521 Class I ribonucleotide reductase; Region: RNR_I; cd01679 886377004522 active site 886377004523 dimer interface [polypeptide binding]; other site 886377004524 catalytic residues [active] 886377004525 effector binding site; other site 886377004526 R2 peptide binding site; other site 886377004527 conserved repeat domain; Region: B_ant_repeat; TIGR01451 886377004528 conserved repeat domain; Region: B_ant_repeat; TIGR01451 886377004529 conserved repeat domain; Region: B_ant_repeat; TIGR01451 886377004530 Domain of unknown function DUF11; Region: DUF11; pfam01345 886377004531 conserved repeat domain; Region: B_ant_repeat; TIGR01451 886377004532 conserved repeat domain; Region: B_ant_repeat; TIGR01451 886377004533 Domain of unknown function DUF11; Region: DUF11; pfam01345 886377004534 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 886377004535 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377004536 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 886377004537 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 886377004538 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377004539 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 886377004540 active site 886377004541 phosphorylation site [posttranslational modification] 886377004542 intermolecular recognition site; other site 886377004543 dimerization interface [polypeptide binding]; other site 886377004544 LytTr DNA-binding domain; Region: LytTR; smart00850 886377004545 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 886377004546 Histidine kinase; Region: His_kinase; pfam06580 886377004547 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 886377004548 ATP binding site [chemical binding]; other site 886377004549 Mg2+ binding site [ion binding]; other site 886377004550 G-X-G motif; other site 886377004551 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377004552 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377004553 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 886377004554 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 886377004555 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377004556 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377004557 ligand binding site [chemical binding]; other site 886377004558 Uncharacterized conserved protein [Function unknown]; Region: COG3422 886377004559 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 886377004560 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 886377004561 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 886377004562 putative catalytic cysteine [active] 886377004563 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 886377004564 nucleotide binding site [chemical binding]; other site 886377004565 homotetrameric interface [polypeptide binding]; other site 886377004566 putative phosphate binding site [ion binding]; other site 886377004567 putative allosteric binding site; other site 886377004568 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 886377004569 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 886377004570 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 886377004571 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 886377004572 Acyltransferase family; Region: Acyl_transf_3; pfam01757 886377004573 PAS domain; Region: PAS_9; pfam13426 886377004574 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377004575 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 886377004576 DNA binding residues [nucleotide binding] 886377004577 dimerization interface [polypeptide binding]; other site 886377004578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 886377004579 PAS domain S-box; Region: sensory_box; TIGR00229 886377004580 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377004581 putative active site [active] 886377004582 heme pocket [chemical binding]; other site 886377004583 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377004584 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377004585 Amidohydrolase; Region: Amidohydro_4; pfam13147 886377004586 active site 886377004587 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377004588 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377004589 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 886377004590 active site 886377004591 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 886377004592 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 886377004593 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377004594 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377004595 Family description; Region: VCBS; pfam13517 886377004596 Family description; Region: VCBS; pfam13517 886377004597 Family description; Region: VCBS; pfam13517 886377004598 Family description; Region: VCBS; pfam13517 886377004599 Family description; Region: VCBS; pfam13517 886377004600 Family description; Region: VCBS; pfam13517 886377004601 Predicted helicase [General function prediction only]; Region: COG4889 886377004602 Predicted helicase [General function prediction only]; Region: COG4889 886377004603 Protein of unknown function DUF58; Region: DUF58; pfam01882 886377004604 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 886377004605 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377004606 catalytic residues [active] 886377004607 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 886377004608 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377004609 active site 886377004610 catalytic site [active] 886377004611 substrate binding site [chemical binding]; other site 886377004612 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 886377004613 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 886377004614 active site 886377004615 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 886377004616 generic binding surface II; other site 886377004617 generic binding surface I; other site 886377004618 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 886377004619 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14521 886377004620 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 886377004621 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 886377004622 RimM N-terminal domain; Region: RimM; pfam01782 886377004623 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 886377004624 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 886377004625 S-adenosylmethionine binding site [chemical binding]; other site 886377004626 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377004627 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377004628 active site 886377004629 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 886377004630 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 886377004631 molybdopterin cofactor binding site; other site 886377004632 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 886377004633 putative molybdopterin cofactor binding site; other site 886377004634 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 886377004635 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 886377004636 active site 886377004637 DNA binding site [nucleotide binding] 886377004638 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 886377004639 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 886377004640 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 886377004641 Catalytic site [active] 886377004642 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 886377004643 putative active site [active] 886377004644 putative metal binding site [ion binding]; other site 886377004645 urocanate hydratase; Provisional; Region: PRK05414 886377004646 imidazolonepropionase; Validated; Region: PRK09356 886377004647 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377004648 active site 886377004649 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 886377004650 active sites [active] 886377004651 tetramer interface [polypeptide binding]; other site 886377004652 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 886377004653 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 886377004654 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 886377004655 putative dimerization interface [polypeptide binding]; other site 886377004656 putative substrate binding pocket [chemical binding]; other site 886377004657 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 886377004658 putative FMN binding site [chemical binding]; other site 886377004659 Protein of unknown function (DUF456); Region: DUF456; pfam04306 886377004660 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377004661 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377004662 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 886377004663 Penicillinase repressor; Region: Pencillinase_R; pfam03965 886377004664 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 886377004665 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 886377004666 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 886377004667 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377004668 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 886377004669 binding surface 886377004670 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377004671 TPR motif; other site 886377004672 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377004673 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 886377004674 binding surface 886377004675 TPR motif; other site 886377004676 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 886377004677 TPR motif; other site 886377004678 binding surface 886377004679 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 886377004680 active site 886377004681 putative DNA-binding cleft [nucleotide binding]; other site 886377004682 dimer interface [polypeptide binding]; other site 886377004683 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 886377004684 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 886377004685 FeS/SAM binding site; other site 886377004686 HemN C-terminal domain; Region: HemN_C; pfam06969 886377004687 Putative cyclase; Region: Cyclase; pfam04199 886377004688 Putative cyclase; Region: Cyclase; cl00814 886377004689 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 886377004690 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 886377004691 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 886377004692 Protein of unknown function (DUF419); Region: DUF419; pfam04237 886377004693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377004694 Walker A/P-loop; other site 886377004695 ATP binding site [chemical binding]; other site 886377004696 Q-loop/lid; other site 886377004697 ABC transporter signature motif; other site 886377004698 Walker B; other site 886377004699 D-loop; other site 886377004700 H-loop/switch region; other site 886377004701 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 886377004702 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 886377004703 Penicillinase repressor; Region: Pencillinase_R; pfam03965 886377004704 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 886377004705 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 886377004706 PhnA protein; Region: PhnA; pfam03831 886377004707 hypothetical protein; Provisional; Region: PRK08201 886377004708 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 886377004709 metal binding site [ion binding]; metal-binding site 886377004710 putative dimer interface [polypeptide binding]; other site 886377004711 WYL domain; Region: WYL; pfam13280 886377004712 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 886377004713 Methyltransferase domain; Region: Methyltransf_26; pfam13659 886377004714 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 886377004715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 886377004716 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 886377004717 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 886377004718 HsdM N-terminal domain; Region: HsdM_N; pfam12161 886377004719 Methyltransferase domain; Region: Methyltransf_26; pfam13659 886377004720 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 886377004721 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 886377004722 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 886377004723 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 886377004724 DNA-binding site [nucleotide binding]; DNA binding site 886377004725 RNA-binding motif; other site 886377004726 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 886377004727 RNA-binding motif; other site 886377004728 DNA-binding site [nucleotide binding]; DNA binding site 886377004729 Domain of unknown function (DUF3825); Region: DUF3825; pfam12873 886377004730 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 886377004731 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 886377004732 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 886377004733 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 886377004734 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 886377004735 ATP binding site [chemical binding]; other site 886377004736 putative Mg++ binding site [ion binding]; other site 886377004737 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 886377004738 non-specific DNA binding site [nucleotide binding]; other site 886377004739 salt bridge; other site 886377004740 sequence-specific DNA binding site [nucleotide binding]; other site 886377004741 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 886377004742 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 886377004743 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 886377004744 active site 886377004745 Int/Topo IB signature motif; other site 886377004746 DNA binding site [nucleotide binding] 886377004747 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 886377004748 active site 886377004749 phosphorylation site [posttranslational modification] 886377004750 intermolecular recognition site; other site 886377004751 dimerization interface [polypeptide binding]; other site 886377004752 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377004753 PAS fold; Region: PAS_3; pfam08447 886377004754 putative active site [active] 886377004755 heme pocket [chemical binding]; other site 886377004756 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377004757 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 886377004758 ATP binding site [chemical binding]; other site 886377004759 Mg2+ binding site [ion binding]; other site 886377004760 G-X-G motif; other site 886377004761 serine racemase; Region: PLN02970 886377004762 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 886377004763 tetramer interface [polypeptide binding]; other site 886377004764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377004765 catalytic residue [active] 886377004766 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 886377004767 Ligand Binding Site [chemical binding]; other site 886377004768 Universal stress protein family; Region: Usp; pfam00582 886377004769 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377004770 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 886377004771 ligand binding site [chemical binding]; other site 886377004772 flexible hinge region; other site 886377004773 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 886377004774 putative switch regulator; other site 886377004775 non-specific DNA interactions [nucleotide binding]; other site 886377004776 DNA binding site [nucleotide binding] 886377004777 sequence specific DNA binding site [nucleotide binding]; other site 886377004778 putative cAMP binding site [chemical binding]; other site 886377004779 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 886377004780 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 886377004781 Heavy-metal-associated domain; Region: HMA; pfam00403 886377004782 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 886377004783 Soluble P-type ATPase [General function prediction only]; Region: COG4087 886377004784 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 886377004785 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 886377004786 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 886377004787 Low-spin heme binding site [chemical binding]; other site 886377004788 Putative water exit pathway; other site 886377004789 Binuclear center (active site) [active] 886377004790 Putative proton exit pathway; other site 886377004791 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 886377004792 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 886377004793 Cytochrome c; Region: Cytochrom_C; pfam00034 886377004794 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 886377004795 4Fe-4S binding domain; Region: Fer4_5; pfam12801 886377004796 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 886377004797 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 886377004798 FixH; Region: FixH; pfam05751 886377004799 Family description; Region: DsbD_2; pfam13386 886377004800 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 886377004801 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 886377004802 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 886377004803 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 886377004804 Ligand Binding Site [chemical binding]; other site 886377004805 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 886377004806 Ligand Binding Site [chemical binding]; other site 886377004807 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 886377004808 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 886377004809 FeS/SAM binding site; other site 886377004810 HemN C-terminal domain; Region: HemN_C; pfam06969 886377004811 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 886377004812 FOG: CBS domain [General function prediction only]; Region: COG0517 886377004813 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 886377004814 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 886377004815 active site 886377004816 Zn binding site [ion binding]; other site 886377004817 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 886377004818 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 886377004819 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 886377004820 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 886377004821 Protein of unknown function (DUF1464); Region: DUF1464; cl17839 886377004822 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 886377004823 Ligand Binding Site [chemical binding]; other site 886377004824 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 886377004825 6-phosphofructokinase; Region: PLN02884 886377004826 active site 886377004827 ADP/pyrophosphate binding site [chemical binding]; other site 886377004828 dimerization interface [polypeptide binding]; other site 886377004829 allosteric effector site; other site 886377004830 fructose-1,6-bisphosphate binding site; other site 886377004831 Sigma 54 modulation protein / S30EA ribosomal protein; Region: Ribosomal_S30AE; pfam02482 886377004832 30S subunit binding site; other site 886377004833 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 886377004834 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 886377004835 putative substrate translocation pore; other site 886377004836 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 886377004837 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 886377004838 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 886377004839 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 886377004840 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 886377004841 inhibitor-cofactor binding pocket; inhibition site 886377004842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377004843 catalytic residue [active] 886377004844 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 886377004845 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 886377004846 NAD binding site [chemical binding]; other site 886377004847 homodimer interface [polypeptide binding]; other site 886377004848 active site 886377004849 substrate binding site [chemical binding]; other site 886377004850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 886377004851 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 886377004852 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 886377004853 TPP-binding site [chemical binding]; other site 886377004854 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 886377004855 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 886377004856 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 886377004857 E3 interaction surface; other site 886377004858 lipoyl attachment site [posttranslational modification]; other site 886377004859 e3 binding domain; Region: E3_binding; pfam02817 886377004860 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 886377004861 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 886377004862 catalytic motif [active] 886377004863 Catalytic residue [active] 886377004864 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 886377004865 active site 886377004866 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 886377004867 active site 886377004868 homodimer interface [polypeptide binding]; other site 886377004869 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 886377004870 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 886377004871 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 886377004872 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 886377004873 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 886377004874 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 886377004875 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 886377004876 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 886377004877 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 886377004878 putative dimer interface [polypeptide binding]; other site 886377004879 putative anticodon binding site; other site 886377004880 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 886377004881 homodimer interface [polypeptide binding]; other site 886377004882 motif 1; other site 886377004883 motif 2; other site 886377004884 active site 886377004885 motif 3; other site 886377004886 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 886377004887 ribosome recycling factor; Reviewed; Region: frr; PRK00083 886377004888 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 886377004889 hinge region; other site 886377004890 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 886377004891 putative nucleotide binding site [chemical binding]; other site 886377004892 uridine monophosphate binding site [chemical binding]; other site 886377004893 homohexameric interface [polypeptide binding]; other site 886377004894 elongation factor Ts; Provisional; Region: tsf; PRK09377 886377004895 UBA/TS-N domain; Region: UBA; pfam00627 886377004896 Elongation factor TS; Region: EF_TS; pfam00889 886377004897 Elongation factor TS; Region: EF_TS; pfam00889 886377004898 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 886377004899 rRNA interaction site [nucleotide binding]; other site 886377004900 S8 interaction site; other site 886377004901 putative laminin-1 binding site; other site 886377004902 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 886377004903 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 886377004904 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 886377004905 23S rRNA interface [nucleotide binding]; other site 886377004906 L3 interface [polypeptide binding]; other site 886377004907 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 886377004908 putative ligand binding site [chemical binding]; other site 886377004909 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 886377004910 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 886377004911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377004912 homodimer interface [polypeptide binding]; other site 886377004913 catalytic residue [active] 886377004914 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 886377004915 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 886377004916 Flavin Reductases; Region: FlaRed; cl00801 886377004917 fumarylacetoacetase; Region: PLN02856 886377004918 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 886377004919 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 886377004920 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 886377004921 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 886377004922 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 886377004923 dimer interface [polypeptide binding]; other site 886377004924 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 886377004925 active site 886377004926 Fe binding site [ion binding]; other site 886377004927 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 886377004928 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 886377004929 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 886377004930 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 886377004931 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377004932 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377004933 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 886377004934 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 886377004935 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 886377004936 Domain interface; other site 886377004937 Peptide binding site; other site 886377004938 Active site tetrad [active] 886377004939 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 886377004940 catalytic residues [active] 886377004941 NIPSNAP; Region: NIPSNAP; pfam07978 886377004942 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 886377004943 DNA polymerase I; Provisional; Region: PRK05755 886377004944 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 886377004945 active site 886377004946 metal binding site 1 [ion binding]; metal-binding site 886377004947 putative 5' ssDNA interaction site; other site 886377004948 metal binding site 3; metal-binding site 886377004949 metal binding site 2 [ion binding]; metal-binding site 886377004950 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 886377004951 putative DNA binding site [nucleotide binding]; other site 886377004952 putative metal binding site [ion binding]; other site 886377004953 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 886377004954 active site 886377004955 catalytic site [active] 886377004956 substrate binding site [chemical binding]; other site 886377004957 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 886377004958 active site 886377004959 DNA binding site [nucleotide binding] 886377004960 catalytic site [active] 886377004961 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 886377004962 active site 886377004963 dimer interface [polypeptide binding]; other site 886377004964 catalytic nucleophile [active] 886377004965 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 886377004966 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 886377004967 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377004968 putative active site [active] 886377004969 putative metal binding site [ion binding]; other site 886377004970 FOG: CBS domain [General function prediction only]; Region: COG0517 886377004971 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 886377004972 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 886377004973 catalytic residues [active] 886377004974 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 886377004975 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 886377004976 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 886377004977 ligand binding surface [chemical binding]; other site 886377004978 ribosome maturation protein RimP; Reviewed; Region: PRK00092 886377004979 hypothetical protein; Validated; Region: PRK02001 886377004980 heptamer interface [polypeptide binding]; other site 886377004981 Sm1 motif; other site 886377004982 hexamer interface [polypeptide binding]; other site 886377004983 RNA binding site [nucleotide binding]; other site 886377004984 Sm2 motif; other site 886377004985 transcription termination factor NusA; Region: NusA; TIGR01953 886377004986 NusA N-terminal domain; Region: NusA_N; pfam08529 886377004987 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 886377004988 RNA binding site [nucleotide binding]; other site 886377004989 homodimer interface [polypeptide binding]; other site 886377004990 NusA-like KH domain; Region: KH_5; pfam13184 886377004991 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 886377004992 G-X-X-G motif; other site 886377004993 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 886377004994 translation initiation factor IF-2; Region: IF-2; TIGR00487 886377004995 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 886377004996 G1 box; other site 886377004997 putative GEF interaction site [polypeptide binding]; other site 886377004998 GTP/Mg2+ binding site [chemical binding]; other site 886377004999 Switch I region; other site 886377005000 G2 box; other site 886377005001 G3 box; other site 886377005002 Switch II region; other site 886377005003 G4 box; other site 886377005004 G5 box; other site 886377005005 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 886377005006 Translation-initiation factor 2; Region: IF-2; pfam11987 886377005007 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 886377005008 Sporulation related domain; Region: SPOR; pfam05036 886377005009 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 886377005010 Cytochrome c; Region: Cytochrom_C; pfam00034 886377005011 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 886377005012 heme-binding residues [chemical binding]; other site 886377005013 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 886377005014 heme-binding residues [chemical binding]; other site 886377005015 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 886377005016 molybdopterin cofactor binding site; other site 886377005017 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 886377005018 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 886377005019 4Fe-4S binding domain; Region: Fer4; cl02805 886377005020 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 886377005021 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 886377005022 Uncharacterized conserved protein [Function unknown]; Region: COG3743 886377005023 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 886377005024 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 886377005025 Cytochrome c; Region: Cytochrom_C; pfam00034 886377005026 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 886377005027 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 886377005028 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 886377005029 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 886377005030 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377005031 acyl-coenzyme A oxidase; Region: PLN02636 886377005032 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377005033 active site 886377005034 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 886377005035 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 886377005036 Walker A motif; other site 886377005037 ATP binding site [chemical binding]; other site 886377005038 Walker B motif; other site 886377005039 arginine finger; other site 886377005040 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 886377005041 Cytochrome c [Energy production and conversion]; Region: COG3258 886377005042 Cytochrome c; Region: Cytochrom_C; pfam00034 886377005043 DsrE/DsrF-like family; Region: DrsE; cl00672 886377005044 DsrE/DsrF-like family; Region: DrsE; cl00672 886377005045 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 886377005046 GIY-YIG motif/motif A; other site 886377005047 putative active site [active] 886377005048 putative metal binding site [ion binding]; other site 886377005049 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 886377005050 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 886377005051 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 886377005052 Malic enzyme, N-terminal domain; Region: malic; pfam00390 886377005053 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 886377005054 putative NAD(P) binding site [chemical binding]; other site 886377005055 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 886377005056 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 886377005057 RuvA N terminal domain; Region: RuvA_N; pfam01330 886377005058 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 886377005059 cell surface protein SprA; Region: surface_SprA; TIGR04189 886377005060 Motility related/secretion protein; Region: SprA_N; pfam14349 886377005061 Motility related/secretion protein; Region: SprA_N; pfam14349 886377005062 Motility related/secretion protein; Region: SprA_N; pfam14349 886377005063 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 886377005064 lipoyl attachment site [posttranslational modification]; other site 886377005065 VanZ like family; Region: VanZ; pfam04892 886377005066 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 886377005067 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 886377005068 Polyprenyltransferase (cytochrome oxidase assembly factor) [Posttranslational modification, protein turnover, chaperones]; Region: CyoE; COG0109 886377005069 UbiA prenyltransferase family; Region: UbiA; pfam01040 886377005070 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 886377005071 Subunit I/III interface [polypeptide binding]; other site 886377005072 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 886377005073 Subunit I/III interface [polypeptide binding]; other site 886377005074 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 886377005075 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 886377005076 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 886377005077 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 886377005078 Cu(I) binding site [ion binding]; other site 886377005079 Protein of unknown function (DUF420); Region: DUF420; pfam04238 886377005081 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377005082 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 886377005083 Walker A/P-loop; other site 886377005084 ATP binding site [chemical binding]; other site 886377005085 Q-loop/lid; other site 886377005086 ABC transporter signature motif; other site 886377005087 Walker B; other site 886377005088 D-loop; other site 886377005089 H-loop/switch region; other site 886377005090 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377005091 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377005092 FtsX-like permease family; Region: FtsX; pfam02687 886377005093 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377005094 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377005095 FtsX-like permease family; Region: FtsX; pfam02687 886377005096 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377005097 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 886377005098 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377005099 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 886377005100 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 886377005101 Glycoprotease family; Region: Peptidase_M22; pfam00814 886377005102 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 886377005103 Conserved TM helix; Region: TM_helix; pfam05552 886377005104 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377005105 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 886377005106 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 886377005107 catalytic residues [active] 886377005108 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 886377005109 Dodecin; Region: Dodecin; pfam07311 886377005110 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 886377005111 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 886377005112 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 886377005113 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377005114 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 886377005115 metal ion-dependent adhesion site (MIDAS); other site 886377005116 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 886377005117 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377005118 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 886377005119 binding surface 886377005120 TPR motif; other site 886377005121 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377005122 Histidine kinase; Region: His_kinase; pfam06580 886377005123 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 886377005124 Response regulator receiver domain; Region: Response_reg; pfam00072 886377005125 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 886377005126 active site 886377005127 phosphorylation site [posttranslational modification] 886377005128 intermolecular recognition site; other site 886377005129 dimerization interface [polypeptide binding]; other site 886377005130 LytTr DNA-binding domain; Region: LytTR; smart00850 886377005131 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 