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(-) Description

Title :  CRYSTAL STRUCTURE OF THE R139W VARIANT OF HUMAN NAD(P)H:QUINONE OXIDOREDUCTASE
 
Authors :  W. D. Lienhart, E. Strandback, V. Gudipati, M. K. Uhl, D. M. Rantase, K. Z K. Gruber, P. Macheroux
Date :  10 Jun 15  (Deposition) - 29 Jun 16  (Release) - 26 Apr 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.09
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  B,C  (1x)
Biol. Unit 2:  A,D  (1x)
Keywords :  Nqo1, Fad, Flavoprotein, Oxidative Stress, Quinone Reductase, Drug Metabolism, Oxidoreductase, Single Amino Acid Exchange (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  W. D. Lienhart, E. Strandback, V. Gudipati, K. Koch, A. Binter, M. K. Uhl, D. M. Rantasa, B. Bourgeois, T. Madl, K. Zangger, K. Gruber, P. Macheroux
Catalytic Competence, Structure And Stability Of The Cancer-Associated R139W Variant Of The Human Nad(P)H:Quinon Oxidoreductase 1 (Nqo1).
Febs J. V. 284 1233 2017
PubMed-ID: 28236663  |  Reference-DOI: 10.1111/FEBS.14051

(-) Compounds

Molecule 1 - NAD(P)H DEHYDROGENASE [QUINONE] 1
    ChainsA, B, C, D
    EC Number1.6.5.2
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28A
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System VariantSTAR
    Expression System Vector TypePLASMID
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymAZOREDUCTASE, DT-DIAPHORASE, DTD, MENADIONE REDUCTASE, NAD(P)H:QUINONE OXIDOREDUCTASE 1, PHYLLOQUINONE REDUCTASE, QUINONE REDUCTASE 1, QR1, NADPH QUINONE OXIDOREDUCTASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x) BC 
Biological Unit 2 (1x)A  D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1BTB2Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2FAD4Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1BTB1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1BTB1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:12 , THR A:16 , SER A:17 , PHE A:18 , ASN A:19 , ALA A:21 , PRO A:103 , LEU A:104 , GLN A:105 , TRP A:106 , PHE A:107 , THR A:148 , THR A:149 , GLY A:150 , GLY A:151 , TYR A:156 , ILE A:193 , ARG A:201 , LEU A:205 , HOH A:2027 , HOH A:2278 , HOH A:2279 , HOH A:2280 , HOH A:2281 , HOH A:2284 , GLN D:67 , TYR D:68BINDING SITE FOR RESIDUE FAD A 1274
2AC2SOFTWAREGLN A:67 , TYR A:68 , HOH A:2114 , HOH A:2117 , HOH A:2119 , HOH A:2120 , HIS D:12 , THR D:16 , SER D:17 , PHE D:18 , ASN D:19 , ALA D:21 , PRO D:103 , LEU D:104 , GLN D:105 , TRP D:106 , PHE D:107 , THR D:148 , THR D:149 , GLY D:150 , GLY D:151 , TYR D:156 , ILE D:193 , ARG D:201 , LEU D:205 , HOH D:2172 , HOH D:2230 , HOH D:2231 , HOH D:2234BINDING SITE FOR RESIDUE FAD D 1274
3AC3SOFTWAREHIS B:12 , THR B:16 , SER B:17 , PHE B:18 , ASN B:19 , ALA B:21 , PRO B:103 , LEU B:104 , GLN B:105 , TRP B:106 , PHE B:107 , THR B:148 , THR B:149 , GLY B:150 , GLY B:151 , TYR B:156 , ILE B:193 , ARG B:201 , LEU B:205 , HOH B:2013 , HOH B:2025 , HOH B:2270 , HOH B:2271 , HOH B:2272 , HOH B:2274 , HOH B:2275 , GLN C:67BINDING SITE FOR RESIDUE FAD B 1274
4AC4SOFTWAREGLN B:67 , TYR B:68 , PRO B:69 , HOH B:2098 , HOH B:2100 , HOH B:2105 , HOH B:2106 , HIS C:12 , THR C:16 , SER C:17 , PHE C:18 , ASN C:19 , ALA C:21 , PRO C:103 , LEU C:104 , GLN C:105 , TRP C:106 , PHE C:107 , THR C:148 , THR C:149 , GLY C:150 , GLY C:151 , TYR C:156 , ILE C:193 , ARG C:201 , ILE C:202 , LEU C:205 , HOH C:2022 , HOH C:2253 , HOH C:2255 , HOH C:2256 , HOH C:2257BINDING SITE FOR RESIDUE FAD C 1274
5AC5SOFTWARELYS A:135 , TRP A:139 , HOH D:2124BINDING SITE FOR RESIDUE BTB D 1275
6AC6SOFTWARELYS B:135 , TRP B:139 , ASP C:134 , TRP C:139BINDING SITE FOR RESIDUE BTB C 1275

