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(-) Description

Title :  CRYSTAL STRUCTURE OF XENA FROM PSEUDOMONAS PUTIDA IN COMPLEX WITH AN NADH MIMIC (MAC)
 
Authors :  T. Knaus, C. E. Paul, C. W. Levy, F. G. Mutti, F. Hollmann, N. S. Scrutton
Date :  21 Jul 15  (Deposition) - 20 Jan 16  (Release) - 03 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Xena, Mnadh Mimic, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Knaus, C. E. Paul, C. W. Levy, S. De Vries, F. G. Mutti, F. Hollmann, N. S. Scrutton
Better Than Nature: Nicotinamide Biomimetics That Outperfor Natural Coenzymes.
J. Am. Chem. Soc. V. 138 1033 2016
PubMed-ID: 26727612  |  Reference-DOI: 10.1021/JACS.5B12252

(-) Compounds

Molecule 1 - XENOBIOTIC REDUCTASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: XENA
    Organism Scientific: PSEUDOMONAS PUTIDA
    Organism Taxid: 303
    Synonym: XENOBIOTIC REDUCTASE A

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
15312Ligand/Ion1-[(3S)-1-BENZYLPIPERIDIN-3-YL]ETHANONE
2FNR2Ligand/Ion1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:27 , ILE A:66 , HIS A:178 , HIS A:181 , TYR A:183 , TRP A:302 , FNR A:402binding site for residue 531 A 401
2AC2SOFTWAREPRO A:22 , PRO A:23 , MET A:24 , CYS A:25 , ALA A:57 , GLN A:99 , HIS A:178 , HIS A:181 , ARG A:231 , ALA A:301 , TRP A:302 , GLY A:303 , GLY A:325 , ARG A:326 , 531 A:401 , HOH A:523 , HOH A:563 , TRP B:358binding site for residue FNR A 402
3AC3SOFTWARETYR B:27 , ILE B:66 , HIS B:178 , HIS B:181 , TYR B:183 , FNR B:402binding site for residue 531 B 401
4AC4SOFTWARETRP A:358 , PRO B:22 , PRO B:23 , MET B:24 , CYS B:25 , ALA B:57 , GLN B:99 , HIS B:178 , HIS B:181 , ARG B:231 , ALA B:301 , TRP B:302 , GLY B:303 , GLY B:325 , ARG B:326 , 531 B:401 , HOH B:556 , HOH B:581binding site for residue FNR B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5CPN)

(-) 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:359
                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhh.eee..eee...eee.............hhhhhhhhhhhhhh...eeeeeeee.hhhhh.........hhhhhhhhhhhhhhhhhh..eeeeeee.hhhhh...hhhhh..............ee..............ee.hhhhhhhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhh............hhhhhhhhhhhhhhhhhhhh.....eeeeee......hhhhhhhhhhhhhhhhhhh...eeeee................hhhhhhhhhhhhh..eee.....hhhhhhhhhhh....eee.hhhhhhh.hhhhhhhhhh...hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cpn A   2 SALFEPYTLKDVTLRNRIAIPPMCQYMAEDGLINDWHQVHYASMARGGAGLLVVEATAVAPEGRITPGCAGIWSDAHAQAFVPVVQAIKAAGSVPGIQIAHAGRKASANRPWEGDDHIGADDARGWETIAPSAIAFGAHLPNVPRAMTLDDIARVKQDFVDAARRARDAGFEWIELHFAHGYLGQSFFSEHSNKRTDAYGGSFDNRSRFLLETLAAVREVWPENLPLTARFGVLEYDGRDEQTLEESIELARRFKAGGLDLLSVSVGFTIPETNIPWGPAFMGPIAERVRREAKLPVTSAWGFGTPQLAEAALQANQLDLVSVGRAHLADPHWAYFAAKELGVEKASWTLPAPYAHWLE 360
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351         


Chain B from PDB  Type:PROTEIN  Length:359
                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhh.eee..eee...eee.............hhhhhhhhhhhhhh...eeeeeeee.hhhhh.........hhhhhhhhhhhhhhhhhh..eeeeeee.hhhhh...hhhhh..............ee..............ee.hhhhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhh............hhhhhhhhhhhhhhhhhh.......eeeeeeee....hhhhhhhhhhhhhhhhhhh...eeeeee...............hhhhhhhhhhhhh..eee.....hhhhhhhhhhh....eee.hhhhhhh.hhhhhhhhhh...hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cpn B   2 SALFEPYTLKDVTLRNRIAIPPMCQYMAEDGLINDWHQVHYASMARGGAGLLVVEATAVAPEGRITPGCAGIWSDAHAQAFVPVVQAIKAAGSVPGIQIAHAGRKASANRPWEGDDHIGADDARGWETIAPSAIAFGAHLPNVPRAMTLDDIARVKQDFVDAARRARDAGFEWIELHFAHGYLGQSFFSEHSNKRTDAYGGSFDNRSRFLLETLAAVREVWPENLPLTARFGVLEYDGRDEQTLEESIELARRFKAGGLDLLSVSVGFTIPETNIPWGPAFMGPIAERVRREAKLPVTSAWGFGTPQLAEAALQANQLDLVSVGRAHLADPHWAYFAAKELGVEKASWTLPAPYAHWLE 360
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351
   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 5CPN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q9R9V9_PSEPU | Q9R9V9: 5n6q
UniProtKB/TrEMBL
        Q9R9V9_PSEPU | Q9R9V9: 5cpl 5cpm 5cpo

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5CPN)