886377005132 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 886377005133 trimer interface [polypeptide binding]; other site 886377005134 putative metal binding site [ion binding]; other site 886377005135 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 886377005136 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 886377005137 Calx-beta domain; Region: Calx-beta; cl02522 886377005138 Calx-beta domain; Region: Calx-beta; cl02522 886377005139 Calx-beta domain; Region: Calx-beta; cl02522 886377005140 Calx-beta domain; Region: Calx-beta; cl02522 886377005141 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 886377005142 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377005143 TPR repeat; Region: TPR_11; pfam13414 886377005144 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 886377005145 binding surface 886377005146 TPR motif; other site 886377005147 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377005148 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377005149 ligand binding site [chemical binding]; other site 886377005150 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 886377005151 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 886377005152 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377005153 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377005154 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 886377005155 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377005156 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377005157 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377005158 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 886377005159 GIY-YIG motif/motif A; other site 886377005160 putative active site [active] 886377005161 putative metal binding site [ion binding]; other site 886377005162 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 886377005163 MutS domain I; Region: MutS_I; pfam01624 886377005164 MutS domain II; Region: MutS_II; pfam05188 886377005165 MutS domain III; Region: MutS_III; pfam05192 886377005166 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 886377005167 Walker A/P-loop; other site 886377005168 ATP binding site [chemical binding]; other site 886377005169 Q-loop/lid; other site 886377005170 ABC transporter signature motif; other site 886377005171 Walker B; other site 886377005172 D-loop; other site 886377005173 H-loop/switch region; other site 886377005174 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 886377005175 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 886377005176 catalytic center binding site [active] 886377005177 ATP binding site [chemical binding]; other site 886377005178 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 886377005179 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 886377005180 Substrate-binding site [chemical binding]; other site 886377005181 Substrate specificity [chemical binding]; other site 886377005182 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 886377005183 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 886377005184 tandem repeat interface [polypeptide binding]; other site 886377005185 oligomer interface [polypeptide binding]; other site 886377005186 active site residues [active] 886377005187 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 886377005188 tandem repeat interface [polypeptide binding]; other site 886377005189 oligomer interface [polypeptide binding]; other site 886377005190 active site residues [active] 886377005191 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 886377005192 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 886377005193 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 886377005194 GH3 auxin-responsive promoter; Region: GH3; pfam03321 886377005195 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 886377005196 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 886377005197 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 886377005198 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 886377005199 Walker A motif; other site 886377005200 ATP binding site [chemical binding]; other site 886377005201 Walker B motif; other site 886377005202 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 886377005203 Clp protease; Region: CLP_protease; pfam00574 886377005204 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 886377005205 oligomer interface [polypeptide binding]; other site 886377005206 active site residues [active] 886377005207 trigger factor; Region: tig; TIGR00115 886377005208 Membrane protein of unknown function; Region: DUF360; pfam04020 886377005209 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 886377005210 catalytic triad [active] 886377005211 PGAP1-like protein; Region: PGAP1; pfam07819 886377005212 acyl-CoA esterase; Provisional; Region: PRK10673 886377005213 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 886377005214 active site 886377005215 hydrophilic channel; other site 886377005216 dimerization interface [polypeptide binding]; other site 886377005217 catalytic residues [active] 886377005218 active site lid [active] 886377005219 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 886377005220 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 886377005221 ATP-NAD kinase; Region: NAD_kinase; pfam01513 886377005222 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 886377005223 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 886377005224 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 886377005225 catalytic residue [active] 886377005226 putative FPP diphosphate binding site; other site 886377005227 putative FPP binding hydrophobic cleft; other site 886377005228 dimer interface [polypeptide binding]; other site 886377005229 putative IPP diphosphate binding site; other site 886377005230 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 886377005231 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 886377005232 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 886377005233 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 886377005234 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 886377005235 Surface antigen; Region: Bac_surface_Ag; pfam01103 886377005236 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 886377005237 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 886377005238 glutamate racemase; Provisional; Region: PRK00865 886377005239 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 886377005240 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 886377005241 folate binding site [chemical binding]; other site 886377005242 NADP+ binding site [chemical binding]; other site 886377005243 2TM domain; Region: 2TM; pfam13239 886377005244 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 886377005245 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 886377005246 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377005247 catalytic residue [active] 886377005248 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 886377005249 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 886377005250 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 886377005251 thymidylate synthase; Reviewed; Region: thyA; PRK01827 886377005252 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 886377005253 dimerization interface [polypeptide binding]; other site 886377005254 active site 886377005255 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 886377005256 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 886377005257 Nucleoside recognition; Region: Gate; pfam07670 886377005258 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 886377005259 Bifunctional nuclease; Region: DNase-RNase; pfam02577 886377005260 UvrB/uvrC motif; Region: UVR; pfam02151 886377005261 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 886377005262 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 886377005263 Ligand Binding Site [chemical binding]; other site 886377005264 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 886377005265 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 886377005266 Ligand binding site [chemical binding]; other site 886377005267 Electron transfer flavoprotein domain; Region: ETF; pfam01012 886377005268 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 886377005269 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 886377005270 alpha subunit interface [polypeptide binding]; other site 886377005271 TPP binding site [chemical binding]; other site 886377005272 heterodimer interface [polypeptide binding]; other site 886377005273 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377005274 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377005275 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 886377005276 dimer interface [polypeptide binding]; other site 886377005277 substrate binding site [chemical binding]; other site 886377005278 metal binding sites [ion binding]; metal-binding site 886377005279 vacuolar-type H(+)-translocating pyrophosphatase; Region: V_PPase; TIGR01104 886377005280 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 886377005281 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 886377005282 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 886377005283 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377005284 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377005285 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 886377005286 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 886377005287 Substrate-binding site [chemical binding]; other site 886377005288 Substrate specificity [chemical binding]; other site 886377005289 S-adenosylmethionine synthetase; Validated; Region: PRK05250 886377005290 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 886377005291 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 886377005292 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 886377005293 Predicted acyl esterases [General function prediction only]; Region: COG2936 886377005294 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 886377005295 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 886377005296 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 886377005297 homodimer interface [polypeptide binding]; other site 886377005298 substrate-cofactor binding pocket; other site 886377005299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005300 catalytic residue [active] 886377005301 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 886377005302 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 886377005303 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 886377005304 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 886377005305 nucleotide binding site [chemical binding]; other site 886377005306 substrate binding site [chemical binding]; other site 886377005307 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 886377005308 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 886377005309 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 886377005310 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 886377005311 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 886377005312 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 886377005313 homodimer interface [polypeptide binding]; other site 886377005314 substrate-cofactor binding pocket; other site 886377005315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005316 catalytic residue [active] 886377005317 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377005318 Transcriptional regulator; Region: Rrf2; pfam02082 886377005319 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 886377005320 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 886377005321 Active Sites [active] 886377005322 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 886377005323 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 886377005324 Active Sites [active] 886377005325 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 886377005326 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 886377005327 CysD dimerization site [polypeptide binding]; other site 886377005328 G1 box; other site 886377005329 putative GEF interaction site [polypeptide binding]; other site 886377005330 GTP/Mg2+ binding site [chemical binding]; other site 886377005331 Switch I region; other site 886377005332 G2 box; other site 886377005333 G3 box; other site 886377005334 Switch II region; other site 886377005335 G4 box; other site 886377005336 G5 box; other site 886377005337 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 886377005338 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 886377005339 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 886377005340 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377005341 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377005342 HEPN domain; Region: HEPN; pfam05168 886377005343 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 886377005344 active site 886377005345 SAM binding site [chemical binding]; other site 886377005346 homodimer interface [polypeptide binding]; other site 886377005347 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 886377005348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 886377005349 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377005350 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377005351 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377005352 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 886377005353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005354 NAD(P) binding site [chemical binding]; other site 886377005355 active site 886377005356 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 886377005357 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 886377005358 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 886377005359 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 886377005360 substrate binding pocket [chemical binding]; other site 886377005361 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 886377005362 B12 binding site [chemical binding]; other site 886377005363 cobalt ligand [ion binding]; other site 886377005364 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 886377005365 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 886377005366 FAD binding site [chemical binding]; other site 886377005367 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 886377005368 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377005369 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377005370 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377005371 tyrosine decarboxylase; Region: PLN02880 886377005372 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 886377005373 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377005374 catalytic residue [active] 886377005375 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 886377005376 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 886377005377 Walker A/P-loop; other site 886377005378 ATP binding site [chemical binding]; other site 886377005379 Q-loop/lid; other site 886377005380 ABC transporter signature motif; other site 886377005381 Walker B; other site 886377005382 D-loop; other site 886377005383 H-loop/switch region; other site 886377005384 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 886377005385 Prephenate dehydratase; Region: PDT; pfam00800 886377005386 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 886377005387 putative L-Phe binding site [chemical binding]; other site 886377005388 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 886377005389 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 886377005390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005391 homodimer interface [polypeptide binding]; other site 886377005392 catalytic residue [active] 886377005393 prephenate dehydrogenase; Validated; Region: PRK08507 886377005394 Prephenate dehydrogenase; Region: PDH; pfam02153 886377005395 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 886377005396 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 886377005397 Chorismate mutase type II; Region: CM_2; smart00830 886377005398 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377005399 hypothetical protein; Provisional; Region: PRK10350 886377005400 GTPase RsgA; Reviewed; Region: PRK00098 886377005401 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 886377005402 RNA binding site [nucleotide binding]; other site 886377005403 homodimer interface [polypeptide binding]; other site 886377005404 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 886377005405 GTPase/Zn-binding domain interface [polypeptide binding]; other site 886377005406 GTP/Mg2+ binding site [chemical binding]; other site 886377005407 G4 box; other site 886377005408 G5 box; other site 886377005409 G1 box; other site 886377005410 Switch I region; other site 886377005411 G2 box; other site 886377005412 G3 box; other site 886377005413 Switch II region; other site 886377005414 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 886377005415 putative active site [active] 886377005416 dimerization interface [polypeptide binding]; other site 886377005417 putative tRNAtyr binding site [nucleotide binding]; other site 886377005418 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 886377005419 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 886377005420 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 886377005421 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 886377005422 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 886377005423 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 886377005424 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 886377005425 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 886377005426 homodimer interface [polypeptide binding]; other site 886377005427 metal binding site [ion binding]; metal-binding site 886377005428 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 886377005429 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 886377005430 hinge; other site 886377005431 active site 886377005432 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 886377005433 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 886377005434 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 886377005435 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 886377005436 FeS/SAM binding site; other site 886377005437 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 886377005438 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 886377005439 substrate binding pocket [chemical binding]; other site 886377005440 chain length determination region; other site 886377005441 substrate-Mg2+ binding site; other site 886377005442 catalytic residues [active] 886377005443 aspartate-rich region 1; other site 886377005444 active site lid residues [active] 886377005445 aspartate-rich region 2; other site 886377005446 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377005447 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005448 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 886377005449 DNA binding residues [nucleotide binding] 886377005450 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 886377005451 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 886377005452 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 886377005453 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 886377005454 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377005455 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 886377005456 DNA primase; Validated; Region: dnaG; PRK05667 886377005457 CHC2 zinc finger; Region: zf-CHC2; cl17510 886377005458 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 886377005459 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 886377005460 active site 886377005461 metal binding site [ion binding]; metal-binding site 886377005462 interdomain interaction site; other site 886377005463 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 886377005464 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377005465 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 886377005466 active site 886377005467 phosphorylation site [posttranslational modification] 886377005468 intermolecular recognition site; other site 886377005469 dimerization interface [polypeptide binding]; other site 886377005470 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 886377005471 DNA binding residues [nucleotide binding] 886377005472 dimerization interface [polypeptide binding]; other site 886377005473 NAD synthetase; Provisional; Region: PRK13980 886377005474 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 886377005475 homodimer interface [polypeptide binding]; other site 886377005476 NAD binding pocket [chemical binding]; other site 886377005477 ATP binding pocket [chemical binding]; other site 886377005478 Mg binding site [ion binding]; other site 886377005479 active-site loop [active] 886377005480 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 886377005481 gliding motility-associated protein GldC; Region: GldC; TIGR03515 886377005482 Pirin-related protein [General function prediction only]; Region: COG1741 886377005483 Pirin; Region: Pirin; pfam02678 886377005484 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 886377005485 G1 box; other site 886377005486 GTP/Mg2+ binding site [chemical binding]; other site 886377005487 Switch I region; other site 886377005488 G2 box; other site 886377005489 G3 box; other site 886377005490 Switch II region; other site 886377005491 G4 box; other site 886377005492 G5 box; other site 886377005493 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 886377005494 cell division protein MraZ; Reviewed; Region: PRK00326 886377005495 MraZ protein; Region: MraZ; pfam02381 886377005496 MraZ protein; Region: MraZ; pfam02381 886377005497 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 886377005498 MraW methylase family; Region: Methyltransf_5; cl17771 886377005499 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 886377005500 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 886377005501 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 886377005502 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 886377005503 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 886377005504 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 886377005505 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377005506 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 886377005507 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 886377005508 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 886377005509 Mg++ binding site [ion binding]; other site 886377005510 putative catalytic motif [active] 886377005511 putative substrate binding site [chemical binding]; other site 886377005512 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 886377005513 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377005514 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 886377005515 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 886377005516 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 886377005517 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 886377005518 active site 886377005519 homodimer interface [polypeptide binding]; other site 886377005520 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 886377005521 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 886377005522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377005523 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 886377005524 cell division protein FtsA; Region: ftsA; TIGR01174 886377005525 Cell division protein FtsA; Region: FtsA; smart00842 886377005526 Cell division protein FtsA; Region: FtsA; pfam14450 886377005527 cell division protein FtsZ; Validated; Region: PRK09330 886377005528 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 886377005529 nucleotide binding site [chemical binding]; other site 886377005530 SulA interaction site; other site 886377005531 Yqey-like protein; Region: YqeY; pfam09424 886377005532 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 886377005533 RibD C-terminal domain; Region: RibD_C; cl17279 886377005534 SnoaL-like domain; Region: SnoaL_2; pfam12680 886377005535 DinB superfamily; Region: DinB_2; pfam12867 886377005536 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377005537 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 886377005538 ligand binding site [chemical binding]; other site 886377005539 flexible hinge region; other site 886377005540 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 886377005541 NRDE protein; Region: NRDE; cl01315 886377005542 ATP-grasp domain; Region: ATP-grasp_4; cl17255 886377005543 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 886377005544 catalytic residues [active] 886377005545 dimer interface [polypeptide binding]; other site 886377005546 Predicted membrane protein [Function unknown]; Region: COG4270 886377005547 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 886377005548 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 886377005549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377005550 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 886377005551 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 886377005552 substrate binding site [chemical binding]; other site 886377005553 hexamer interface [polypeptide binding]; other site 886377005554 metal binding site [ion binding]; metal-binding site 886377005555 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 886377005556 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 886377005557 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005558 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 886377005559 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 886377005560 DNA binding residues [nucleotide binding] 886377005561 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 886377005562 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 886377005563 RNase E interface [polypeptide binding]; other site 886377005564 trimer interface [polypeptide binding]; other site 886377005565 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 886377005566 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 886377005567 RNase E interface [polypeptide binding]; other site 886377005568 trimer interface [polypeptide binding]; other site 886377005569 active site 886377005570 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 886377005571 putative nucleic acid binding region [nucleotide binding]; other site 886377005572 G-X-X-G motif; other site 886377005573 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 886377005574 RNA binding site [nucleotide binding]; other site 886377005575 domain interface; other site 886377005576 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 886377005577 16S/18S rRNA binding site [nucleotide binding]; other site 886377005578 S13e-L30e interaction site [polypeptide binding]; other site 886377005579 25S rRNA binding site [nucleotide binding]; other site 886377005580 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 886377005581 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 886377005582 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 886377005583 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 886377005584 active site 886377005585 intersubunit interface [polypeptide binding]; other site 886377005586 zinc binding site [ion binding]; other site 886377005587 Na+ binding site [ion binding]; other site 886377005588 Surface antigen; Region: Bac_surface_Ag; pfam01103 886377005589 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 886377005590 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 886377005591 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 886377005592 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 886377005593 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 886377005594 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 886377005595 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 886377005596 S-adenosylmethionine binding site [chemical binding]; other site 886377005597 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 886377005598 TrkA-N domain; Region: TrkA_N; pfam02254 886377005599 TrkA-C domain; Region: TrkA_C; pfam02080 886377005600 TrkA-N domain; Region: TrkA_N; pfam02254 886377005601 TrkA-C domain; Region: TrkA_C; pfam02080 886377005602 Cation transport protein; Region: TrkH; cl17365 886377005603 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 886377005604 aspartate aminotransferase; Provisional; Region: PRK05764 886377005605 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 886377005606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005607 homodimer interface [polypeptide binding]; other site 886377005608 catalytic residue [active] 886377005609 Fatty acid desaturase; Region: FA_desaturase; pfam00487 886377005610 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 886377005611 putative di-iron ligands [ion binding]; other site 886377005612 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 886377005613 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 886377005614 S-adenosylmethionine binding site [chemical binding]; other site 886377005615 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 886377005616 TPR motif; other site 886377005617 binding surface 886377005618 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 886377005619 TPR motif; other site 886377005620 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 886377005621 binding surface 886377005622 TPR motif; other site 886377005623 Creatinine amidohydrolase; Region: Creatininase; pfam02633 886377005624 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 886377005625 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 886377005626 Glutamate binding site [chemical binding]; other site 886377005627 NAD binding site [chemical binding]; other site 886377005628 catalytic residues [active] 886377005629 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 886377005630 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 886377005631 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 886377005632 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 886377005633 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 886377005634 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 886377005635 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 886377005636 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 886377005637 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 886377005638 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 886377005639 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 886377005640 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 886377005641 catalytic loop [active] 886377005642 iron binding site [ion binding]; other site 886377005643 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 886377005644 FAD binding pocket [chemical binding]; other site 886377005645 FAD binding motif [chemical binding]; other site 886377005646 phosphate binding motif [ion binding]; other site 886377005647 beta-alpha-beta structure motif; other site 886377005648 NAD binding pocket [chemical binding]; other site 886377005649 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 886377005650 ApbE family; Region: ApbE; pfam02424 886377005651 Methyltransferase domain; Region: Methyltransf_23; pfam13489 886377005652 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 886377005653 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 886377005654 active site 886377005655 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 886377005656 phosphoglyceromutase; Provisional; Region: PRK05434 886377005657 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 886377005658 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 886377005659 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 886377005660 Peptidase family M48; Region: Peptidase_M48; pfam01435 886377005661 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 886377005662 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 886377005663 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377005664 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377005665 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 886377005666 Zn binding site [ion binding]; other site 886377005667 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 886377005668 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 886377005669 active site 886377005670 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 886377005671 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 886377005672 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 886377005673 S-adenosylmethionine binding site [chemical binding]; other site 886377005674 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 886377005675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377005676 Coenzyme A binding pocket [chemical binding]; other site 886377005677 kynureninase; Region: kynureninase; TIGR01814 886377005678 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 886377005679 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377005680 catalytic residue [active] 886377005681 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377005682 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 886377005683 putative substrate translocation pore; other site 886377005684 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 886377005685 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377005686 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005687 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 886377005688 DNA binding residues [nucleotide binding] 886377005689 Conserved TM helix; Region: TM_helix; pfam05552 886377005690 Conserved TM helix; Region: TM_helix; pfam05552 886377005691 Clp protease; Region: CLP_protease; pfam00574 886377005692 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 886377005693 oligomer interface [polypeptide binding]; other site 886377005694 active site residues [active] 886377005695 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 886377005696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 886377005697 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 886377005698 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 886377005699 Putative zinc ribbon domain; Region: DUF164; pfam02591 886377005700 Uncharacterized conserved protein [Function unknown]; Region: COG0327 886377005701 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 886377005702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 886377005703 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 886377005704 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 886377005705 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 886377005706 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377005707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377005708 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 886377005709 dimer interface [polypeptide binding]; other site 886377005710 phosphorylation site [posttranslational modification] 886377005711 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 886377005712 ATP binding site [chemical binding]; other site 886377005713 Mg2+ binding site [ion binding]; other site 886377005714 G-X-G motif; other site 886377005715 Response regulator receiver domain; Region: Response_reg; pfam00072 886377005716 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 886377005717 active site 886377005718 phosphorylation site [posttranslational modification] 886377005719 intermolecular recognition site; other site 886377005720 dimerization interface [polypeptide binding]; other site 886377005721 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 886377005722 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 886377005723 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 886377005724 lipoyl synthase; Provisional; Region: PRK05481 886377005725 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 886377005726 FeS/SAM binding site; other site 886377005727 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377005728 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005729 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 886377005730 Anti-sigma-K factor rskA; Region: RskA; pfam10099 886377005731 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377005732 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005733 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 886377005734 DNA binding residues [nucleotide binding] 886377005735 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 886377005736 FAD binding domain; Region: FAD_binding_4; pfam01565 886377005737 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 886377005738 aspartate aminotransferase; Provisional; Region: PRK07568 886377005739 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 886377005740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005741 homodimer interface [polypeptide binding]; other site 886377005742 catalytic residue [active] 886377005743 Aspartyl protease; Region: Asp_protease_2; pfam13650 886377005744 inhibitor binding site; inhibition site 886377005745 catalytic motif [active] 886377005746 Catalytic residue [active] 886377005747 Active site flap [active] 886377005748 Aspartyl protease; Region: Asp_protease_2; pfam13650 886377005749 inhibitor binding site; inhibition site 886377005750 catalytic motif [active] 886377005751 Catalytic residue [active] 886377005752 Active site flap [active] 886377005753 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; cd00136 886377005754 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 886377005755 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 886377005756 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377005757 active site 886377005758 HIGH motif; other site 886377005759 nucleotide binding site [chemical binding]; other site 886377005760 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 886377005761 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 886377005762 active site 886377005763 KMSKS motif; other site 886377005764 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 886377005765 tRNA binding surface [nucleotide binding]; other site 886377005766 anticodon binding site; other site 886377005767 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 886377005768 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377005769 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377005770 mevalonate kinase; Region: mevalon_kin; TIGR00549 886377005771 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 886377005772 active site 886377005773 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 886377005774 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 886377005775 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 886377005776 acyl-CoA binding pocket [chemical binding]; other site 886377005777 CoA binding site [chemical binding]; other site 886377005778 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 886377005779 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 886377005780 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 886377005781 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 886377005782 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 886377005783 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 886377005784 Walker A motif; other site 886377005785 ATP binding site [chemical binding]; other site 886377005786 Walker B motif; other site 886377005787 arginine finger; other site 886377005788 Peptidase family M41; Region: Peptidase_M41; pfam01434 886377005789 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 886377005790 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 886377005791 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 886377005792 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377005793 active site 886377005794 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 886377005795 active site 886377005796 Ap6A binding site [chemical binding]; other site 886377005797 nudix motif; other site 886377005798 metal binding site [ion binding]; metal-binding site 886377005799 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 886377005800 putative active site [active] 886377005801 Zn binding site [ion binding]; other site 886377005802 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 886377005803 active site 886377005804 phosphorylation site [posttranslational modification] 886377005805 intermolecular recognition site; other site 886377005806 PAS fold; Region: PAS_4; pfam08448 886377005807 PAS fold; Region: PAS_4; pfam08448 886377005808 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377005809 putative active site [active] 886377005810 heme pocket [chemical binding]; other site 886377005811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377005812 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 886377005813 ATP binding site [chemical binding]; other site 886377005814 Mg2+ binding site [ion binding]; other site 886377005815 G-X-G motif; other site 886377005816 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 886377005817 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 886377005818 active site 886377005819 (T/H)XGH motif; other site 886377005820 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 886377005821 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 886377005822 ATP-grasp domain; Region: ATP-grasp_4; cl17255 886377005823 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 886377005824 PASTA domain; Region: PASTA; pfam03793 886377005825 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 886377005826 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 886377005827 RNA binding surface [nucleotide binding]; other site 886377005828 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 886377005829 active site 886377005830 hypothetical protein; Validated; Region: PRK02101 886377005831 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 886377005832 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 886377005833 putative active site [active] 886377005834 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 886377005835 hypothetical protein; Provisional; Region: PRK08201 886377005836 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 886377005837 putative metal binding site [ion binding]; other site 886377005838 putative dimer interface [polypeptide binding]; other site 886377005839 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 886377005840 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 886377005841 substrate binding site [chemical binding]; other site 886377005842 active site 886377005843 catalytic residues [active] 886377005844 heterodimer interface [polypeptide binding]; other site 886377005845 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 886377005846 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 886377005847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005848 catalytic residue [active] 886377005849 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 886377005850 active site 886377005851 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 886377005852 active site 886377005853 ribulose/triose binding site [chemical binding]; other site 886377005854 phosphate binding site [ion binding]; other site 886377005855 substrate (anthranilate) binding pocket [chemical binding]; other site 886377005856 product (indole) binding pocket [chemical binding]; other site 886377005857 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 886377005858 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 886377005859 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 886377005860 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 886377005861 Glutamine amidotransferase class-I; Region: GATase; pfam00117 886377005862 glutamine binding [chemical binding]; other site 886377005863 catalytic triad [active] 886377005864 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 886377005865 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 886377005866 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 886377005867 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 886377005868 GIY-YIG motif/motif A; other site 886377005869 putative active site [active] 886377005870 putative metal binding site [ion binding]; other site 886377005871 YceI-like domain; Region: YceI; smart00867 886377005872 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 886377005873 dimer interface [polypeptide binding]; other site 886377005874 FMN binding site [chemical binding]; other site 886377005875 MarR family; Region: MarR_2; cl17246 886377005876 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 886377005877 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 886377005878 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377005879 catalytic residues [active] 886377005880 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 886377005881 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377005882 putative catalytic residue [active] 886377005883 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 886377005884 active site residue [active] 886377005885 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 886377005886 PspC domain; Region: PspC; cl00864 886377005887 Ion channel; Region: Ion_trans_2; pfam07885 886377005888 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 886377005889 TrkA-N domain; Region: TrkA_N; pfam02254 886377005890 TrkA-C domain; Region: TrkA_C; pfam02080 886377005891 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 886377005892 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 886377005893 E3 interaction surface; other site 886377005894 lipoyl attachment site [posttranslational modification]; other site 886377005895 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 886377005896 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 886377005897 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 886377005898 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 886377005899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377005900 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377005901 active site 886377005902 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 886377005903 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 886377005904 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 886377005905 active site 886377005906 DNA binding site [nucleotide binding] 886377005907 Int/Topo IB signature motif; other site 886377005908 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 886377005909 30S subunit binding site; other site 886377005910 elongation factor Tu; Reviewed; Region: PRK12735 886377005911 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 886377005912 G1 box; other site 886377005913 GEF interaction site [polypeptide binding]; other site 886377005914 GTP/Mg2+ binding site [chemical binding]; other site 886377005915 Switch I region; other site 886377005916 G2 box; other site 886377005917 G3 box; other site 886377005918 Switch II region; other site 886377005919 G4 box; other site 886377005920 G5 box; other site 886377005921 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 886377005922 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 886377005923 Antibiotic Binding Site [chemical binding]; other site 886377005924 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 886377005925 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 886377005926 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 886377005927 putative homodimer interface [polypeptide binding]; other site 886377005928 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 886377005929 heterodimer interface [polypeptide binding]; other site 886377005930 homodimer interface [polypeptide binding]; other site 886377005931 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 886377005932 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 886377005933 23S rRNA interface [nucleotide binding]; other site 886377005934 L7/L12 interface [polypeptide binding]; other site 886377005935 putative thiostrepton binding site; other site 886377005936 L25 interface [polypeptide binding]; other site 886377005937 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 886377005938 mRNA/rRNA interface [nucleotide binding]; other site 886377005939 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 886377005940 23S rRNA interface [nucleotide binding]; other site 886377005941 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 886377005942 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 886377005943 core dimer interface [polypeptide binding]; other site 886377005944 peripheral dimer interface [polypeptide binding]; other site 886377005945 L10 interface [polypeptide binding]; other site 886377005946 L11 interface [polypeptide binding]; other site 886377005947 putative EF-Tu interaction site [polypeptide binding]; other site 886377005948 putative EF-G interaction site [polypeptide binding]; other site 886377005949 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 886377005950 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 886377005951 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 886377005952 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 886377005953 RPB11 interaction site [polypeptide binding]; other site 886377005954 RPB12 interaction site [polypeptide binding]; other site 886377005955 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 886377005956 RPB3 interaction site [polypeptide binding]; other site 886377005957 RPB1 interaction site [polypeptide binding]; other site 886377005958 RPB11 interaction site [polypeptide binding]; other site 886377005959 RPB10 interaction site [polypeptide binding]; other site 886377005960 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 886377005961 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 886377005962 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 886377005963 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 886377005964 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 886377005965 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 886377005966 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 886377005967 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 886377005968 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 886377005969 DNA binding site [nucleotide binding] 886377005970 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 886377005971 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 886377005972 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 886377005973 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 886377005974 G1 box; other site 886377005975 putative GEF interaction site [polypeptide binding]; other site 886377005976 GTP/Mg2+ binding site [chemical binding]; other site 886377005977 Switch I region; other site 886377005978 G2 box; other site 886377005979 G3 box; other site 886377005980 Switch II region; other site 886377005981 G4 box; other site 886377005982 G5 box; other site 886377005983 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 886377005984 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 886377005985 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377005986 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377005987 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 886377005988 binding surface 886377005989 TPR motif; other site 886377005990 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377005991 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 886377005992 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377005993 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377005994 ligand binding site [chemical binding]; other site 886377005995 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 886377005996 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 886377005997 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377005998 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 886377005999 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 886377006000 active site 886377006001 metal binding site [ion binding]; metal-binding site 886377006002 nudix motif; other site 886377006003 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 886377006004 active site 886377006005 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 886377006006 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cd12213 886377006007 ligand binding site [chemical binding]; other site 886377006008 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 886377006009 Protein of unknown function (DUF819); Region: DUF819; cl02317 886377006010 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 886377006011 putative ligand binding site [chemical binding]; other site 886377006012 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 886377006013 active site 886377006014 Zn binding site [ion binding]; other site 886377006015 Cupin domain; Region: Cupin_2; pfam07883 886377006016 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377006017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 886377006018 MOSC domain; Region: MOSC; pfam03473 886377006019 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 886377006020 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006021 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 886377006022 DNA binding residues [nucleotide binding] 886377006023 IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the...; Region: IPT_PCSR; cd00603 886377006024 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 886377006025 Predicted membrane protein [Function unknown]; Region: COG4270 886377006026 heat shock protein 90; Provisional; Region: PRK05218 886377006027 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 886377006028 ATP binding site [chemical binding]; other site 886377006029 Mg2+ binding site [ion binding]; other site 886377006030 G-X-G motif; other site 886377006031 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 886377006032 ABC1 family; Region: ABC1; cl17513 886377006033 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 886377006034 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 886377006035 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 886377006036 dimer interface [polypeptide binding]; other site 886377006037 active site 886377006038 CoA binding pocket [chemical binding]; other site 886377006039 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 886377006040 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377006041 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 886377006042 CoA binding domain; Region: CoA_binding_2; pfam13380 886377006043 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 886377006044 Na binding site [ion binding]; other site 886377006045 recombination protein RecR; Reviewed; Region: recR; PRK00076 886377006046 RecR protein; Region: RecR; pfam02132 886377006047 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 886377006048 putative active site [active] 886377006049 putative metal-binding site [ion binding]; other site 886377006050 tetramer interface [polypeptide binding]; other site 886377006051 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 886377006052 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 886377006053 E3 interaction surface; other site 886377006054 lipoyl attachment site [posttranslational modification]; other site 886377006055 e3 binding domain; Region: E3_binding; pfam02817 886377006056 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 886377006057 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 886377006058 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377006059 active site 886377006060 catalytic site [active] 886377006061 substrate binding site [chemical binding]; other site 886377006062 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 886377006063 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 886377006064 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 886377006065 putative binding surface; other site 886377006066 active site 886377006067 competence damage-inducible protein A; Provisional; Region: PRK00549 886377006068 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 886377006069 putative MPT binding site; other site 886377006070 Competence-damaged protein; Region: CinA; pfam02464 886377006071 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 886377006072 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 886377006073 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 886377006074 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 886377006075 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 886377006076 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 886377006077 amidase; Provisional; Region: PRK06707 886377006078 Amidase; Region: Amidase; cl11426 886377006079 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 886377006080 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 886377006081 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 886377006082 FeS/SAM binding site; other site 886377006083 DoxX; Region: DoxX; cl17842 886377006084 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377006085 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377006086 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 886377006087 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 886377006088 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 886377006089 hydrophobic ligand binding site; other site 886377006090 SurA N-terminal domain; Region: SurA_N; pfam09312 886377006091 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 886377006092 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 886377006093 MoxR-like ATPases [General function prediction only]; Region: COG0714 886377006094 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 886377006095 Walker A motif; other site 886377006096 ATP binding site [chemical binding]; other site 886377006097 Walker B motif; other site 886377006098 arginine finger; other site 886377006099 aconitate hydratase; Validated; Region: PRK07229 886377006100 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 886377006101 substrate binding site [chemical binding]; other site 886377006102 ligand binding site [chemical binding]; other site 886377006103 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 886377006104 substrate binding site [chemical binding]; other site 886377006105 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 886377006106 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377006107 catalytic residues [active] 886377006108 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 886377006109 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377006110 catalytic residues [active] 886377006111 beta-carotene hydroxylase; Region: PLN02601 886377006112 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 886377006113 active site lid residues [active] 886377006114 substrate binding pocket [chemical binding]; other site 886377006115 catalytic residues [active] 886377006116 substrate-Mg2+ binding site; other site 886377006117 aspartate-rich region 1; other site 886377006118 aspartate-rich region 2; other site 886377006119 phytoene desaturase; Region: crtI_fam; TIGR02734 886377006120 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 886377006121 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 886377006122 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 886377006123 DNA binding residues [nucleotide binding] 886377006124 B12 binding domain; Region: B12-binding_2; pfam02607 886377006125 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 886377006126 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 886377006127 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 886377006128 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377006129 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 886377006130 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 886377006131 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 886377006132 intersubunit interface [polypeptide binding]; other site 886377006133 active site 886377006134 catalytic residue [active] 886377006135 PAS domain S-box; Region: sensory_box; TIGR00229 886377006136 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377006137 putative active site [active] 886377006138 heme pocket [chemical binding]; other site 886377006139 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 886377006140 dimer interface [polypeptide binding]; other site 886377006141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377006142 phosphorylation site [posttranslational modification] 886377006143 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 886377006144 ATP binding site [chemical binding]; other site 886377006145 Mg2+ binding site [ion binding]; other site 886377006146 G-X-G motif; other site 886377006147 shikimate kinase; Reviewed; Region: aroK; PRK00131 886377006148 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 886377006149 ADP binding site [chemical binding]; other site 886377006150 magnesium binding site [ion binding]; other site 886377006151 putative shikimate binding site; other site 886377006152 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377006153 active site 886377006154 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 886377006155 RNA binding surface [nucleotide binding]; other site 886377006156 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 886377006157 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 886377006158 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 886377006159 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 886377006160 PYR/PP interface [polypeptide binding]; other site 886377006161 dimer interface [polypeptide binding]; other site 886377006162 TPP binding site [chemical binding]; other site 886377006163 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377006164 transketolase; Reviewed; Region: PRK05899 886377006165 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 886377006166 TPP-binding site [chemical binding]; other site 886377006167 dimer interface [polypeptide binding]; other site 886377006168 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 886377006169 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 886377006170 Predicted permeases [General function prediction only]; Region: COG0795 886377006171 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 886377006172 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 886377006173 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 886377006174 replicative DNA helicase; Region: DnaB; TIGR00665 886377006175 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 886377006176 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 886377006177 Walker A motif; other site 886377006178 ATP binding site [chemical binding]; other site 886377006179 Walker B motif; other site 886377006180 DNA binding loops [nucleotide binding] 886377006181 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 886377006182 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377006183 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 886377006184 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 886377006185 active site 886377006186 motif I; other site 886377006187 motif II; other site 886377006188 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 886377006189 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 886377006190 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 886377006191 23S rRNA binding site [nucleotide binding]; other site 886377006192 L21 binding site [polypeptide binding]; other site 886377006193 L13 binding site [polypeptide binding]; other site 886377006194 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 886377006195 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 886377006196 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 886377006197 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 886377006198 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 886377006199 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 886377006200 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 886377006201 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 886377006202 active site 886377006203 dimer interface [polypeptide binding]; other site 886377006204 motif 1; other site 886377006205 motif 2; other site 886377006206 motif 3; other site 886377006207 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 886377006208 anticodon binding site; other site 886377006209 Haemolysin-III related; Region: HlyIII; cl03831 886377006210 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 886377006211 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 886377006212 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 886377006213 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 886377006215 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 886377006216 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377006217 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 886377006218 TRAM domain; Region: TRAM; cl01282 886377006219 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 886377006220 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 886377006221 S-adenosylmethionine binding site [chemical binding]; other site 886377006222 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 886377006223 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 886377006224 inhibitor-cofactor binding pocket; inhibition site 886377006225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377006226 catalytic residue [active] 886377006227 PAS domain; Region: PAS_9; pfam13426 886377006228 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 886377006229 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377006230 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377006231 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 886377006232 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 886377006233 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 886377006234 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 886377006235 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 886377006236 Citrate transporter; Region: CitMHS; pfam03600 886377006237 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 886377006238 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377006239 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377006240 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 886377006241 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377006242 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377006243 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 886377006244 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377006245 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 886377006246 nudix motif; other site 886377006247 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 886377006248 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377006249 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377006250 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377006251 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 886377006252 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 886377006253 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377006254 SusD family; Region: SusD; pfam07980 886377006255 Family description; Region: VCBS; pfam13517 886377006256 Family description; Region: VCBS; pfam13517 886377006257 Family description; Region: VCBS; pfam13517 886377006258 Family description; Region: VCBS; pfam13517 886377006259 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377006260 Family description; Region: VCBS; pfam13517 886377006261 Family description; Region: VCBS; pfam13517 886377006262 Family description; Region: VCBS; pfam13517 886377006263 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 886377006264 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 886377006265 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 886377006266 putative metal binding site [ion binding]; other site 886377006267 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 886377006268 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 886377006269 homodimer interface [polypeptide binding]; other site 886377006270 substrate-cofactor binding pocket; other site 886377006271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377006272 catalytic residue [active] 886377006273 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 886377006274 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377006275 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 886377006276 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 886377006277 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 886377006278 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 886377006279 RNA methyltransferase, RsmE family; Region: TIGR00046 886377006280 UGMP family protein; Validated; Region: PRK09604 886377006281 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 886377006282 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 886377006283 Family of unknown function (DUF490); Region: DUF490; pfam04357 886377006284 Family of unknown function (DUF490); Region: DUF490; pfam04357 886377006285 6-phosphofructokinase; Provisional; Region: PRK03202 886377006286 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 886377006287 active site 886377006288 ADP/pyrophosphate binding site [chemical binding]; other site 886377006289 dimerization interface [polypeptide binding]; other site 886377006290 allosteric effector site; other site 886377006291 fructose-1,6-bisphosphate binding site; other site 886377006292 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 886377006293 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 886377006294 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 886377006295 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 886377006296 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 886377006297 homotrimer interaction site [polypeptide binding]; other site 886377006298 putative active site [active] 886377006299 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 886377006300 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 886377006301 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 886377006302 active site 886377006303 metal binding site [ion binding]; metal-binding site 886377006304 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 886377006305 mce related protein; Region: MCE; pfam02470 886377006306 4Fe-4S binding domain; Region: Fer4; cl02805 886377006307 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 886377006308 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 886377006309 Cysteine-rich domain; Region: CCG; pfam02754 886377006310 Cysteine-rich domain; Region: CCG; pfam02754 886377006311 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 886377006312 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 886377006313 Beta-lactamase; Region: Beta-lactamase; cl17358 886377006314 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006315 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 886377006316 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 886377006317 PrcB C-terminal; Region: PrcB_C; pfam14343 886377006318 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 886377006319 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377006320 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377006321 ligand binding site [chemical binding]; other site 886377006322 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377006323 Transcriptional regulator; Region: Rrf2; pfam02082 886377006324 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 886377006325 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006326 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377006327 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006328 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006329 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006330 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006331 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 886377006332 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 886377006333 Cytochrome c; Region: Cytochrom_C; cl11414 886377006334 Cytochrome c; Region: Cytochrom_C; pfam00034 886377006335 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377006336 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 886377006337 putative ADP-binding pocket [chemical binding]; other site 886377006338 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 886377006339 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 886377006340 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377006341 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 886377006342 putative ADP-binding pocket [chemical binding]; other site 886377006343 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 886377006344 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377006345 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 886377006346 putative ADP-binding pocket [chemical binding]; other site 886377006347 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 886377006348 Pectate lyase; Region: Pec_lyase_C; cl01593 886377006349 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 886377006350 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 886377006351 putative NAD(P) binding site [chemical binding]; other site 886377006352 active site 886377006353 putative substrate binding site [chemical binding]; other site 886377006354 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377006355 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 886377006356 putative ADP-binding pocket [chemical binding]; other site 886377006357 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 886377006358 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 886377006359 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 886377006360 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 