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(-) Description

Title :  OXIDIZED QUINONE REDUCTASE 2 IN COMPLEX WITH PRIMAQUINE
 
Authors :  K. K. Leung, B. H. Shilton
Date :  04 Jun 12  (Deposition) - 13 Mar 13  (Release) - 13 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.35
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Primaquine, Fmn Reductase Superfamily, Metallo-Flavoprotein, Rossmann Fold, Two-Electron Reduction Of Quinones To Hydroquinones, Fad Binding, Zn Binding, Cytosol, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. K. Leung, B. H. Shilton
Crystal Structures Of Quinone Reductase 2 Bound To Antimalarial Drugs Reveal Conformational Change Upon Reduction
J. Biol. Chem. 2013
PubMed: search

(-) Compounds

Molecule 1 - RIBOSYLDIHYDRONICOTINAMIDE DEHYDROGENASE [QUINONE]
    Chains: A, B
    EC Number: 1.10.99.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPRONQO2
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: NMOR2, NQO2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 8)

Asymmetric/Biological Unit (4, 8)
No.NameCountTypeFull Name
11PQ2Ligand/Ion(4S)-N~4~-(6-METHOXYQUINOLIN-8-YL)PENTANE-1,4-DIAMINE
2FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3GOL2Ligand/IonGLYCEROL
4ZN2Ligand/IonZINC ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:173 , HIS A:177 , CYS A:222BINDING SITE FOR RESIDUE ZN A 301
2AC2SOFTWAREHIS A:11 , LYS A:15 , SER A:16 , PHE A:17 , ASN A:18 , SER A:20 , PRO A:102 , LEU A:103 , TYR A:104 , TRP A:105 , PHE A:106 , THR A:147 , THR A:148 , GLY A:149 , GLY A:150 , TYR A:155 , GLU A:193 , GLU A:197 , ARG A:200 , LYS A:201 , 1PQ A:303 , HOH A:429 , HOH A:485 , HOH A:500 , HOH A:508 , HOH A:545 , HOH A:549 , HOH A:551 , ASN B:66 , ASP B:117BINDING SITE FOR RESIDUE FAD A 302
3AC3SOFTWARETRP A:105 , PHE A:106 , GLY A:149 , GLY A:150 , MET A:154 , ASN A:161 , GLU A:193 , FAD A:302 , HOH A:593 , HOH A:608 , HOH A:621 , HOH A:652 , PHE B:126 , GLY B:174 , PHE B:178BINDING SITE FOR RESIDUE 1PQ A 303
4AC4SOFTWAREGLN A:122 , PHE A:126 , GLY A:174 , PHE A:178 , HOH A:598 , HOH A:643 , TRP B:105 , PHE B:106 , GLY B:149 , GLY B:150 , ASN B:161 , GLU B:193 , FAD B:303BINDING SITE FOR RESIDUE 1PQ A 304
5AC5SOFTWARELYS B:76 , ARG B:78 , ASP B:163 , ARG B:165 , HOH B:574BINDING SITE FOR RESIDUE GOL B 301
6AC6SOFTWAREHIS B:173 , HIS B:177 , CYS B:222BINDING SITE FOR RESIDUE ZN B 302
7AC7SOFTWAREASN A:66 , ASP A:117 , 1PQ A:304 , HIS B:11 , LYS B:15 , SER B:16 , PHE B:17 , ASN B:18 , SER B:20 , PRO B:102 , LEU B:103 , TYR B:104 , TRP B:105 , PHE B:106 , THR B:147 , THR B:148 , GLY B:149 , GLY B:150 , TYR B:155 , GLU B:193 , ARG B:200 , HOH B:451 , HOH B:489 , HOH B:518 , HOH B:527 , HOH B:547 , HOH B:564 , HOH B:598BINDING SITE FOR RESIDUE FAD B 303
8AC8SOFTWAREGLU B:47 , LYS B:53 , ASP B:54 , ASP B:83 , ARG B:118 , HOH B:528 , HOH B:698BINDING SITE FOR RESIDUE GOL B 304

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4FGJ)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ile A:128 -Pro A:129
2Ile B:128 -Pro B:129

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4FGJ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4FGJ)

(-) Exons   (0, 0)

(no "Exon" information available for 4FGJ)

(-) Sequences/Alignments

Asymmetric/Biological 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:230
                                                                                                                                                                                                                                                                      
               SCOP domains d4fgja_ A: Quinone reductase type 2 (menadione reductase)                                                                                                                                                                              SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee......hhhhhhhhhhhhhhhhhh.eeeeee..........hhhhh..........hhhhhhhhhhhh...hhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhh..........hhhhh.....eeeeeee...............hhhhhhhhhhh........ee...eee......hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fgj A   1 AGKKVLIVYAHQEPKSFNGSLKNVAVDELSRQGCTVTVSDLYAMNFEPRATDKDITGTLSNPEVFNYGVETHEAYKQRSLASDITDEQKKVREADLVIFQFPLYWFSVPAILKGWMDRVLCQGFAFDIPGFYDSGLLQGKLALLSVTTGGTAEMYTKTGVNGDSRYFLWPLQHGTLHFCGFKVLAPQISFAPEIASEEERKGMVAAWSQRLQTIWKEEPIPCTAHWHFGQ 230
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230


Chain B from PDB  Type:PROTEIN  Length:230
                                                                                                                                                                                                                                                                      
               SCOP domains d4fgjb_ B: Quinone reductase type 2 (menadione reductase)                                                                                                                                                                              SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee......hhhhhhhhhhhhhhhhhh.eeeeee..........hhhhh..........hhhhhhhhhhhhh..hhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhh..........hhhhh.....eeeeeee...............hhhhhhhhhhh........ee...eee......hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fgj B   1 AGKKVLIVYAHQEPKSFNGSLKNVAVDELSRQGCTVTVSDLYAMNFEPRATDKDITGTLSNPEVFNYGVETHEAYKQRSLASDITDEQKKVREADLVIFQFPLYWFSVPAILKGWMDRVLCQGFAFDIPGFYDSGLLQGKLALLSVTTGGTAEMYTKTGVNGDSRYFLWPLQHGTLHFCGFKVLAPQISFAPEIASEEERKGMVAAWSQRLQTIWKEEPIPCTAHWHFGQ 230
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230
   Legend:   → Mismatch (orange background)
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  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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4FGJ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4FGJ)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ile A:128 - Pro A:129   [ RasMol ]  
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 Related Entries

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

UniProtKB/Swiss-Prot
        NQO2_HUMAN | P16083: 1qr2 1sg0 1xi2 1zx1 2bzs 2qmy 2qmz 2qr2 2qwx 2qx4 2qx6 2qx8 2qx9 3fw1 3g5m 3gam 3nfr 3nhf 3nhj 3nhk 3nhl 3nhp 3nhr 3nhs 3nhu 3nhw 3nhy 3o2n 3o73 3ovm 3owh 3owx 3ox1 3ox2 3ox3 3te7 3tem 3tzb 3uxe 3uxh 4fgk 4fgl 4gqi 4gr9 4qod 4qoe 4qof 4qog 4qoh 4qoi 4qoj 4u7f 4u7g 4u7h 4xdg 4xdh 4zvk 4zvl 4zvm 4zvn 5buc 5lbt 5lbu

(-) Related Entries Specified in the PDB File

4fgk 4fgl