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5A4K)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5A4K)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5A4K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5A4K)

(-) Exons   (0, 0)

(no "Exon" information available for 5A4K)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:271
                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhhh..eeeeee..........hhhh...........hhhhhhhhhhhhh..hhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhh..........hhhhh.....eeeeeee....hhhhh......hhhhhhhhhhh..hhhhh.ee...eee.hhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhh...........hhhhhhhhh......................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5a4k A   3 GRRALIVLAHSERTSFNYAMKEAAAAALKKKGWEVVESDLYAMNFNPIISRKDITGKLKDPANFQYPAESVLAYKEGHLSPDIVAEQKKLEAADLVIFQFPLQWFGVPAILKGWFERVFIGEFAYTYAAMYDKGPFWSKKAVLSITTGGSGSMYSLQGIHGDMNVILWPIQSGILHFCGFQVLEPQLTYSIGHTPADARIQILEGWKKRLENIWDETPLYFAPSSLFDLNFQAGFLMKKEVQDEEKNKKFGLSVGHHLGKSIPTDNQIKAR 273
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272 

Chain B from PDB  Type:PROTEIN  Length:271
                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhhh..eeeeee..........hhhh......hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhh..........hhhhh.....eeeeeee...hhhhhh......hhhhhhhhhhh..hhhhh.ee...eee.hhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhh...........hhhhhhhhh......................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5a4k B   3 GRRALIVLAHSERTSFNYAMKEAAAAALKKKGWEVVESDLYAMNFNPIISRKDITGKLKDPANFQYPAESVLAYKEGHLSPDIVAEQKKLEAADLVIFQFPLQWFGVPAILKGWFERVFIGEFAYTYAAMYDKGPFWSKKAVLSITTGGSGSMYSLQGIHGDMNVILWPIQSGILHFCGFQVLEPQLTYSIGHTPADARIQILEGWKKRLENIWDETPLYFAPSSLFDLNFQAGFLMKKEVQDEEKNKKFGLSVGHHLGKSIPTDNQIKAR 273
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272 

Chain C from PDB  Type:PROTEIN  Length:271
                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhhh..eeeeeehhhhh.....hhhh...........hhhhhhhhhhhh...hhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhh..........hhhhh.....eeeeeee...hhhhhh......hhhhhhhhhhh..hhhhh.ee...eee.hhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhh...........hhhhhhhhh......................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5a4k C   3 GRRALIVLAHSERTSFNYAMKEAAAAALKKKGWEVVESDLYAMNFNPIISRKDITGKLKDPANFQYPAESVLAYKEGHLSPDIVAEQKKLEAADLVIFQFPLQWFGVPAILKGWFERVFIGEFAYTYAAMYDKGPFWSKKAVLSITTGGSGSMYSLQGIHGDMNVILWPIQSGILHFCGFQVLEPQLTYSIGHTPADARIQILEGWKKRLENIWDETPLYFAPSSLFDLNFQAGFLMKKEVQDEEKNKKFGLSVGHHLGKSIPTDNQIKAR 273
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272 

Chain D from PDB  Type:PROTEIN  Length:271
                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhhh..eeeeee..........hhhh......hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhh..........hhhhh.....eeeeeee...hhhhhh......hhhhhhhhhhh..hhhhh.ee...eee.hhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhh...........hhhhhhhh.......................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5a4k D   3 GRRALIVLAHSERTSFNYAMKEAAAAALKKKGWEVVESDLYAMNFNPIISRKDITGKLKDPANFQYPAESVLAYKEGHLSPDIVAEQKKLEAADLVIFQFPLQWFGVPAILKGWFERVFIGEFAYTYAAMYDKGPFWSKKAVLSITTGGSGSMYSLQGIHGDMNVILWPIQSGILHFCGFQVLEPQLTYSIGHTPADARIQILEGWKKRLENIWDETPLYFAPSSLFDLNFQAGFLMKKEVQDEEKNKKFGLSVGHHLGKSIPTDNQIKAR 273
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272 

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5A4K)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5A4K)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5A4K)

(-) Gene Ontology  (26, 26)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        NQO1_HUMAN | P155591d4a 1dxo 1gg5 1h66 1h69 1kbo 1kbq 1qbg 2f1o 3jsx 4cet 4cf6 5ea2 5eai 5fuq

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