886377006361 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 886377006362 SLBB domain; Region: SLBB; pfam10531 886377006363 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 886377006364 Chain length determinant protein; Region: Wzz; pfam02706 886377006365 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 886377006366 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 886377006367 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 886377006368 Core-2/I-Branching enzyme; Region: Branch; pfam02485 886377006369 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 886377006370 Putative Ig domain; Region: He_PIG; pfam05345 886377006371 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 886377006372 Kelch motif; Region: Kelch_1; pfam01344 886377006373 Kelch motif; Region: Kelch_1; pfam01344 886377006374 Kelch motif; Region: Kelch_1; pfam01344 886377006375 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006376 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377006377 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006378 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 886377006379 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377006380 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006381 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006382 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377006383 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006384 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006385 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006386 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 886377006387 Bacterial sugar transferase; Region: Bac_transf; pfam02397 886377006388 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 886377006389 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 886377006390 Putative Ig domain; Region: He_PIG; pfam05345 886377006391 Kelch motif; Region: Kelch_6; pfam13964 886377006392 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006393 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377006394 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006395 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377006396 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 886377006397 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377006398 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 886377006399 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377006400 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 886377006401 dimer interface [polypeptide binding]; other site 886377006402 phosphorylation site [posttranslational modification] 886377006403 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 886377006404 ATP binding site [chemical binding]; other site 886377006405 Mg2+ binding site [ion binding]; other site 886377006406 G-X-G motif; other site 886377006407 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 886377006408 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 886377006409 active site 886377006410 phosphorylation site [posttranslational modification] 886377006411 intermolecular recognition site; other site 886377006412 dimerization interface [polypeptide binding]; other site 886377006413 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 886377006414 DNA binding site [nucleotide binding] 886377006415 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 886377006416 Zn binding site [ion binding]; other site 886377006417 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 886377006418 metal binding site 2 [ion binding]; metal-binding site 886377006419 putative DNA binding helix; other site 886377006420 metal binding site 1 [ion binding]; metal-binding site 886377006421 dimer interface [polypeptide binding]; other site 886377006422 structural Zn2+ binding site [ion binding]; other site 886377006423 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 886377006424 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 886377006425 MerC mercury resistance protein; Region: MerC; pfam03203 886377006426 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 886377006427 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 886377006428 dimer interface [polypeptide binding]; other site 886377006429 catalytic triad [active] 886377006430 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377006431 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 886377006432 putative active site [active] 886377006433 Zn binding site [ion binding]; other site 886377006434 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1; cd01653 886377006435 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 886377006436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 886377006437 beta-phosphoglucomutase; Region: bPGM; TIGR01990 886377006438 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 886377006439 GMP synthase; Reviewed; Region: guaA; PRK00074 886377006440 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 886377006441 AMP/PPi binding site [chemical binding]; other site 886377006442 candidate oxyanion hole; other site 886377006443 catalytic triad [active] 886377006444 potential glutamine specificity residues [chemical binding]; other site 886377006445 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 886377006446 ATP Binding subdomain [chemical binding]; other site 886377006447 Ligand Binding sites [chemical binding]; other site 886377006448 Dimerization subdomain; other site 886377006449 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 886377006450 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 886377006451 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 886377006452 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 886377006453 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 886377006454 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 886377006455 ligand binding site [chemical binding]; other site 886377006456 OsmC-like protein; Region: OsmC; pfam02566 886377006457 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 886377006458 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 886377006459 CTP synthetase; Validated; Region: pyrG; PRK05380 886377006460 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 886377006461 Catalytic site [active] 886377006462 active site 886377006463 UTP binding site [chemical binding]; other site 886377006464 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 886377006465 active site 886377006466 putative oxyanion hole; other site 886377006467 catalytic triad [active] 886377006468 membrane protein insertase; Provisional; Region: PRK01318 886377006469 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 886377006470 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 886377006471 Fasciclin domain; Region: Fasciclin; pfam02469 886377006472 Fasciclin domain; Region: Fasciclin; pfam02469 886377006473 Fasciclin domain; Region: Fasciclin; pfam02469 886377006474 Fasciclin domain; Region: Fasciclin; pfam02469 886377006475 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 886377006476 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 886377006477 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 886377006478 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 886377006479 FMN binding site [chemical binding]; other site 886377006480 substrate binding site [chemical binding]; other site 886377006481 putative catalytic residue [active] 886377006482 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 886377006483 Protein of unknown function DUF58; Region: DUF58; pfam01882 886377006484 MoxR-like ATPases [General function prediction only]; Region: COG0714 886377006485 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 886377006486 Walker A motif; other site 886377006487 ATP binding site [chemical binding]; other site 886377006488 Walker B motif; other site 886377006489 arginine finger; other site 886377006490 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 886377006491 Integral membrane protein DUF95; Region: DUF95; pfam01944 886377006492 RDD family; Region: RDD; pfam06271 886377006493 Predicted membrane protein [Function unknown]; Region: COG2860 886377006494 UPF0126 domain; Region: UPF0126; pfam03458 886377006495 UPF0126 domain; Region: UPF0126; pfam03458 886377006496 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 886377006497 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 886377006498 active site 886377006499 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 886377006500 putative active site [active] 886377006501 putative CoA binding site [chemical binding]; other site 886377006502 nudix motif; other site 886377006503 metal binding site [ion binding]; metal-binding site 886377006504 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 886377006505 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 886377006506 putative acyl-acceptor binding pocket; other site 886377006507 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377006508 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006509 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 886377006510 DNA binding residues [nucleotide binding] 886377006511 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 886377006512 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 886377006513 putative metal binding site [ion binding]; other site 886377006514 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 886377006515 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377006516 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 886377006517 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 886377006518 active site 886377006519 Int/Topo IB signature motif; other site 886377006520 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 886377006521 Dehydroquinase class II; Region: DHquinase_II; pfam01220 886377006522 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 886377006523 trimer interface [polypeptide binding]; other site 886377006524 active site 886377006525 dimer interface [polypeptide binding]; other site 886377006526 integral membrane protein; Region: integ_memb_HG; TIGR03954 886377006527 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 886377006528 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 886377006529 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377006530 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 886377006531 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 886377006532 DinB superfamily; Region: DinB_2; pfam12867 886377006533 methionine sulfoxide reductase B; Provisional; Region: PRK00222 886377006534 SelR domain; Region: SelR; pfam01641 886377006535 methionine sulfoxide reductase B; Provisional; Region: PRK00222 886377006536 SelR domain; Region: SelR; pfam01641 886377006537 glycogen branching enzyme; Provisional; Region: PRK12313 886377006538 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 886377006539 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 886377006540 active site 886377006541 catalytic site [active] 886377006542 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 886377006543 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 886377006544 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 886377006545 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 886377006546 trimer interface [polypeptide binding]; other site 886377006547 active site 886377006548 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 886377006549 catalytic site [active] 886377006550 Peptidase family M48; Region: Peptidase_M48; pfam01435 886377006551 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 886377006552 Thermus thermophiles TTHB029 and similar proteins; Region: YdjC_TTHB029_like; cd10802 886377006553 putative active site [active] 886377006554 YdjC motif; other site 886377006555 Mg binding site [ion binding]; other site 886377006556 homodimer interface [polypeptide binding]; other site 886377006557 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377006558 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 886377006559 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377006560 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006561 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 886377006562 DNA binding residues [nucleotide binding] 886377006563 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 886377006564 Found in ATP-dependent protease La (LON); Region: LON; smart00464 886377006565 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 886377006566 Walker A motif; other site 886377006567 ATP binding site [chemical binding]; other site 886377006568 Walker B motif; other site 886377006569 arginine finger; other site 886377006570 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 886377006571 cytidylate kinase; Provisional; Region: cmk; PRK00023 886377006572 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 886377006573 active site 886377006574 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 886377006575 CMP-binding site; other site 886377006576 The sites determining sugar specificity; other site 886377006577 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 886377006578 non-specific DNA binding site [nucleotide binding]; other site 886377006579 salt bridge; other site 886377006580 sequence-specific DNA binding site [nucleotide binding]; other site 886377006581 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 886377006582 Predicted membrane protein [Function unknown]; Region: COG4325 886377006583 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 886377006584 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 886377006585 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 886377006586 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 886377006587 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 886377006588 RNA binding site [nucleotide binding]; other site 886377006589 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 886377006590 RNA binding site [nucleotide binding]; other site 886377006591 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 886377006592 RNA binding site [nucleotide binding]; other site 886377006593 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 886377006594 RNA binding site [nucleotide binding]; other site 886377006595 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 886377006596 RNA binding site [nucleotide binding]; other site 886377006597 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 886377006598 RNA binding site [nucleotide binding]; other site 886377006599 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 886377006600 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377006601 active site 886377006602 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 886377006603 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 886377006604 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 886377006605 ribonuclease Z; Reviewed; Region: PRK00055 886377006606 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 886377006607 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 886377006608 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 886377006609 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 886377006610 catalytic core [active] 886377006611 polyphosphate kinase; Provisional; Region: PRK05443 886377006612 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 886377006613 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 886377006614 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 886377006615 domain interface [polypeptide binding]; other site 886377006616 active site 886377006617 catalytic site [active] 886377006618 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 886377006619 domain interface [polypeptide binding]; other site 886377006620 active site 886377006621 catalytic site [active] 886377006622 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 886377006623 active site 886377006624 dinuclear metal binding site [ion binding]; other site 886377006625 dimerization interface [polypeptide binding]; other site 886377006626 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 886377006627 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 886377006628 active site 886377006629 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 886377006630 UbiA prenyltransferase family; Region: UbiA; pfam01040 886377006631 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 886377006632 active site 886377006633 metal binding site [ion binding]; metal-binding site 886377006634 Uncharacterized conserved protein [Function unknown]; Region: COG3379 886377006635 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 886377006636 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 886377006637 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 886377006638 Walker A motif; other site 886377006639 ATP binding site [chemical binding]; other site 886377006640 Walker B motif; other site 886377006641 arginine finger; other site 886377006642 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 886377006643 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 886377006644 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 886377006645 S-adenosylmethionine binding site [chemical binding]; other site 886377006646 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 886377006647 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 886377006648 AAA domain; Region: AAA_30; pfam13604 886377006649 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 886377006650 Family description; Region: UvrD_C_2; pfam13538 886377006651 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 886377006652 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 886377006653 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 886377006654 Ligand binding site; other site 886377006655 oligomer interface; other site 886377006656 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 886377006657 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 886377006658 motif II; other site 886377006659 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 886377006660 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 886377006661 active site 886377006662 NAD binding site [chemical binding]; other site 886377006663 metal binding site [ion binding]; metal-binding site 886377006664 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 886377006665 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 886377006666 putative acyl-acceptor binding pocket; other site 886377006667 Amidohydrolase; Region: Amidohydro_2; pfam04909 886377006668 active site 886377006669 hypothetical protein; Provisional; Region: PRK12378 886377006670 pterin-4-alpha-carbinolamine dehydratase; Validated; Region: phhB; PRK00823 886377006671 aromatic arch; other site 886377006672 DCoH dimer interaction site [polypeptide binding]; other site 886377006673 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 886377006674 DCoH tetramer interaction site [polypeptide binding]; other site 886377006675 substrate binding site [chemical binding]; other site 886377006676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006677 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 886377006678 NAD(P) binding site [chemical binding]; other site 886377006679 active site 886377006680 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 886377006681 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 886377006682 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 886377006683 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 886377006684 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 886377006685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377006686 catalytic residue [active] 886377006687 homoserine kinase; Provisional; Region: PRK01212 886377006688 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 886377006689 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 886377006690 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 886377006691 putative catalytic residues [active] 886377006692 putative nucleotide binding site [chemical binding]; other site 886377006693 putative aspartate binding site [chemical binding]; other site 886377006694 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 886377006695 dimer interface [polypeptide binding]; other site 886377006696 putative threonine allosteric regulatory site; other site 886377006697 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 886377006698 putative threonine allosteric regulatory site; other site 886377006699 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 886377006700 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 886377006701 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 886377006702 putative carbohydrate kinase; Provisional; Region: PRK10565 886377006703 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 886377006704 putative substrate binding site [chemical binding]; other site 886377006705 putative ATP binding site [chemical binding]; other site 886377006706 2',3'-cyclic nucleotide 3'-phosphodiesterase (CNP or CNPase); Region: CNPase; pfam05881 886377006707 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 886377006708 Clp amino terminal domain; Region: Clp_N; pfam02861 886377006709 Clp amino terminal domain; Region: Clp_N; pfam02861 886377006710 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 886377006711 Walker A motif; other site 886377006712 ATP binding site [chemical binding]; other site 886377006713 Walker B motif; other site 886377006714 arginine finger; other site 886377006715 UvrB/uvrC motif; Region: UVR; pfam02151 886377006716 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 886377006717 Walker A motif; other site 886377006718 ATP binding site [chemical binding]; other site 886377006719 Walker B motif; other site 886377006720 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 886377006721 DNA gyrase subunit A; Validated; Region: PRK05560 886377006722 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 886377006723 CAP-like domain; other site 886377006724 active site 886377006725 primary dimer interface [polypeptide binding]; other site 886377006726 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006727 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006728 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006729 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006730 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006731 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006732 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 886377006733 binding surface 886377006734 TPR motif; other site 886377006735 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377006736 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 886377006737 binding surface 886377006738 TPR motif; other site 886377006739 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 886377006740 NlpC/P60 family; Region: NLPC_P60; pfam00877 886377006741 acetyl-CoA C-acetyltransferase; Region: PLN02644 886377006742 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 886377006743 dimer interface [polypeptide binding]; other site 886377006744 active site 886377006745 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 886377006746 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 886377006747 Zn2+ binding site [ion binding]; other site 886377006748 Mg2+ binding site [ion binding]; other site 886377006749 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 886377006750 active site 886377006751 DNA binding site [nucleotide binding] 886377006752 Int/Topo IB signature motif; other site 886377006753 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 886377006754 Outer membrane efflux protein; Region: OEP; pfam02321 886377006755 Outer membrane efflux protein; Region: OEP; pfam02321 886377006756 HlyD family secretion protein; Region: HlyD_2; pfam12700 886377006757 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377006758 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 886377006759 metal binding site 2 [ion binding]; metal-binding site 886377006760 putative DNA binding helix; other site 886377006761 metal binding site 1 [ion binding]; metal-binding site 886377006762 dimer interface [polypeptide binding]; other site 886377006763 structural Zn2+ binding site [ion binding]; other site 886377006764 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 886377006765 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 886377006766 Soluble P-type ATPase [General function prediction only]; Region: COG4087 886377006767 hypothetical protein; Provisional; Region: PRK02237 886377006768 MerT mercuric transport protein; Region: MerT; cl03578 886377006769 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 886377006770 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 886377006771 metal-binding site [ion binding] 886377006772 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 886377006773 dimerization interface [polypeptide binding]; other site 886377006774 putative DNA binding site [nucleotide binding]; other site 886377006775 putative Zn2+ binding site [ion binding]; other site 886377006776 Domain of unknown function (DUF932); Region: DUF932; cl12129 886377006777 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 886377006778 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 886377006779 dimer interface [polypeptide binding]; other site 886377006780 ssDNA binding site [nucleotide binding]; other site 886377006781 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377006782 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 886377006783 MPN+ (JAMM) motif; other site 886377006784 Zinc-binding site [ion binding]; other site 886377006785 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 886377006786 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 886377006787 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 886377006788 Walker A motif; other site 886377006789 ATP binding site [chemical binding]; other site 886377006790 Walker B motif; other site 886377006791 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 886377006792 Domain of unknown function DUF87; Region: DUF87; pfam01935 886377006793 AAA-like domain; Region: AAA_10; pfam12846 886377006794 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 886377006795 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 886377006796 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 886377006797 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 886377006798 S-adenosylmethionine binding site [chemical binding]; other site 886377006799 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 886377006800 Methyltransferase domain; Region: Methyltransf_26; pfam13659 886377006801 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 886377006802 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 886377006803 non-specific DNA binding site [nucleotide binding]; other site 886377006804 salt bridge; other site 886377006805 sequence-specific DNA binding site [nucleotide binding]; other site 886377006806 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 886377006807 non-specific DNA binding site [nucleotide binding]; other site 886377006808 salt bridge; other site 886377006809 sequence-specific DNA binding site [nucleotide binding]; other site 886377006810 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377006811 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377006812 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 886377006813 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377006814 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377006815 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 886377006816 active site 886377006817 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377006818 PAS domain; Region: PAS_9; pfam13426 886377006819 putative active site [active] 886377006820 heme pocket [chemical binding]; other site 886377006821 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377006822 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377006823 RteC protein; Region: RteC; pfam09357 886377006824 Helix-turn-helix domain; Region: HTH_17; pfam12728 886377006825 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 886377006826 hypothetical protein; Validated; Region: PRK08116 886377006827 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 886377006828 CAAX protease self-immunity; Region: Abi; pfam02517 886377006829 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006830 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006831 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006832 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006833 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006834 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006835 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006836 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006837 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006838 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006839 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377006840 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006841 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 886377006842 DNA binding residues [nucleotide binding] 886377006843 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377006845 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377006846 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377006847 Amidohydrolase; Region: Amidohydro_4; pfam13147 886377006848 active site 886377006849 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377006850 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 886377006851 active site 886377006852 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 886377006853 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 886377006854 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 886377006855 IPT/TIG domain; Region: TIG; pfam01833 886377006856 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006857 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006858 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006859 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006860 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 886377006861 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006862 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 886377006863 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006864 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006865 Amidohydrolase; Region: Amidohydro_4; pfam13147 886377006866 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377006867 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006868 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006869 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 886377006870 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377006871 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 886377006872 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 886377006873 putative NAD(P) binding site [chemical binding]; other site 886377006874 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377006875 PAS fold; Region: PAS_3; pfam08447 886377006876 putative active site [active] 886377006877 heme pocket [chemical binding]; other site 886377006878 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 886377006879 Substrate binding site [chemical binding]; other site 886377006880 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006881 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006882 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 886377006883 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 886377006884 non-specific DNA binding site [nucleotide binding]; other site 886377006885 salt bridge; other site 886377006886 sequence-specific DNA binding site [nucleotide binding]; other site 886377006887 Tic20-like protein; Region: Tic20; pfam09685 886377006888 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006889 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006890 FtsX-like permease family; Region: FtsX; pfam02687 886377006891 FtsX-like permease family; Region: FtsX; pfam02687 886377006892 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 886377006893 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006894 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006895 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006896 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377006898 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 886377006899 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 886377006900 active site 886377006901 metal binding site [ion binding]; metal-binding site 886377006902 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 886377006903 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 886377006904 Domain of unknown function DUF87; Region: DUF87; pfam01935 886377006905 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 886377006906 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 886377006907 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 886377006908 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 886377006909 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 886377006910 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 886377006911 active site 886377006912 phosphorylation site [posttranslational modification] 886377006913 intermolecular recognition site; other site 886377006914 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 886377006915 Sel1-like repeats; Region: SEL1; smart00671 886377006916 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377006917 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 886377006918 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 886377006919 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 886377006920 Int/Topo IB signature motif; other site 886377006921 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377006922 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 886377006923 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 886377006924 oligomer interface [polypeptide binding]; other site 886377006925 active site residues [active] 886377006926 ParB-like nuclease domain; Region: ParB; smart00470 886377006927 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 886377006928 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 886377006929 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 886377006930 active site 886377006931 DNA binding site [nucleotide binding] 886377006932 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 886377006933 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 886377006934 active site 886377006935 PHP Thumb interface [polypeptide binding]; other site 886377006936 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 886377006937 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 886377006938 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 886377006939 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 886377006940 dimer interface [polypeptide binding]; other site 886377006941 ssDNA binding site [nucleotide binding]; other site 886377006942 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377006943 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 886377006944 MPN+ (JAMM) motif; other site 886377006945 Zinc-binding site [ion binding]; other site 886377006946 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 886377006947 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 886377006948 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 886377006949 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 886377006950 binding surface 886377006951 TPR motif; other site 886377006952 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 886377006953 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 886377006954 ATP binding site [chemical binding]; other site 886377006955 Mg2+ binding site [ion binding]; other site 886377006956 G-X-G motif; other site 886377006957 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377006958 PEGA domain; Region: PEGA; pfam08308 886377006959 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 886377006960 Uncharacterized conserved protein [Function unknown]; Region: COG4748 886377006961 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 886377006962 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 886377006963 putative active site [active] 886377006964 putative catalytic site [active] 886377006965 putative Mg binding site IVb [ion binding]; other site 886377006966 putative phosphate binding site [ion binding]; other site 886377006967 putative DNA binding site [nucleotide binding]; other site 886377006968 putative Mg binding site IVa [ion binding]; other site 886377006969 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 886377006970 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 886377006971 cofactor binding site; other site 886377006972 DNA binding site [nucleotide binding] 886377006973 substrate interaction site [chemical binding]; other site 886377006974 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 886377006975 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 886377006976 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 886377006977 Uncharacterized conserved protein [Function unknown]; Region: COG1479 886377006978 Protein of unknown function DUF262; Region: DUF262; pfam03235 886377006979 Uncharacterized conserved protein [Function unknown]; Region: COG3472 886377006980 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 886377006981 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 886377006982 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 886377006983 non-specific DNA binding site [nucleotide binding]; other site 886377006984 salt bridge; other site 886377006985 sequence-specific DNA binding site [nucleotide binding]; other site 886377006986 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377006987 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377006988 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377006989 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 886377006990 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377006991 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377006992 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 886377006993 active site 886377006994 PAS domain; Region: PAS_9; pfam13426 886377006995 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377006996 putative active site [active] 886377006997 heme pocket [chemical binding]; other site 886377006998 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377006999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007000 hypothetical protein; Provisional; Region: PRK07505 886377007001 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 886377007002 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377007003 catalytic residue [active] 886377007004 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 886377007005 RteC protein; Region: RteC; pfam09357 886377007006 Helix-turn-helix domain; Region: HTH_17; pfam12728 886377007007 Helix-turn-helix domain; Region: HTH_36; pfam13730 886377007008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377007009 hypothetical protein; Validated; Region: PRK08116 886377007010 Walker A/P-loop; other site 886377007011 ATP binding site [chemical binding]; other site 886377007012 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 886377007013 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 886377007014 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 886377007015 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 886377007016 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 886377007017 motif II; other site 886377007018 Putative transcription activator [Transcription]; Region: TenA; COG0819 886377007019 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 886377007020 substrate binding site [chemical binding]; other site 886377007021 dimer interface [polypeptide binding]; other site 886377007022 ATP binding site [chemical binding]; other site 886377007023 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 886377007024 thiamine phosphate binding site [chemical binding]; other site 886377007025 active site 886377007026 pyrophosphate binding site [ion binding]; other site 886377007027 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 886377007028 substrate binding site [chemical binding]; other site 886377007029 multimerization interface [polypeptide binding]; other site 886377007030 ATP binding site [chemical binding]; other site 886377007031 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 886377007032 Domain of unknown function DUF87; Region: DUF87; pfam01935 886377007033 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 886377007034 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 886377007035 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 886377007037 Protein of unknown function, DUF481; Region: DUF481; cl01213 886377007038 YceI-like domain; Region: YceI; pfam04264 886377007039 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 886377007040 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 886377007041 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 886377007042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 886377007043 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 886377007044 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 886377007045 YceI-like domain; Region: YceI; pfam04264 886377007046 Predicted membrane protein [Function unknown]; Region: COG3748 886377007047 LytTr DNA-binding domain; Region: LytTR; smart00850 886377007048 Transcriptional regulator [Transcription]; Region: LysR; COG0583 886377007049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 886377007050 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 886377007051 dimerization interface [polypeptide binding]; other site 886377007052 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 886377007053 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 886377007054 dimer interface [polypeptide binding]; other site 886377007055 decamer (pentamer of dimers) interface [polypeptide binding]; other site 886377007056 catalytic triad [active] 886377007057 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 886377007058 Flavodoxin; Region: Flavodoxin_1; pfam00258 886377007059 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 886377007060 FAD binding pocket [chemical binding]; other site 886377007061 FAD binding motif [chemical binding]; other site 886377007062 catalytic residues [active] 886377007063 NAD binding pocket [chemical binding]; other site 886377007064 phosphate binding motif [ion binding]; other site 886377007065 beta-alpha-beta structure motif; other site 886377007066 sulfite reductase subunit beta; Provisional; Region: PRK13504 886377007067 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377007068 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377007069 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 886377007070 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 886377007071 homodimer interface [polypeptide binding]; other site 886377007072 substrate-cofactor binding pocket; other site 886377007073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377007074 catalytic residue [active] 886377007075 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 886377007076 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 886377007077 homodimer interface [polypeptide binding]; other site 886377007078 substrate-cofactor binding pocket; other site 886377007079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377007080 catalytic residue [active] 886377007081 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 886377007082 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 886377007083 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 886377007084 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 886377007085 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377007086 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377007087 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377007088 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377007089 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 886377007090 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377007091 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007092 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 886377007093 heme-binding site [chemical binding]; other site 886377007094 Uncharacterized conserved protein [Function unknown]; Region: COG3189 886377007095 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 886377007096 classical (c) SDRs; Region: SDR_c; cd05233 886377007097 NAD(P) binding site [chemical binding]; other site 886377007098 active site 886377007099 Uncharacterized conserved protein [Function unknown]; Region: COG2128 886377007100 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 886377007101 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 886377007102 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 886377007103 aconitate hydratase; Validated; Region: PRK09277 886377007104 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 886377007105 substrate binding site [chemical binding]; other site 886377007106 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 886377007107 ligand binding site [chemical binding]; other site 886377007108 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 886377007109 substrate binding site [chemical binding]; other site 886377007110 Cupin domain; Region: Cupin_2; cl17218 886377007111 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 886377007112 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 886377007113 heme-binding site [chemical binding]; other site 886377007114 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 886377007115 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 886377007116 Cytochrome c; Region: Cytochrom_C; pfam00034 886377007117 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 886377007118 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 886377007119 Low-spin heme binding site [chemical binding]; other site 886377007120 D-pathway; other site 886377007121 Putative water exit pathway; other site 886377007122 Binuclear center (active site) [active] 886377007123 K-pathway; other site 886377007124 Putative proton exit pathway; other site 886377007125 RNA polymerase sigma factor; Provisional; Region: PRK11922 886377007126 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377007127 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 886377007128 DNA binding residues [nucleotide binding] 886377007129 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 886377007130 FAD binding pocket [chemical binding]; other site 886377007131 conserved FAD binding motif [chemical binding]; other site 886377007132 phosphate binding motif [ion binding]; other site 886377007133 beta-alpha-beta structure motif; other site 886377007134 NAD binding pocket [chemical binding]; other site 886377007135 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 886377007136 GTP cyclohydrolase I; Provisional; Region: PLN03044 886377007137 active site 886377007138 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 886377007139 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 886377007140 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 886377007141 CAAX protease self-immunity; Region: Abi; pfam02517 886377007142 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 886377007143 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 886377007144 tyrosine decarboxylase; Region: PLN02880 886377007145 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 886377007146 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377007147 catalytic residue [active] 886377007148 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 886377007149 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 886377007150 FAD binding pocket [chemical binding]; other site 886377007151 conserved FAD binding motif [chemical binding]; other site 886377007152 phosphate binding motif [ion binding]; other site 886377007153 beta-alpha-beta structure motif; other site 886377007154 NAD binding pocket [chemical binding]; other site 886377007155 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 886377007156 heme-binding site [chemical binding]; other site 886377007157 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 886377007158 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 886377007160 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 886377007162 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377007163 Transcriptional regulator; Region: Rrf2; pfam02082 886377007164 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 886377007165 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 886377007166 Cl- selectivity filter; other site 886377007167 Cl- binding residues [ion binding]; other site 886377007168 pore gating glutamate residue; other site 886377007169 dimer interface [polypeptide binding]; other site 886377007170 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 886377007171 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377007172 catalytic residue [active] 886377007173 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 886377007174 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 886377007175 Cu(I) binding site [ion binding]; other site 886377007176 Uncharacterized conserved protein [Function unknown]; Region: COG1262 886377007177 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 886377007178 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 886377007179 Multicopper oxidase; Region: Cu-oxidase; pfam00394 886377007180 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 886377007181 Cytochrome c; Region: Cytochrom_C; pfam00034 886377007182 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 886377007183 ligand binding site [chemical binding]; other site 886377007184 Trehalose utilisation; Region: ThuA; pfam06283 886377007185 conserved cys residue [active] 886377007186 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377007187 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377007188 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 886377007189 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 886377007190 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377007191 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377007192 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377007193 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 886377007194 DNA binding residues [nucleotide binding] 886377007195 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377007196 FecR protein; Region: FecR; pfam04773 886377007197 Secretin and TonB N terminus short domain; Region: STN; pfam07660 886377007198 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377007199 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377007200 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377007201 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 886377007202 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377007203 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377007204 SusD family; Region: SusD; pfam07980 886377007205 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 886377007206 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 886377007207 Cytochrome c; Region: Cytochrom_C; pfam00034 886377007208 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 886377007209 classical (c) SDRs; Region: SDR_c; cd05233 886377007210 NAD(P) binding site [chemical binding]; other site 886377007211 active site 886377007212 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 886377007213 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 886377007214 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 886377007215 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 886377007216 phosphate binding site [ion binding]; other site 886377007217 phosphoenolpyruvate synthase; Validated; Region: PRK06464 886377007218 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 886377007219 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 886377007220 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 886377007221 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 886377007222 putative substrate translocation pore; other site 886377007223 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377007225 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 886377007226 non-specific DNA binding site [nucleotide binding]; other site 886377007227 salt bridge; other site 886377007228 sequence-specific DNA binding site [nucleotide binding]; other site 886377007229 HipA N-terminal domain; Region: Couple_hipA; pfam13657 886377007230 HipA-like N-terminal domain; Region: HipA_N; pfam07805 886377007231 HipA-like C-terminal domain; Region: HipA_C; pfam07804 886377007232 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 886377007233 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 886377007234 Zn binding site [ion binding]; other site 886377007235 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 886377007236 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 886377007237 Walker A/P-loop; other site 886377007238 ATP binding site [chemical binding]; other site 886377007239 Q-loop/lid; other site 886377007240 ABC transporter signature motif; other site 886377007241 Walker B; other site 886377007242 D-loop; other site 886377007243 H-loop/switch region; other site 886377007244 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 886377007245 salt bridge; other site 886377007246 non-specific DNA binding site [nucleotide binding]; other site 886377007247 sequence-specific DNA binding site [nucleotide binding]; other site 886377007249 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 886377007250 dimer interface [polypeptide binding]; other site 886377007251 FMN binding site [chemical binding]; other site 886377007252 Protein of unknown function, DUF606; Region: DUF606; pfam04657 886377007253 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377007254 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377007255 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377007256 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377007257 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377007258 active site 886377007259 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 886377007260 putative substrate binding pocket [chemical binding]; other site 886377007261 trimer interface [polypeptide binding]; other site 886377007262 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 886377007263 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 886377007264 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 886377007265 potential catalytic triad [active] 886377007266 conserved cys residue [active] 886377007267 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 886377007268 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 886377007269 DoxX; Region: DoxX; pfam07681 886377007270 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377007271 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 886377007272 Coenzyme A binding pocket [chemical binding]; other site 886377007273 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 886377007274 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377007275 ligand binding site [chemical binding]; other site 886377007276 flexible hinge region; other site 886377007277 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 886377007278 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377007279 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 886377007280 ligand binding site [chemical binding]; other site 886377007281 flexible hinge region; other site 886377007282 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 886377007283 dimer interface [polypeptide binding]; other site 886377007284 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377007285 ligand binding site [chemical binding]; other site 886377007287 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377007288 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 886377007289 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377007290 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377007291 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377007292 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377007293 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007294 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 886377007295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007296 NAD(P) binding site [chemical binding]; other site 886377007297 active site 886377007299 Amidohydrolase; Region: Amidohydro_5; pfam13594 886377007300 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377007301 Amidohydrolase; Region: Amidohydro_4; pfam13147 886377007302 active site 886377007303 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377007304 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377007305 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377007306 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 886377007307 DNA binding residues [nucleotide binding] 886377007308 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377007309 FecR protein; Region: FecR; pfam04773 886377007310 Secretin and TonB N terminus short domain; Region: STN; pfam07660 886377007311 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377007312 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377007313 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377007314 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 886377007315 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377007316 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377007317 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 886377007318 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 886377007319 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377007320 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377007321 Amidohydrolase; Region: Amidohydro_4; pfam13147 886377007322 active site 886377007323 Proline dehydrogenase; Region: Pro_dh; cl03282 886377007324 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 886377007325 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 886377007326 Glutamate binding site [chemical binding]; other site 886377007327 NAD binding site [chemical binding]; other site 886377007328 catalytic residues [active] 886377007330 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 886377007331 PAS domain; Region: PAS_9; pfam13426 886377007332 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 886377007333 Histidine kinase; Region: HisKA_3; pfam07730 886377007334 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 886377007335 ATP binding site [chemical binding]; other site 886377007336 Mg2+ binding site [ion binding]; other site 886377007337 G-X-G motif; other site 886377007338 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 886377007339 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 886377007340 nitrite reductase subunit NirD; Provisional; Region: PRK14989 886377007341 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 886377007342 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377007343 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 886377007344 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 886377007345 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377007346 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 886377007347 active site 886377007348 SAM binding site [chemical binding]; other site 886377007349 homodimer interface [polypeptide binding]; other site 886377007350 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 886377007351 putative substrate translocation pore; other site 886377007352 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 886377007353 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377007354 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 886377007355 active site 886377007356 phosphorylation site [posttranslational modification] 886377007357 intermolecular recognition site; other site 886377007358 dimerization interface [polypeptide binding]; other site 886377007359 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 886377007360 DNA binding residues [nucleotide binding] 886377007361 dimerization interface [polypeptide binding]; other site 886377007362 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 886377007363 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 886377007364 [4Fe-4S] binding site [ion binding]; other site 886377007365 molybdopterin cofactor binding site; other site 886377007366 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 886377007367 molybdopterin cofactor binding site; other site 886377007368 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 886377007369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377007370 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 886377007371 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 886377007372 Rubredoxin; Region: Rubredoxin; pfam00301 886377007373 iron binding site [ion binding]; other site 886377007376 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377007377 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377007378 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377007379 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377007380 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377007381 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 886377007382 DNA binding residues [nucleotide binding] 886377007383 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 886377007384 nudix motif; other site 886377007385 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 886377007386 D-mannonate oxidoreductase; Provisional; Region: PRK08277 886377007387 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 886377007388 putative NAD(P) binding site [chemical binding]; other site 886377007389 active site 886377007390 mannonate dehydratase; Region: uxuA; TIGR00695 886377007391 mannonate dehydratase; Provisional; Region: PRK03906 886377007392 Glucuronate isomerase; Region: UxaC; pfam02614 886377007393 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 886377007394 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 886377007395 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 886377007396 substrate binding site [chemical binding]; other site 886377007397 ATP binding site [chemical binding]; other site 886377007398 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 886377007399 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 886377007400 active site 886377007401 intersubunit interface [polypeptide binding]; other site 886377007402 catalytic residue [active] 886377007403 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 886377007404 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 886377007405 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 886377007406 DctM-like transporters; Region: DctM; pfam06808 886377007407 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 886377007408 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377007409 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377007410 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377007411 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377007412 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377007413 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377007414 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 886377007415 Transcriptional regulators [Transcription]; Region: MarR; COG1846 886377007416 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 886377007417 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 886377007418 putative active site pocket [active] 886377007419 dimerization interface [polypeptide binding]; other site 886377007420 putative catalytic residue [active] 886377007421 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 886377007422 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 886377007423 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 886377007424 Sulfate transporter family; Region: Sulfate_transp; pfam00916 886377007425 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 886377007427 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 886377007428 nudix motif; other site 886377007429 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 886377007430 Carboxylesterase family; Region: COesterase; pfam00135 886377007431 substrate binding pocket [chemical binding]; other site 886377007432 catalytic triad [active] 886377007433 Predicted transcriptional regulator [Transcription]; Region: COG3655 886377007434 sequence-specific DNA binding site [nucleotide binding]; other site 886377007435 salt bridge; other site 886377007436 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 886377007438 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377007439 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 886377007440 ligand binding site [chemical binding]; other site 886377007441 flexible hinge region; other site 886377007442 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007443 PAS fold; Region: PAS_3; pfam08447 886377007444 putative active site [active] 886377007445 heme pocket [chemical binding]; other site 886377007446 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007447 PAS domain; Region: PAS_9; pfam13426 886377007448 putative active site [active] 886377007449 heme pocket [chemical binding]; other site 886377007450 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 886377007451 GAF domain; Region: GAF; pfam01590 886377007452 PAS domain S-box; Region: sensory_box; TIGR00229 886377007453 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007454 putative active site [active] 886377007455 heme pocket [chemical binding]; other site 886377007456 PAS domain; Region: PAS_9; pfam13426 886377007457 PAS fold; Region: PAS_4; pfam08448 886377007458 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007459 putative active site [active] 886377007460 heme pocket [chemical binding]; other site 886377007461 PAS fold; Region: PAS_4; pfam08448 886377007462 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007463 putative active site [active] 886377007464 heme pocket [chemical binding]; other site 886377007465 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 886377007466 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 886377007467 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007468 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 886377007469 putative active site [active] 886377007470 heme pocket [chemical binding]; other site 886377007471 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007472 putative active site [active] 886377007473 heme pocket [chemical binding]; other site 886377007474 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 886377007475 dimer interface [polypeptide binding]; other site 886377007476 phosphorylation site [posttranslational modification] 886377007477 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 886377007478 ATP binding site [chemical binding]; other site 886377007479 Mg2+ binding site [ion binding]; other site 886377007480 G-X-G motif; other site 886377007481 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 886377007482 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 886377007483 active site 886377007484 phosphorylation site [posttranslational modification] 886377007485 intermolecular recognition site; other site 886377007486 dimerization interface [polypeptide binding]; other site 886377007487 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 886377007488 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 886377007489 active site 886377007490 phosphorylation site [posttranslational modification] 886377007491 intermolecular recognition site; other site 886377007492 dimerization interface [polypeptide binding]; other site 886377007493 PAS domain S-box; Region: sensory_box; TIGR00229 886377007494 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377007495 putative active site [active] 886377007496 heme pocket [chemical binding]; other site 886377007497 Response regulator receiver domain; Region: Response_reg; pfam00072 886377007498 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 886377007499 active site 886377007500 phosphorylation site [posttranslational modification] 886377007501 intermolecular recognition site; other site 886377007502 dimerization interface [polypeptide binding]; other site 886377007503 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 886377007504 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377007505 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 886377007506 dimer interface [polypeptide binding]; other site 886377007507 phosphorylation site [posttranslational modification] 886377007508 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 886377007509 ATP binding site [chemical binding]; other site 886377007510 Mg2+ binding site [ion binding]; other site 886377007511 G-X-G motif; other site 886377007512 GAF domain; Region: GAF; pfam01590 886377007513 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 886377007514 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377007515 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; cl00080 886377007516 dimer interface [polypeptide binding]; other site 886377007517 phosphorylation site [posttranslational modification] 886377007518 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 886377007519 ATP binding site [chemical binding]; other site 886377007520 Mg2+ binding site [ion binding]; other site 886377007521 G-X-G motif; other site 886377007522 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377007523 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377007524 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 886377007525 DNA binding residues [nucleotide binding] 886377007526 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377007527 FecR protein; Region: FecR; pfam04773 886377007528 Secretin and TonB N terminus short domain; Region: STN; pfam07660 886377007529 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377007530 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377007531 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377007532 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 886377007533 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377007534 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377007535 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 886377007536 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377007537 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377007538 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377007539 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377007540 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 886377007541 DNA binding residues [nucleotide binding] 886377007542 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377007543 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377007544 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377007545 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377007546 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377007547 SusD family; Region: SusD; pfam07980 886377007548 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 886377007549 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 886377007550 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 886377007551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 886377007552 Putative glucoamylase; Region: Glycoamylase; pfam10091 886377007553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 886377007554 Putative glucoamylase; Region: Glycoamylase; pfam10091 886377007555 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 886377007556 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377007557 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 886377007558 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 886377007559 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 886377007560 Sulfatase; Region: Sulfatase; cl17466 886377007561 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 886377007562 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 886377007563 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377007564 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377007565 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 886377007566 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377007567 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; cl00047 886377007568 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 886377007569 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 886377007570 active site 886377007571 catalytic tetrad [active] 886377007572 NIPSNAP; Region: NIPSNAP; pfam07978 886377007573 NIPSNAP; Region: NIPSNAP; pfam07978 886377007574 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 886377007575 heme-binding site [chemical binding]; other site 886377007576 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 886377007577 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 886377007578 Hemerythrin-like domain; Region: Hr-like; cd12108 886377007579 Fe binding site [ion binding]; other site 886377007580 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377007581 Transcriptional regulator; Region: Rrf2; pfam02082 886377007582 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 886377007583 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 886377007584 Walker A/P-loop; other site 886377007585 ATP binding site [chemical binding]; other site 886377007586 Q-loop/lid; other site 886377007587 ABC transporter signature motif; other site 886377007588 Walker B; other site 886377007589 D-loop; other site 886377007590 H-loop/switch region; other site 886377007591 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 886377007592 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 886377007593 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; cl17869 886377007594 NosL; Region: NosL; cl01769 886377007595 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 886377007596 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 886377007597 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 886377007598 Fasciclin domain; Region: Fasciclin; pfam02469 886377007599 Cytochrome c; Region: Cytochrom_C; pfam00034 886377007600 Predicted transcriptional regulator [Transcription]; Region: COG1959 886377007601 Transcriptional regulator; Region: Rrf2; pfam02082 886377007602 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 886377007603 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 886377007604 GTP binding site; other site 886377007605 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 886377007606 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 886377007607 substrate binding pocket [chemical binding]; other site 886377007608 catalytic triad [active] 886377007609 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 886377007610 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 886377007611 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 886377007612 putative DNA binding site [nucleotide binding]; other site 886377007613 dimerization interface [polypeptide binding]; other site 886377007614 putative Zn2+ binding site [ion binding]; other site 886377007615 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377007616 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377007617 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 886377007618 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377007619 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377007620 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 886377007621 active site 886377007622 catalytic triad [active] 886377007623 oxyanion hole [active] 886377007624 switch loop; other site 886377007625 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 886377007626 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 886377007627 Walker A/P-loop; other site 886377007628 ATP binding site [chemical binding]; other site 886377007629 Q-loop/lid; other site 886377007630 ABC transporter signature motif; other site 886377007631 Walker B; other site 886377007632 D-loop; other site 886377007633 H-loop/switch region; other site 886377007634 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 886377007635 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377007636 FtsX-like permease family; Region: FtsX; pfam02687 886377007637 FtsX-like permease family; Region: FtsX; pfam02687 886377007638 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 886377007639 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377007640 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 886377007641 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377007642 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377007643 Protein export membrane protein; Region: SecD_SecF; cl14618 886377007644 ATP cone domain; Region: ATP-cone; pfam03477 886377007645 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 886377007646 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 886377007647 Beta-Casp domain; Region: Beta-Casp; pfam10996 886377007648 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 886377007649 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377007650 active site 886377007651 chaperone protein DnaJ; Provisional; Region: PRK14299 886377007652 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 886377007653 HSP70 interaction site [polypeptide binding]; other site 886377007654 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 886377007655 substrate binding site [polypeptide binding]; other site 886377007656 dimer interface [polypeptide binding]; other site 886377007657 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 886377007658 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 886377007659 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 886377007660 Ligand Binding Site [chemical binding]; other site 886377007661 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 886377007662 Ligand Binding Site [chemical binding]; other site 886377007663 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007664 PAS domain; Region: PAS_9; pfam13426 886377007665 putative active site [active] 886377007666 heme pocket [chemical binding]; other site 886377007667 PAS domain S-box; Region: sensory_box; TIGR00229 886377007668 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377007669 putative active site [active] 886377007670 heme pocket [chemical binding]; other site 886377007671 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377007672 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 886377007673 dimer interface [polypeptide binding]; other site 886377007674 phosphorylation site [posttranslational modification] 886377007675 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 886377007676 ATP binding site [chemical binding]; other site 886377007677 Mg2+ binding site [ion binding]; other site 886377007678 G-X-G motif; other site 886377007679 Response regulator receiver domain; Region: Response_reg; pfam00072 886377007680 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 886377007681 active site 886377007682 phosphorylation site [posttranslational modification] 886377007683 intermolecular recognition site; other site 886377007684 dimerization interface [polypeptide binding]; other site 886377007685 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377007686 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 886377007687 ligand binding site [chemical binding]; other site 886377007688 flexible hinge region; other site 886377007689 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 886377007690 putative switch regulator; other site 886377007691 non-specific DNA interactions [nucleotide binding]; other site 886377007692 DNA binding site [nucleotide binding] 886377007693 sequence specific DNA binding site [nucleotide binding]; other site 886377007694 putative cAMP binding site [chemical binding]; other site 886377007695 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 886377007696 Ligand Binding Site [chemical binding]; other site 886377007697 Universal stress protein family; Region: Usp; pfam00582 886377007698 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 886377007699 Ligand Binding Site [chemical binding]; other site 886377007700 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 886377007701 Ligand Binding Site [chemical binding]; other site 886377007702 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 886377007703 Ligand Binding Site [chemical binding]; other site 886377007704 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 886377007705 Ligand Binding Site [chemical binding]; other site 886377007706 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 886377007707 Ligand Binding Site [chemical binding]; other site 886377007708 eRF1 domain 2; Region: eRF1_2; pfam03464 886377007709 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 886377007710 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 886377007711 putative dimer interface [polypeptide binding]; other site 886377007712 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 886377007713 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 886377007714 putative ligand binding site [chemical binding]; other site 886377007715 putative NAD binding site [chemical binding]; other site 886377007716 catalytic site [active] 886377007717 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 886377007718 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 886377007719 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 886377007720 putative active site [active] 886377007721 catalytic site [active] 886377007722 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 886377007723 putative active site [active] 886377007724 catalytic site [active] 886377007725 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 886377007726 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 886377007727 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 886377007728 MoxR-like ATPases [General function prediction only]; Region: COG0714 886377007729 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 886377007730 Walker A motif; other site 886377007731 ATP binding site [chemical binding]; other site 886377007732 Walker B motif; other site 886377007733 arginine finger; other site 886377007734 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 886377007735 Protein of unknown function DUF58; Region: DUF58; pfam01882 886377007736 von Willebrand factor type A domain; Region: VWA_2; pfam13519 886377007737 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 886377007738 Cation efflux family; Region: Cation_efflux; pfam01545 886377007739 pyruvate phosphate dikinase; Provisional; Region: PRK09279 886377007740 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 886377007741 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 886377007742 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 886377007743 YceI-like domain; Region: YceI; pfam04264 886377007744 YceI-like domain; Region: YceI; smart00867 886377007745 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 886377007746 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 886377007747 active site 886377007748 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 886377007749 catalytic tetrad [active] 886377007750 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 886377007751 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 886377007752 putative substrate translocation pore; other site 886377007753 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377007754 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 886377007755 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 886377007756 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 886377007757 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 886377007758 catalytic loop [active] 886377007759 iron binding site [ion binding]; other site 886377007760 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 886377007761 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 886377007762 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 886377007763 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377007764 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377007765 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377007766 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007767 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 886377007768 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377007769 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 886377007770 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007771 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377007772 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007773 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 886377007774 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 886377007775 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 886377007776 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 886377007777 dimerization interface [polypeptide binding]; other site 886377007778 putative DNA binding site [nucleotide binding]; other site 886377007779 putative Zn2+ binding site [ion binding]; other site 886377007780 Predicted transcriptional regulators [Transcription]; Region: COG1733 886377007781 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 886377007782 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 886377007783 Predicted transcriptional regulators [Transcription]; Region: COG1733 886377007784 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 886377007785 DoxX; Region: DoxX; pfam07681 886377007786 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 886377007787 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 886377007788 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 886377007789 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377007790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007791 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 886377007792 SnoaL-like domain; Region: SnoaL_3; pfam13474 886377007793 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377007794 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377007795 active site 886377007796 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 886377007797 binding surface 886377007798 TPR motif; other site 886377007799 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377007800 Sulfatase; Region: Sulfatase; cl17466 886377007801 PAS fold; Region: PAS; pfam00989 886377007802 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007803 putative active site [active] 886377007804 heme pocket [chemical binding]; other site 886377007805 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007806 PAS fold; Region: PAS_3; pfam08447 886377007807 putative active site [active] 886377007808 heme pocket [chemical binding]; other site 886377007809 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 886377007810 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 886377007811 putative active site [active] 886377007812 heme pocket [chemical binding]; other site 886377007813 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 886377007814 dimer interface [polypeptide binding]; other site 886377007815 phosphorylation site [posttranslational modification] 886377007816 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 886377007817 ATP binding site [chemical binding]; other site 886377007818 Mg2+ binding site [ion binding]; other site 886377007819 G-X-G motif; other site 886377007820 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 886377007821 Response regulator receiver domain; Region: Response_reg; pfam00072 886377007822 active site 886377007823 phosphorylation site [posttranslational modification] 886377007824 intermolecular recognition site; other site 886377007825 dimerization interface [polypeptide binding]; other site 886377007826 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 886377007827 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 886377007828 active site 886377007829 phosphorylation site [posttranslational modification] 886377007830 intermolecular recognition site; other site 886377007831 dimerization interface [polypeptide binding]; other site 886377007832 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; cl00086 886377007833 putative binding surface; other site 886377007834 active site 886377007835 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 886377007836 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 886377007837 active site 886377007838 phosphorylation site [posttranslational modification] 886377007839 intermolecular recognition site; other site 886377007840 dimerization interface [polypeptide binding]; other site 886377007841 HEAT repeats; Region: HEAT_2; pfam13646 886377007842 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 886377007843 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 886377007844 DXD motif; other site 886377007845 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 886377007846 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377007847 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 886377007848 dimer interface [polypeptide binding]; other site 886377007849 phosphorylation site [posttranslational modification] 886377007850 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 886377007851 ATP binding site [chemical binding]; other site 886377007852 Mg2+ binding site [ion binding]; other site 886377007853 G-X-G motif; other site 886377007855 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 886377007856 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 886377007857 active site 886377007858 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377007859 Transcriptional regulator; Region: Rrf2; pfam02082 886377007860 quinolinate synthetase; Provisional; Region: PRK09375 886377007861 L-aspartate oxidase; Provisional; Region: PRK09077 886377007862 L-aspartate oxidase; Provisional; Region: PRK06175 886377007863 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 886377007864 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 886377007865 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 886377007866 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 886377007867 FeS/SAM binding site; other site 886377007869 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 886377007870 non-specific DNA binding site [nucleotide binding]; other site 886377007871 salt bridge; other site 886377007872 sequence-specific DNA binding site [nucleotide binding]; other site 886377007873 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 886377007874 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 886377007875 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 886377007876 trmE is a tRNA modification GTPase; Region: trmE; cd04164 886377007877 G1 box; other site 886377007878 GTP/Mg2+ binding site [chemical binding]; other site 886377007879 Switch I region; other site 886377007880 G2 box; other site 886377007881 Switch II region; other site 886377007882 G3 box; other site 886377007883 G4 box; other site 886377007884 G5 box; other site 886377007885 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 886377007886 Tic20-like protein; Region: Tic20; pfam09685 886377007887 DNA polymerase III subunit beta; Validated; Region: PRK05643 886377007888 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 886377007889 putative DNA binding surface [nucleotide binding]; other site 886377007890 dimer interface [polypeptide binding]; other site 886377007891 beta-clamp/clamp loader binding surface; other site 886377007892 beta-clamp/translesion DNA polymerase binding surface; other site 886377007893 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 886377007894 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 886377007895 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 886377007896 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 886377007897 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 886377007898 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 886377007899 PhoH-like protein; Region: PhoH; pfam02562 886377007900 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 886377007901 ATP binding site [chemical binding]; other site 886377007902 active site 886377007903 substrate binding site [chemical binding]; other site 886377007904 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 886377007905 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 886377007906 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 886377007907 Na binding site [ion binding]; other site 886377007908 acetyl-CoA synthetase; Provisional; Region: PRK00174 886377007909 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 886377007910 active site 886377007911 CoA binding site [chemical binding]; other site 886377007912 acyl-activating enzyme (AAE) consensus motif; other site 886377007913 AMP binding site [chemical binding]; other site 886377007914 acetate binding site [chemical binding]; other site 886377007915 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377007916 active site 886377007917 catalytic site [active] 886377007918 substrate binding site [chemical binding]; other site 886377007919 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 886377007920 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 886377007921 ligand binding site [chemical binding]; other site 886377007922 flexible hinge region; other site 886377007923 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_assoc2; cd04800 886377007924 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 886377007925 metal binding triad; other site 886377007926 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 886377007927 hydrophobic ligand binding site; other site 886377007928 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 886377007929 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 886377007930 homodimer interface [polypeptide binding]; other site 886377007931 substrate-cofactor binding pocket; other site 886377007932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377007933 catalytic residue [active] 886377007934 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 886377007935 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 886377007936 IHF - DNA interface [nucleotide binding]; other site 886377007937 IHF dimer interface [polypeptide binding]; other site 886377007938 DNA polymerase II large subunit; Validated; Region: PRK04023 886377007939 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 886377007940 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 886377007941 putative active site [active] 886377007942 substrate binding site [chemical binding]; other site 886377007943 putative cosubstrate binding site; other site 886377007944 catalytic site [active] 886377007945 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 886377007946 substrate binding site [chemical binding]; other site 886377007947 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 886377007948 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 886377007949 ATP binding site [chemical binding]; other site 886377007950 putative Mg++ binding site [ion binding]; other site 886377007951 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 886377007952 nucleotide binding region [chemical binding]; other site 886377007953 ATP-binding site [chemical binding]; other site 886377007954 Predicted ATPase [General function prediction only]; Region: COG3911 886377007955 AAA domain; Region: AAA_28; pfam13521 886377007956 Protein of unknown function (DUF493); Region: DUF493; pfam04359 886377007957 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 886377007958 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 886377007959 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 886377007960 hinge; other site 886377007961 active site 886377007962 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 886377007963 putative hydrophobic ligand binding site [chemical binding]; other site 886377007964 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 886377007965 putative hydrophobic ligand binding site [chemical binding]; other site 886377007966 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 886377007967 dimerization interface [polypeptide binding]; other site 886377007968 putative DNA binding site [nucleotide binding]; other site 886377007969 putative Zn2+ binding site [ion binding]; other site 886377007970 Pirin; Region: Pirin; pfam02678 886377007971 Pirin-related protein [General function prediction only]; Region: COG1741 886377007972 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 886377007973 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 886377007974 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 886377007975 putative metal binding site [ion binding]; other site 886377007976 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 886377007977 DNA photolyase; Region: DNA_photolyase; pfam00875 886377007978 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 886377007979 classical (c) SDRs; Region: SDR_c; cd05233 886377007980 NAD(P) binding site [chemical binding]; other site 886377007981 active site 886377007982 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 886377007983 putative hydrophobic ligand binding site [chemical binding]; other site 886377007984 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 886377007985 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 886377007986 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 886377007987 Na binding site [ion binding]; other site 886377007988 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 886377007989 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 886377007990 Maf-like protein; Region: Maf; pfam02545 886377007991 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 886377007992 active site 886377007993 dimer interface [polypeptide binding]; other site 886377007994 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 886377007995 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 886377007996 active site 886377007997 motif I; other site 886377007998 motif II; other site 886377007999 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 886377008000 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 886377008001 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 886377008002 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 886377008003 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 886377008004 active site 886377008005 Zn binding site [ion binding]; other site 886377008006 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_14; cd13139 886377008007 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 886377008008 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 886377008009 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 886377008010 homodimer interface [polypeptide binding]; other site 886377008011 substrate-cofactor binding pocket; other site 886377008012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008013 catalytic residue [active] 886377008014 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 886377008015 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377008016 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 886377008017 TPR motif; other site 886377008018 binding surface 886377008019 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377008020 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 886377008021 binding surface 886377008022 TPR motif; other site 886377008023 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377008024 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 886377008025 ATP binding site [chemical binding]; other site 886377008026 Mg2+ binding site [ion binding]; other site 886377008027 G-X-G motif; other site 886377008028 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377008029 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 886377008030 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 886377008031 Peptidase family M28; Region: Peptidase_M28; pfam04389 886377008032 metal binding site [ion binding]; metal-binding site 886377008033 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 886377008034 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 886377008035 hydroxyglutarate oxidase; Provisional; Region: PRK11728 886377008036 Serine hydrolase (FSH1); Region: FSH1; pfam03959 886377008037 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377008038 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 886377008039 CoenzymeA binding site [chemical binding]; other site 886377008040 subunit interaction site [polypeptide binding]; other site 886377008041 PHB binding site; other site 886377008042 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 886377008043 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 886377008044 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 886377008045 dimer interface [polypeptide binding]; other site 886377008046 tetramer interface [polypeptide binding]; other site 886377008047 PYR/PP interface [polypeptide binding]; other site 886377008048 TPP binding site [chemical binding]; other site 886377008049 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 886377008050 TPP-binding site; other site 886377008051 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 886377008052 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 886377008053 S1 domain; Region: S1_2; pfam13509 886377008054 Sporulation related domain; Region: SPOR; pfam05036 886377008055 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 886377008056 UbiA prenyltransferase family; Region: UbiA; pfam01040 886377008057 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377008058 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 886377008059 active site 886377008060 phosphorylation site [posttranslational modification] 886377008061 intermolecular recognition site; other site 886377008062 dimerization interface [polypeptide binding]; other site 886377008063 LytTr DNA-binding domain; Region: LytTR; smart00850 886377008064 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377008065 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 886377008066 Histidine kinase; Region: HisKA_2; pfam07568 886377008067 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 886377008068 ATP binding site [chemical binding]; other site 886377008069 Mg2+ binding site [ion binding]; other site 886377008070 G-X-G motif; other site 886377008071 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 886377008072 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 886377008073 active site 886377008074 CAAX protease self-immunity; Region: Abi; pfam02517 886377008075 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 886377008076 AMP binding site [chemical binding]; other site 886377008077 active site 886377008078 acyl-activating enzyme (AAE) consensus motif; other site 886377008079 CoA binding site [chemical binding]; other site 886377008080 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 886377008081 active site 886377008082 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 886377008083 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 886377008084 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377008085 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377008086 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 886377008087 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 886377008088 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 886377008089 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 886377008090 ABC transporter; Region: ABC_tran_2; pfam12848 886377008091 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 886377008092 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 886377008093 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 886377008094 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 886377008095 fumarate hydratase; Reviewed; Region: fumC; PRK00485 886377008096 Class II fumarases; Region: Fumarase_classII; cd01362 886377008097 active site 886377008098 tetramer interface [polypeptide binding]; other site 886377008099 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13428 886377008100 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377008101 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377008102 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 886377008103 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 886377008104 ArsC family; Region: ArsC; pfam03960 886377008105 catalytic residues [active] 886377008106 peptide chain release factor 2; Validated; Region: prfB; PRK00578 886377008107 PCRF domain; Region: PCRF; pfam03462 886377008108 RF-1 domain; Region: RF-1; pfam00472 886377008109 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 886377008110 active site 886377008111 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 886377008112 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 886377008113 tetramer interface [polypeptide binding]; other site 886377008114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008115 catalytic residue [active] 886377008116 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 886377008117 GIY-YIG motif/motif A; other site 886377008118 putative active site [active] 886377008119 hypothetical protein; Provisional; Region: PRK14623 886377008120 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 886377008121 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377008122 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 886377008123 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 886377008124 dimer interface [polypeptide binding]; other site 886377008125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008126 catalytic residue [active] 886377008127 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 886377008128 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 886377008129 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377008130 catalytic residue [active] 886377008131 N-carbamolyputrescine amidase; Region: PLN02747 886377008132 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 886377008133 putative active site [active] 886377008134 catalytic triad [active] 886377008135 putative dimer interface [polypeptide binding]; other site 886377008136 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377008137 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377008138 Helix-turn-helix domain; Region: HTH_28; pfam13518 886377008139 Homeodomain-like domain; Region: HTH_32; pfam13565 886377008140 putative transposase OrfB; Reviewed; Region: PHA02517 886377008141 Integrase core domain; Region: rve; pfam00665 886377008142 Integrase core domain; Region: rve_3; pfam13683 886377008143 Transposase; Region: HTH_Tnp_1; pfam01527 886377008144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 886377008145 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377008146 Walker A/P-loop; other site 886377008147 ATP binding site [chemical binding]; other site 886377008148 Q-loop/lid; other site 886377008149 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 886377008150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377008151 AAA domain; Region: AAA_21; pfam13304 886377008152 Walker A/P-loop; other site 886377008153 ATP binding site [chemical binding]; other site 886377008154 Q-loop/lid; other site 886377008155 ABC transporter signature motif; other site 886377008156 Walker B; other site 886377008157 D-loop; other site 886377008158 H-loop/switch region; other site 886377008159 acyl carrier protein; Provisional; Region: acpP; PRK00982 886377008160 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 886377008161 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 886377008162 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 886377008163 active site 886377008164 DNA binding site [nucleotide binding] 886377008165 Int/Topo IB signature motif; other site 886377008167 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 886377008168 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 886377008169 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377008170 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377008171 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 886377008172 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 886377008173 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 886377008174 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 886377008175 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 886377008176 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 886377008177 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 886377008178 TPR motif; other site 886377008179 TPR repeat; Region: TPR_11; pfam13414 886377008180 binding surface 886377008181 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377008182 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 886377008183 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377008184 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377008185 ligand binding site [chemical binding]; other site 886377008186 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377008187 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 886377008188 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 886377008189 binding surface 886377008190 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377008191 TPR motif; other site 886377008192 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 886377008193 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377008194 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377008195 ligand binding site [chemical binding]; other site 886377008196 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377008197 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 886377008198 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 886377008199 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 886377008200 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 886377008201 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377008202 Walker A/P-loop; other site 886377008203 ATP binding site [chemical binding]; other site 886377008204 Q-loop/lid; other site 886377008205 ABC transporter signature motif; other site 886377008206 Walker B; other site 886377008207 D-loop; other site 886377008208 H-loop/switch region; other site 886377008209 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377008210 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377008211 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 886377008212 DNA binding residues [nucleotide binding] 886377008213 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 886377008214 endonuclease III; Region: ENDO3c; smart00478 886377008215 minor groove reading motif; other site 886377008216 helix-hairpin-helix signature motif; other site 886377008217 substrate binding pocket [chemical binding]; other site 886377008218 active site 886377008219 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 886377008220 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 886377008221 catalytic triad [active] 886377008222 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377008223 putative hydrolase; Provisional; Region: PRK02113 886377008224 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 886377008225 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 886377008226 putative hydrolase; Provisional; Region: PRK11460 886377008227 dihydroorotase; Validated; Region: pyrC; PRK09357 886377008228 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 886377008229 active site 886377008230 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 886377008231 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 886377008232 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 886377008233 active site 886377008234 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 886377008235 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 886377008236 active site 886377008237 catalytic triad [active] 886377008238 oxyanion hole [active] 886377008239 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 886377008240 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 886377008241 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377008242 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377008243 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 886377008244 metal-dependent hydrolase; Provisional; Region: PRK13291 886377008245 DinB superfamily; Region: DinB_2; pfam12867 886377008246 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 886377008247 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377008248 Coenzyme A binding pocket [chemical binding]; other site 886377008249 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 886377008250 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377008251 putative catalytic residue [active] 886377008252 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 886377008253 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 886377008254 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 886377008255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377008256 Walker A/P-loop; other site 886377008257 ATP binding site [chemical binding]; other site 886377008258 Q-loop/lid; other site 886377008259 ABC transporter signature motif; other site 886377008260 Walker B; other site 886377008261 D-loop; other site 886377008262 H-loop/switch region; other site 886377008263 transcription antitermination factor NusB; Region: nusB; TIGR01951 886377008264 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 886377008265 Preprotein translocase subunit; Region: YajC; pfam02699 886377008266 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377008267 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377008268 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 886377008269 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377008270 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 886377008271 Walker A/P-loop; other site 886377008272 ATP binding site [chemical binding]; other site 886377008273 Q-loop/lid; other site 886377008274 ABC transporter signature motif; other site 886377008275 Walker B; other site 886377008276 D-loop; other site 886377008277 H-loop/switch region; other site 886377008278 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 886377008279 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 886377008280 dimer interface [polypeptide binding]; other site 886377008281 decamer (pentamer of dimers) interface [polypeptide binding]; other site 886377008282 catalytic triad [active] 886377008283 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 886377008284 DNA-binding site [nucleotide binding]; DNA binding site 886377008285 RNA-binding motif; other site 886377008286 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 886377008287 active site 886377008288 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 886377008289 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 886377008290 methionine sulfoxide reductase A; Provisional; Region: PRK14054 886377008291 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 886377008292 homodecamer interface [polypeptide binding]; other site 886377008293 GTP cyclohydrolase I; Provisional; Region: PLN03044 886377008294 active site 886377008295 putative catalytic site residues [active] 886377008296 zinc binding site [ion binding]; other site 886377008297 GTP-CH-I/GFRP interaction surface; other site 886377008298 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377008299 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 886377008300 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377008301 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 886377008302 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 886377008303 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 886377008304 putative ligand binding site [chemical binding]; other site 886377008305 NAD binding site [chemical binding]; other site 886377008306 dimerization interface [polypeptide binding]; other site 886377008307 catalytic site [active] 886377008308 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 886377008309 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377008310 catalytic residue [active] 886377008311 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 886377008312 NAD(P) binding site [chemical binding]; other site 886377008313 4Fe-4S binding domain; Region: Fer4; pfam00037 886377008314 GTP-binding protein YchF; Reviewed; Region: PRK09601 886377008315 YchF GTPase; Region: YchF; cd01900 886377008316 G1 box; other site 886377008317 GTP/Mg2+ binding site [chemical binding]; other site 886377008318 Switch I region; other site 886377008319 G2 box; other site 886377008320 Switch II region; other site 886377008321 G3 box; other site 886377008322 G4 box; other site 886377008323 G5 box; other site 886377008324 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 886377008325 EamA-like transporter family; Region: EamA; pfam00892 886377008326 EamA-like transporter family; Region: EamA; pfam00892 886377008327 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 886377008328 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 886377008329 ATP binding site [chemical binding]; other site 886377008330 Mg2+ binding site [ion binding]; other site 886377008331 G-X-G motif; other site 886377008332 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 886377008333 ATP binding site [chemical binding]; other site 886377008334 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 886377008335 active site 886377008336 putative metal-binding site [ion binding]; other site 886377008337 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 886377008338 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 886377008339 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; cl00148 886377008340 CAP-like domain; other site 886377008341 active site 886377008342 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 886377008343 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 886377008344 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 886377008345 non-specific DNA binding site [nucleotide binding]; other site 886377008346 salt bridge; other site 886377008347 sequence-specific DNA binding site [nucleotide binding]; other site 886377008348 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 886377008349 putative active site [active] 886377008350 Zn binding site [ion binding]; other site 886377008351 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 886377008352 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 886377008353 putative DNA binding site [nucleotide binding]; other site 886377008354 putative Zn2+ binding site [ion binding]; other site 886377008355 AsnC family; Region: AsnC_trans_reg; pfam01037 886377008356 DinB superfamily; Region: DinB_2; pfam12867 886377008357 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 886377008358 active site 886377008359 dimer interface [polypeptide binding]; other site 886377008360 metal binding site [ion binding]; metal-binding site 886377008361 Proline dehydrogenase; Region: Pro_dh; cl03282 886377008362 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377008363 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 886377008364 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 886377008365 putative active site [active] 886377008366 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 886377008367 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377008368 Walker A/P-loop; other site 886377008369 ATP binding site [chemical binding]; other site 886377008370 Q-loop/lid; other site 886377008371 ABC transporter signature motif; other site 886377008372 Walker B; other site 886377008373 D-loop; other site 886377008374 H-loop/switch region; other site 886377008375 HTH domain; Region: HTH_11; cl17392 886377008376 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377008377 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377008378 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 886377008379 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 886377008380 hexamer interface [polypeptide binding]; other site 886377008381 ligand binding site [chemical binding]; other site 886377008382 putative active site [active] 886377008383 NAD(P) binding site [chemical binding]; other site 886377008384 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 886377008385 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 886377008386 AAA domain; Region: AAA_18; pfam13238 886377008387 Walker A motif; other site 886377008388 ATP binding site [chemical binding]; other site 886377008389 Response regulator receiver domain; Region: Response_reg; pfam00072 886377008390 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 886377008391 active site 886377008392 phosphorylation site [posttranslational modification] 886377008393 intermolecular recognition site; other site 886377008394 dimerization interface [polypeptide binding]; other site 886377008395 PglZ domain; Region: PglZ; pfam08665 886377008396 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 886377008397 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 886377008398 Zn2+ binding site [ion binding]; other site 886377008399 Mg2+ binding site [ion binding]; other site 886377008400 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 886377008401 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 886377008402 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 886377008403 trimer interface [polypeptide binding]; other site 886377008404 active site 886377008405 UDP-GlcNAc binding site [chemical binding]; other site 886377008406 lipid binding site [chemical binding]; lipid-binding site 886377008407 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 886377008408 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 886377008409 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 886377008410 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 886377008411 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 886377008412 active site 886377008413 elongation factor P; Validated; Region: PRK00529 886377008414 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 886377008415 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 886377008416 RNA binding site [nucleotide binding]; other site 886377008417 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 886377008418 RNA binding site [nucleotide binding]; other site 886377008419 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 886377008420 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 886377008421 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 886377008422 trimer interface [polypeptide binding]; other site 886377008423 active site 886377008424 UDP-GlcNAc binding site [chemical binding]; other site 886377008425 lipid binding site [chemical binding]; lipid-binding site 886377008426 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 886377008427 CoA binding domain; Region: CoA_binding; smart00881 886377008428 CoA-ligase; Region: Ligase_CoA; pfam00549 886377008429 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 886377008430 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 886377008431 NAD(P) binding site [chemical binding]; other site 886377008432 homotetramer interface [polypeptide binding]; other site 886377008433 homodimer interface [polypeptide binding]; other site 886377008434 active site 886377008435 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 886377008436 metal ion-dependent adhesion site (MIDAS); other site 886377008437 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 886377008438 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 886377008439 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 886377008440 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 886377008441 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 886377008442 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 886377008443 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 886377008444 histidinol dehydrogenase; Region: hisD; TIGR00069 886377008445 NAD binding site [chemical binding]; other site 886377008446 dimerization interface [polypeptide binding]; other site 886377008447 product binding site; other site 886377008448 substrate binding site [chemical binding]; other site 886377008449 zinc binding site [ion binding]; other site 886377008450 catalytic residues [active] 886377008451 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 886377008452 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 886377008453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008454 homodimer interface [polypeptide binding]; other site 886377008455 catalytic residue [active] 886377008456 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 886377008457 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 886377008458 active site 886377008459 motif I; other site 886377008460 motif II; other site 886377008461 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 886377008462 putative active site pocket [active] 886377008463 4-fold oligomerization interface [polypeptide binding]; other site 886377008464 metal binding residues [ion binding]; metal-binding site 886377008465 3-fold/trimer interface [polypeptide binding]; other site 886377008466 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 886377008467 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 886377008468 putative active site [active] 886377008469 oxyanion strand; other site 886377008470 catalytic triad [active] 886377008471 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 886377008472 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 886377008473 catalytic residues [active] 886377008474 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 886377008475 DinB superfamily; Region: DinB_2; pfam12867 886377008476 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 886377008477 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 886377008478 substrate binding site [chemical binding]; other site 886377008479 glutamase interaction surface [polypeptide binding]; other site 886377008480 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 886377008481 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 886377008482 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 886377008483 metal binding site [ion binding]; metal-binding site 886377008484 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 886377008485 metal ion-dependent adhesion site (MIDAS); other site 886377008486 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 886377008487 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 886377008488 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 886377008489 dimer interface [polypeptide binding]; other site 886377008490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008491 catalytic residue [active] 886377008492 serine O-acetyltransferase; Region: cysE; TIGR01172 886377008493 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 886377008494 trimer interface [polypeptide binding]; other site 886377008495 active site 886377008496 substrate binding site [chemical binding]; other site 886377008497 CoA binding site [chemical binding]; other site 886377008498 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 886377008499 Protein of unknown function DUF72; Region: DUF72; pfam01904 886377008500 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 886377008501 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 886377008502 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 886377008503 active site 886377008504 dimer interface [polypeptide binding]; other site 886377008505 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377008506 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 886377008507 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 886377008508 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377008509 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 886377008510 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 886377008511 DNA binding residues [nucleotide binding] 886377008512 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 886377008513 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 886377008514 ATP binding site [chemical binding]; other site 886377008515 putative Mg++ binding site [ion binding]; other site 886377008516 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 886377008517 nucleotide binding region [chemical binding]; other site 886377008518 ATP-binding site [chemical binding]; other site 886377008519 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 886377008520 MutS domain III; Region: MutS_III; pfam05192 886377008521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377008522 Walker A/P-loop; other site 886377008523 ATP binding site [chemical binding]; other site 886377008524 Q-loop/lid; other site 886377008525 ABC transporter signature motif; other site 886377008526 Walker B; other site 886377008527 D-loop; other site 886377008528 H-loop/switch region; other site 886377008529 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 886377008530 ligand binding site [chemical binding]; other site 886377008531 active site 886377008532 UGI interface [polypeptide binding]; other site 886377008533 catalytic site [active] 886377008534 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 886377008535 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 886377008536 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 886377008537 putative rRNA binding site [nucleotide binding]; other site 886377008538 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 886377008539 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 886377008540 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 886377008541 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 886377008542 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 886377008543 tetramer interface [polypeptide binding]; other site 886377008544 TPP-binding site [chemical binding]; other site 886377008545 heterodimer interface [polypeptide binding]; other site 886377008546 phosphorylation loop region [posttranslational modification] 886377008547 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 886377008548 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 886377008549 alpha subunit interface [polypeptide binding]; other site 886377008550 TPP binding site [chemical binding]; other site 886377008551 heterodimer interface [polypeptide binding]; other site 886377008552 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377008553 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377008554 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 886377008555 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377008556 ligand binding site [chemical binding]; other site 886377008557 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 886377008558 EamA-like transporter family; Region: EamA; pfam00892 886377008559 EamA-like transporter family; Region: EamA; pfam00892 886377008560 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 886377008561 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 886377008563 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 886377008564 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 886377008565 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 886377008566 non-specific DNA binding site [nucleotide binding]; other site 886377008567 salt bridge; other site 886377008568 sequence-specific DNA binding site [nucleotide binding]; other site 886377008569 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 886377008570 Predicted transcriptional regulator [Transcription]; Region: COG2932 886377008571 Catalytic site [active] 886377008572 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 886377008573 ATP-grasp domain; Region: ATP-grasp_4; cl17255 886377008574 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 886377008575 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 886377008576 Protein of unknown function, DUF479; Region: DUF479; cl01203 886377008577 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 886377008578 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 886377008579 active site 886377008580 substrate binding site [chemical binding]; other site 886377008581 metal binding site [ion binding]; metal-binding site 886377008582 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 886377008583 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 886377008584 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 886377008585 putative acyl-acceptor binding pocket; other site 886377008586 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 886377008587 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 886377008588 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 886377008589 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377008590 catalytic residues [active] 886377008591 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 886377008592 FAD binding domain; Region: FAD_binding_4; pfam01565 886377008593 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 886377008594 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377008595 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 886377008596 putative active site [active] 886377008597 putative metal binding site [ion binding]; other site 886377008598 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 886377008599 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 886377008600 Tetramer interface [polypeptide binding]; other site 886377008601 active site 886377008602 FMN-binding site [chemical binding]; other site 886377008603 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 886377008604 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 886377008605 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 886377008606 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 886377008607 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377008608 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 886377008609 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 886377008610 Protein of unknown function, DUF393; Region: DUF393; pfam04134 886377008611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377008612 Coenzyme A binding pocket [chemical binding]; other site 886377008613 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 886377008614 Suppression of tumorigenicity 7; Region: ST7; cd11557 886377008615 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377008616 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377008617 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 886377008618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 886377008619 DNA-binding site [nucleotide binding]; DNA binding site 886377008620 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 886377008621 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 886377008622 NAD(P) binding site [chemical binding]; other site 886377008623 catalytic residues [active] 886377008624 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 886377008625 Ligand Binding Site [chemical binding]; other site 886377008626 Domain of unknown function (DUF4209); Region: DUF4209; pfam13910 886377008627 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 886377008628 non-specific DNA binding site [nucleotide binding]; other site 886377008629 salt bridge; other site 886377008630 sequence-specific DNA binding site [nucleotide binding]; other site 886377008631 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 886377008632 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 886377008633 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 886377008634 putative active site [active] 886377008635 putative catalytic site [active] 886377008636 putative Mg binding site IVb [ion binding]; other site 886377008637 putative phosphate binding site [ion binding]; other site 886377008638 putative DNA binding site [nucleotide binding]; other site 886377008639 putative Mg binding site IVa [ion binding]; other site 886377008640 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377008641 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377008642 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377008643 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 886377008644 binding surface 886377008645 TPR motif; other site 886377008646 TPR repeat; Region: TPR_11; pfam13414 886377008647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 886377008648 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 886377008649 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 886377008650 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_5; cd07238 886377008651 dimer interface [polypeptide binding]; other site 886377008652 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377008653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 886377008654 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 886377008655 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 886377008656 DoxX-like family; Region: DoxX_2; pfam13564 886377008657 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 886377008658 hydrophobic ligand binding site; other site 886377008659 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 886377008660 dimerization interface [polypeptide binding]; other site 886377008661 putative DNA binding site [nucleotide binding]; other site 886377008662 putative Zn2+ binding site [ion binding]; other site 886377008663 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377008664 PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to...; Region: PA_GCPII_like; cd02121 886377008665 apical/protease domain interface [polypeptide binding]; other site 886377008666 substrate binding [chemical binding]; other site 886377008667 dimer interface [polypeptide binding]; other site 886377008668 M28 Zn-peptidase prostate-specific membrane antigen; Region: M28_PSMA_like; cd08022 886377008669 dimer interface [polypeptide binding]; other site 886377008670 Peptidase family M28; Region: Peptidase_M28; pfam04389 886377008671 active site 886377008672 metal binding site [ion binding]; metal-binding site 886377008673 Transferrin receptor-like dimerisation domain; Region: TFR_dimer; pfam04253 886377008674 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 886377008675 MPN+ (JAMM) motif; other site 886377008676 Zinc-binding site [ion binding]; other site 886377008677 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 886377008678 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377008679 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 886377008680 ATP binding site [chemical binding]; other site 886377008681 Mg2+ binding site [ion binding]; other site 886377008682 G-X-G motif; other site 886377008683 DNA methylase; Region: N6_N4_Mtase; pfam01555 886377008684 DNA methylase; Region: N6_N4_Mtase; cl17433 886377008685 Domain of unknown function DUF302; Region: DUF302; cl01364 886377008686 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 886377008687 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377008688 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377008689 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 886377008690 SnoaL-like domain; Region: SnoaL_2; pfam12680 886377008691 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 886377008693 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 886377008694 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 886377008695 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 886377008696 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 886377008697 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 886377008698 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 886377008699 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 886377008700 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 886377008701 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 886377008702 tetramer interface [polypeptide binding]; other site 886377008703 TPP-binding site [chemical binding]; other site 886377008704 heterodimer interface [polypeptide binding]; other site 886377008705 phosphorylation loop region [posttranslational modification] 886377008706 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 886377008707 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 886377008708 PYR/PP interface [polypeptide binding]; other site 886377008709 dimer interface [polypeptide binding]; other site 886377008710 TPP binding site [chemical binding]; other site 886377008711 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377008712 Predicted membrane protein [Function unknown]; Region: COG2259 886377008713 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 886377008714 DNA polymerase III, delta subunit; Region: holA; TIGR01128 886377008715 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 886377008716 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 886377008717 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 886377008718 Probable Catalytic site; other site 886377008719 metal-binding site 886377008720 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377008721 ligand binding site [chemical binding]; other site 886377008722 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 886377008723 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377008724 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 886377008725 Part of AAA domain; Region: AAA_19; pfam13245 886377008726 Family description; Region: UvrD_C_2; pfam13538 886377008727 DsrE/DsrF-like family; Region: DrsE; pfam02635 886377008728 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 886377008729 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 886377008730 metal binding site [ion binding]; metal-binding site 886377008731 putative dimer interface [polypeptide binding]; other site 886377008732 Transposase; Region: DEDD_Tnp_IS110; pfam01548 886377008733 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 886377008734 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 886377008735 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 886377008736 active site 886377008737 FMN binding site [chemical binding]; other site 886377008738 substrate binding site [chemical binding]; other site 886377008739 3Fe-4S cluster binding site [ion binding]; other site 886377008740 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 886377008741 Patatin-like phospholipase; Region: Patatin; pfam01734 886377008742 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 886377008743 Zn binding site [ion binding]; other site 886377008744 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 886377008745 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 886377008746 generic binding surface II; other site 886377008747 ssDNA binding site; other site 886377008748 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 886377008749 ATP binding site [chemical binding]; other site 886377008750 putative Mg++ binding site [ion binding]; other site 886377008751 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 886377008752 nucleotide binding region [chemical binding]; other site 886377008753 ATP-binding site [chemical binding]; other site 886377008754 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 886377008755 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 886377008756 substrate binding site [chemical binding]; other site 886377008757 ligand binding site [chemical binding]; other site 886377008758 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 886377008759 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 886377008760 substrate binding site [chemical binding]; other site 886377008761 (R)-citramalate synthase; Provisional; Region: PRK09389 886377008762 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 886377008763 active site 886377008764 catalytic residues [active] 886377008765 metal binding site [ion binding]; metal-binding site 886377008766 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 886377008767 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 886377008768 tartrate dehydrogenase; Region: TTC; TIGR02089 886377008769 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 886377008770 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 886377008771 tetrameric interface [polypeptide binding]; other site 886377008772 activator binding site; other site 886377008773 NADP binding site [chemical binding]; other site 886377008774 substrate binding site [chemical binding]; other site 886377008775 catalytic residues [active] 886377008776 threonine dehydratase; Validated; Region: PRK08639 886377008777 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 886377008778 tetramer interface [polypeptide binding]; other site 886377008779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008780 catalytic residue [active] 886377008781 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 886377008782 putative Ile/Val binding site [chemical binding]; other site 886377008783 ketol-acid reductoisomerase; Validated; Region: PRK05225 886377008784 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 886377008785 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 886377008786 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 886377008787 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 886377008788 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 886377008789 putative valine binding site [chemical binding]; other site 886377008790 dimer interface [polypeptide binding]; other site 886377008791 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 886377008792 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 886377008793 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 886377008794 PYR/PP interface [polypeptide binding]; other site 886377008795 dimer interface [polypeptide binding]; other site 886377008796 TPP binding site [chemical binding]; other site 886377008797 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 886377008798 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 886377008799 TPP-binding site [chemical binding]; other site 886377008800 dimer interface [polypeptide binding]; other site 886377008801 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 886377008802 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 886377008803 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 886377008804 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 886377008805 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_1; cd10801 886377008806 putative active site [active] 886377008807 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 886377008808 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 886377008809 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 886377008810 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 886377008811 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 886377008812 Walker A motif; other site 886377008813 ATP binding site [chemical binding]; other site 886377008814 Walker B motif; other site 886377008815 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 886377008816 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 886377008817 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 886377008818 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 886377008819 active site 886377008820 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 886377008821 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 886377008822 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 886377008823 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 886377008824 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 886377008825 Ligand Binding Site [chemical binding]; other site 886377008826 TilS substrate C-terminal domain; Region: TilS_C; smart00977 886377008827 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008828 Ca2+ binding site [ion binding]; other site 886377008829 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008830 Ca2+ binding site [ion binding]; other site 886377008831 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008832 Ca2+ binding site [ion binding]; other site 886377008833 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 886377008834 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377008835 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 886377008836 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 886377008837 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 886377008838 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 886377008839 Predicted flavoprotein [General function prediction only]; Region: COG0431 886377008840 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 886377008841 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 886377008842 Acyltransferase family; Region: Acyl_transf_3; pfam01757 886377008843 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 886377008844 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 886377008845 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377008846 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 886377008847 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008848 Ca2+ binding site [ion binding]; other site 886377008849 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008850 Ca2+ binding site [ion binding]; other site 886377008851 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377008852 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 886377008853 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 886377008854 putative DNA binding site [nucleotide binding]; other site 886377008855 putative Zn2+ binding site [ion binding]; other site 886377008856 AsnC family; Region: AsnC_trans_reg; pfam01037 886377008857 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 886377008858 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 886377008859 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377008860 catalytic residue [active] 886377008861 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 886377008862 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 886377008863 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 886377008864 dimer interface [polypeptide binding]; other site 886377008865 decamer (pentamer of dimers) interface [polypeptide binding]; other site 886377008866 catalytic triad [active] 886377008867 peroxidatic and resolving cysteines [active] 886377008868 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 886377008869 catalytic residues [active] 886377008870 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 886377008871 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 886377008872 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 886377008873 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 886377008874 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 886377008875 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 886377008876 Predicted permeases [General function prediction only]; Region: COG0795 886377008877 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 886377008878 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 886377008879 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 886377008880 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 886377008881 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 886377008882 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 886377008883 dimerization interface [polypeptide binding]; other site 886377008884 active site 886377008885 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 886377008886 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 886377008887 N-terminal plug; other site 886377008888 ligand-binding site [chemical binding]; other site 886377008889 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 886377008890 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 886377008891 putative ligand binding site [chemical binding]; other site 886377008892 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 886377008893 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 886377008894 ABC-ATPase subunit interface; other site 886377008895 dimer interface [polypeptide binding]; other site 886377008896 putative PBP binding regions; other site 886377008897 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 886377008898 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 886377008899 Walker A/P-loop; other site 886377008900 ATP binding site [chemical binding]; other site 886377008901 Q-loop/lid; other site 886377008902 ABC transporter signature motif; other site 886377008903 Walker B; other site 886377008904 D-loop; other site 886377008905 H-loop/switch region; other site 886377008906 RmuC family; Region: RmuC; pfam02646 886377008907 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 886377008908 putative active site [active] 886377008909 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 886377008910 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 886377008911 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 886377008912 putative active site [active] 886377008913 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 886377008914 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 886377008915 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 886377008916 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 886377008917 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 886377008918 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 886377008919 Protein of unknown function, DUF399; Region: DUF399; pfam04187 886377008920 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 886377008921 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377008922 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 886377008923 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 886377008924 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 886377008925 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 886377008926 S-adenosylmethionine binding site [chemical binding]; other site 886377008927 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 886377008928 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 886377008929 non-specific DNA binding site [nucleotide binding]; other site 886377008930 salt bridge; other site 886377008931 sequence-specific DNA binding site [nucleotide binding]; other site 886377008932 Tic20-like protein; Region: Tic20; pfam09685 886377008933 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377008934 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377008935 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 886377008936 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377008937 active site 886377008938 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377008939 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377008940 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377008941 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 886377008942 TPR motif; other site 886377008943 binding surface 886377008944 TPR repeat; Region: TPR_11; pfam13414 886377008945 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 886377008946 MoaE interaction surface [polypeptide binding]; other site 886377008947 MoeB interaction surface [polypeptide binding]; other site 886377008948 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 886377008949 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 886377008950 metal ion-dependent adhesion site (MIDAS); other site 886377008951 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377008952 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377008953 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 886377008954 putative active site [active] 886377008955 Zn binding site [ion binding]; other site 886377008956 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 886377008957 amidase catalytic site [active] 886377008958 Zn binding residues [ion binding]; other site 886377008959 substrate binding site [chemical binding]; other site 886377008960 Transposase; Region: DEDD_Tnp_IS110; pfam01548 886377008961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 886377008962 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 886377008963 3D domain; Region: 3D; cl01439 886377008964 Family description; Region: VCBS; pfam13517 886377008965 Family description; Region: VCBS; pfam13517 886377008966 Family description; Region: VCBS; pfam13517 886377008967 Pirin-related protein [General function prediction only]; Region: COG1741 886377008968 Pirin; Region: Pirin; pfam02678 886377008969 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 886377008970 Beta-lactamase; Region: Beta-lactamase; pfam00144 886377008971 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377008972 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 886377008973 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 886377008974 inhibitor-cofactor binding pocket; inhibition site 886377008975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008976 catalytic residue [active] 886377008977 hypothetical protein; Provisional; Region: PRK10621 886377008978 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 886377008979 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 886377008980 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 886377008981 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 886377008982 Int/Topo IB signature motif; other site 886377008985 HipA-like N-terminal domain; Region: HipA_N; pfam07805 886377008986 HipA-like C-terminal domain; Region: HipA_C; pfam07804 886377008987 HipA N-terminal domain; Region: Couple_hipA; pfam13657 886377008988 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 886377008989 non-specific DNA binding site [nucleotide binding]; other site 886377008990 salt bridge; other site 886377008991 sequence-specific DNA binding site [nucleotide binding]; other site 886377008992 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 886377008993 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 886377008994 transmembrane helices; other site 886377008995 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 886377008996 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 886377008997 nucleotide binding site [chemical binding]; other site 886377008998 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 886377008999 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377009000 putative substrate translocation pore; other site 886377009001 glucose/galactose transporter; Region: gluP; TIGR01272 886377009002 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 886377009003 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 886377009004 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377009005 Secretin and TonB N terminus short domain; Region: STN; pfam07660 886377009006 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377009007 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377009008 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 886377009009 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 886377009010 FecR protein; Region: FecR; pfam04773 886377009011 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377009012 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377009013 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377009014 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 886377009015 DNA binding residues [nucleotide binding] 886377009017 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377009018 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 886377009019 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 886377009020 N-terminal plug; other site 886377009021 ligand-binding site [chemical binding]; other site 886377009022 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 886377009023 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 886377009024 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 886377009026 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 886377009027 nucleotide binding site [chemical binding]; other site 886377009029 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 886377009030 Na binding site [ion binding]; other site 886377009031 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 886377009032 putative catalytic site [active] 886377009033 putative metal binding site [ion binding]; other site 886377009034 putative phosphate binding site [ion binding]; other site 886377009035 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 886377009036 HEAT repeats; Region: HEAT_2; pfam13646 886377009037 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377009038 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 886377009039 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377009040 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377009041 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 886377009042 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 886377009043 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 886377009044 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 886377009045 putative substrate translocation pore; other site 886377009046 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 886377009047 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 886377009048 dimerization interface [polypeptide binding]; other site 886377009049 putative active cleft [active] 886377009050 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377009051 SusD family; Region: SusD; pfam07980 886377009052 Secretin and TonB N terminus short domain; Region: STN; pfam07660 886377009053 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377009054 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377009055 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377009056 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 886377009057 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377009058 FecR protein; Region: FecR; pfam04773 886377009059 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377009060 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377009061 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 886377009062 dimerization interface [polypeptide binding]; other site 886377009063 DNA binding residues [nucleotide binding] 886377009064 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377009065 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 886377009066 active site 886377009067 phosphorylation site [posttranslational modification] 886377009068 intermolecular recognition site; other site 886377009069 dimerization interface [polypeptide binding]; other site 886377009070 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 886377009071 DNA binding residues [nucleotide binding] 886377009072 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 886377009073 Histidine kinase; Region: HisKA_3; pfam07730 886377009074 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 886377009075 ATP binding site [chemical binding]; other site 886377009076 Mg2+ binding site [ion binding]; other site 886377009077 G-X-G motif; other site 886377009078 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 886377009079 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 886377009080 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 886377009081 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 886377009082 aconitate hydratase; Validated; Region: PRK07229 886377009083 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 886377009084 substrate binding site [chemical binding]; other site 886377009085 ligand binding site [chemical binding]; other site 886377009086 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 886377009087 substrate binding site [chemical binding]; other site 886377009088 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377009089 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 886377009090 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377009091 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 886377009092 HlyD family secretion protein; Region: HlyD_3; pfam13437 886377009093 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 886377009094 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 886377009095 HEAT repeats; Region: HEAT_2; pfam13646 886377009096 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 886377009097 protein binding surface [polypeptide binding]; other site 886377009098 HEAT repeats; Region: HEAT_2; pfam13646 886377009099 HEAT repeats; Region: HEAT_2; pfam13646 886377009100 HEAT repeats; Region: HEAT_2; pfam13646 886377009101 Cytochrome c; Region: Cytochrom_C; pfam00034 886377009102 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 886377009103 Interdomain contacts; other site 886377009104 Cytokine receptor motif; other site 886377009105 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 886377009106 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 886377009107 active site 886377009108 putative substrate binding pocket [chemical binding]; other site 886377009109 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377009110 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377009111 starch binding outer membrane protein SusD; Region: SusD; cl17845 886377009112 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377009113 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377009114 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 886377009115 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 886377009116 FecR protein; Region: FecR; pfam04773 886377009117 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377009118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377009119 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 886377009120 DNA binding residues [nucleotide binding] 886377009121 intracellular protease, PfpI family; Region: PfpI; TIGR01382 886377009122 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 886377009123 conserved cys residue [active] 886377009124 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377009125 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377009126 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 886377009127 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 886377009128 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 886377009129 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 886377009130 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 886377009131 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 886377009132 dimer interface [polypeptide binding]; other site 886377009133 putative functional site; other site 886377009134 putative MPT binding site; other site 886377009135 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 886377009136 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 886377009137 FeS/SAM binding site; other site 886377009138 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 886377009139 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 886377009140 MoaC family. 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 derivative to the precursor...; Region: MoaC; cd00528 886377009141 trimer interface [polypeptide binding]; other site 886377009142 dimer interface [polypeptide binding]; other site 886377009143 putative active site [active] 886377009144 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 886377009145 MPT binding site; other site 886377009146 trimer interface [polypeptide binding]; other site 886377009147 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 886377009148 MoaE homodimer interface [polypeptide binding]; other site 886377009149 MoaD interaction [polypeptide binding]; other site 886377009150 active site residues [active] 886377009151 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 886377009152 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 886377009153 ATP binding site [chemical binding]; other site 886377009154 substrate interface [chemical binding]; other site 886377009155 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 886377009156 active site residue [active] 886377009157 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 886377009158 MoaE interaction surface [polypeptide binding]; other site 886377009159 MoeB interaction surface [polypeptide binding]; other site 886377009160 thiocarboxylated glycine; other site 886377009161 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 886377009162 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 886377009163 Ligand binding site; other site 886377009164 metal-binding site 886377009165 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 886377009166 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 886377009167 XdhC Rossmann domain; Region: XdhC_C; pfam13478 886377009168 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 886377009169 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 886377009170 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377009171 catalytic residue [active] 886377009172 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 886377009173 dimerization interface [polypeptide binding]; other site 886377009174 putative DNA binding site [nucleotide binding]; other site 886377009175 putative Zn2+ binding site [ion binding]; other site 886377009176 Low molecular weight phosphatase family; Region: LMWPc; cl00105 886377009177 active site 886377009178 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 886377009179 arsenical-resistance protein; Region: acr3; TIGR00832 886377009180 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377009181 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 886377009182 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 886377009183 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 886377009184 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377009185 catalytic residues [active] 886377009186 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 886377009187 dimer interface [polypeptide binding]; other site 886377009188 putative tRNA-binding site [nucleotide binding]; other site 886377009190 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 886377009191 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 886377009192 Sulfate transporter family; Region: Sulfate_transp; pfam00916 886377009193 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 886377009194 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 886377009195 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 886377009196 TrkA-C domain; Region: TrkA_C; pfam02080 886377009197 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 886377009198 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377009199 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 886377009200 active site 886377009201 phosphorylation site [posttranslational modification] 886377009202 intermolecular recognition site; other site 886377009203 dimerization interface [polypeptide binding]; other site 886377009204 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 886377009205 DNA binding residues [nucleotide binding] 886377009206 dimerization interface [polypeptide binding]; other site 886377009207 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 886377009208 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 886377009209 nucleotide binding site [chemical binding]; other site 886377009210 NEF interaction site [polypeptide binding]; other site 886377009211 SBD interface [polypeptide binding]; other site 886377009212 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 886377009213 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 886377009214 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 886377009215 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 886377009216 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 886377009217 oligomerization interface [polypeptide binding]; other site 886377009218 active site 886377009219 metal binding site [ion binding]; metal-binding site 886377009220 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 886377009221 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 886377009222 active site 886377009224 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 886377009225 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 886377009226 active site 886377009227 catalytic residues [active] 886377009228 metal binding site [ion binding]; metal-binding site 886377009229 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 886377009230 tartrate dehydrogenase; Region: TTC; TIGR02089 886377009231 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 886377009232 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 886377009233 catalytic residues [active] 886377009234 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 886377009235 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 886377009236 putative tRNA-binding site [nucleotide binding]; other site 886377009237 B3/4 domain; Region: B3_4; pfam03483 886377009238 tRNA synthetase B5 domain; Region: B5; pfam03484 886377009239 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 886377009240 dimer interface [polypeptide binding]; other site 886377009241 motif 1; other site 886377009242 motif 3; other site 886377009243 motif 2; other site 886377009244 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 886377009245 Fasciclin domain; Region: Fasciclin; pfam02469 886377009246 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 886377009247 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 886377009248 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 886377009249 Walker A/P-loop; other site 886377009250 ATP binding site [chemical binding]; other site 886377009251 Q-loop/lid; other site 886377009252 ABC transporter signature motif; other site 886377009253 Walker B; other site 886377009254 D-loop; other site 886377009255 H-loop/switch region; other site 886377009256 ABC transporter; Region: ABC_tran_2; pfam12848 886377009257 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 886377009258 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 886377009259 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 886377009260 active site 886377009261 intersubunit interactions; other site 886377009262 catalytic residue [active] 886377009263 short chain dehydrogenase; Provisional; Region: PRK06914 886377009264 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 886377009265 NADP binding site [chemical binding]; other site 886377009266 active site 886377009267 steroid binding site; other site 886377009268 Glutamine cyclotransferase; Region: Glu_cyclase_2; pfam05096 886377009269 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 886377009270 active site 1 [active] 886377009271 active site 2 [active] 886377009272 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377009273 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 886377009274 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 886377009275 active site 886377009276 putative substrate binding region [chemical binding]; other site 886377009277 Cna protein B-type domain; Region: Cna_B_2; pfam13715 886377009278 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 886377009279 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377009280 active site 886377009281 phosphorylation site [posttranslational modification] 886377009282 intermolecular recognition site; other site 886377009283 dimerization interface [polypeptide binding]; other site 886377009284 LytTr DNA-binding domain; Region: LytTR; smart00850 886377009285 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 886377009286 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 886377009287 ATP binding site [chemical binding]; other site 886377009288 Mg2+ binding site [ion binding]; other site 886377009289 G-X-G motif; other site 886377009290 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377009291 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 886377009292 active site 886377009293 phosphorylation site [posttranslational modification] 886377009294 intermolecular recognition site; other site 886377009295 dimerization interface [polypeptide binding]; other site 886377009296 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 886377009297 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 886377009298 dimer interface [polypeptide binding]; other site 886377009299 active site 886377009300 glycine-pyridoxal phosphate binding site [chemical binding]; other site 886377009301 folate binding site [chemical binding]; other site 886377009302 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 886377009303 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 886377009304 Clp amino terminal domain; Region: Clp_N; pfam02861 886377009305 Clp amino terminal domain; Region: Clp_N; pfam02861 886377009306 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 886377009307 Walker A motif; other site 886377009308 ATP binding site [chemical binding]; other site 886377009309 Walker B motif; other site 886377009310 arginine finger; other site 886377009311 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 886377009312 Walker A motif; other site 886377009313 ATP binding site [chemical binding]; other site 886377009314 Walker B motif; other site 886377009315 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 886377009316 fructuronate transporter; Provisional; Region: PRK10034; cl15264 886377009317 GntP family permease; Region: GntP_permease; pfam02447 886377009318 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_1; cd02199 886377009319 homotrimer interaction site [polypeptide binding]; other site 886377009320 putative active site [active] 886377009321 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 886377009322 active site 886377009323 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 886377009324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377009325 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 886377009326 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 886377009327 active site 886377009328 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377009329 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 886377009330 catalytic core [active] 886377009331 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 886377009332 SmpB-tmRNA interface; other site 886377009333 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 886377009334 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 886377009335 S-adenosylmethionine binding site [chemical binding]; other site 886377009336 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377009337 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 886377009338 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 886377009339 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 886377009340 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 886377009341 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 886377009342 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 886377009343 Uncharacterized conserved protein [Function unknown]; Region: COG4198 886377009344 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 886377009345 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377009346 catalytic residue [active] 886377009347 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377009348 active site 886377009349 catalytic site [active] 886377009350 substrate binding site [chemical binding]; other site 886377009351 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 886377009352 GIY-YIG motif/motif A; other site 886377009353 active site 886377009354 catalytic site [active] 886377009355 putative DNA binding site [nucleotide binding]; other site 886377009356 metal binding site [ion binding]; metal-binding site 886377009357 Ion transport protein; Region: Ion_trans; pfam00520 886377009358 Ion channel; Region: Ion_trans_2; pfam07885 886377009359 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 886377009360 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 886377009361 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 886377009362 ATP-binding site [chemical binding]; other site 886377009363 Gluconate-6-phosphate binding site [chemical binding]; other site 886377009364 Shikimate kinase; Region: SKI; pfam01202 886377009365 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 886377009366 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 886377009367 active site 886377009368 phosphorylation site [posttranslational modification] 886377009369 intermolecular recognition site; other site 886377009370 dimerization interface [polypeptide binding]; other site 886377009371 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 886377009372 DNA binding site [nucleotide binding] 886377009373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377009374 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 886377009375 dimer interface [polypeptide binding]; other site 886377009376 phosphorylation site [posttranslational modification] 886377009377 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 886377009378 ATP binding site [chemical binding]; other site 886377009379 Mg2+ binding site [ion binding]; other site 886377009380 G-X-G motif; other site 886377009381 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 886377009382 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 886377009383 CoA-binding site [chemical binding]; other site 886377009384 ATP-binding [chemical binding]; other site 886377009385 YbbR-like protein; Region: YbbR; pfam07949 886377009386 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 886377009387 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 886377009388 active site 886377009389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377009390 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 886377009391 NAD(P) binding site [chemical binding]; other site 886377009392 active site 886377009393 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 886377009394 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 886377009395 Walker A/P-loop; other site 886377009396 ATP binding site [chemical binding]; other site 886377009397 Q-loop/lid; other site 886377009398 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 886377009399 ABC transporter signature motif; other site 886377009400 Walker B; other site 886377009401 D-loop; other site 886377009402 H-loop/switch region; other site 886377009403 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 886377009404 Flavoprotein; Region: Flavoprotein; pfam02441 886377009405 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 886377009406 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 886377009407 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 886377009408 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 886377009409 dihydrodipicolinate synthase; Region: dapA; TIGR00674 886377009410 dimer interface [polypeptide binding]; other site 886377009411 active site 886377009412 catalytic residue [active] 886377009413 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 886377009414 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 886377009415 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377009416 active site 886377009417 metal binding site [ion binding]; metal-binding site 886377009418 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377009419 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377009420 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377009421 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 886377009422 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 886377009423 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 886377009424 nucleotide binding pocket [chemical binding]; other site 886377009425 K-X-D-G motif; other site 886377009426 catalytic site [active] 886377009427 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 886377009428 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 886377009429 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 886377009430 Dimer interface [polypeptide binding]; other site 886377009431 BRCT sequence motif; other site 886377009432 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 886377009433 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 886377009434 S-adenosylmethionine binding site [chemical binding]; other site 886377009435 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 886377009436 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377009437 Coenzyme A binding pocket [chemical binding]; other site 886377009438 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 886377009439 catalytic motif [active] 886377009440 Zn binding site [ion binding]; other site 886377009441 RibD C-terminal domain; Region: RibD_C; pfam01872 886377009442 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 886377009443 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 886377009444 Uncharacterized conserved protein [Function unknown]; Region: COG1739 886377009445 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 886377009446 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 886377009447 active site