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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF FUNGAL VERSATILE PEROXIDASE FROM PLEUROTUS ERYNGII. MUTANT VPI-SS. MUTATED RESIDUES T2K, A49C, A61C, D69S, T70D, S86E, A131K, D146T, Q202L, Q219K, H232E, Q239R, L288R, S301K, A308R,A309K AND A314R.
 
Authors :  F. J. Medrano, A. Romero
Date :  07 Aug 15  (Deposition) - 04 Nov 15  (Release) - 04 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym./Biol. Unit :  A
Keywords :  Class Ii (Fungal) Peroxidases, Protoporphyrin Ix, Electron Transfer, Lignin Peroxidase, Lignin Degradation, Manganese Peroxidase, Mn-Independent Oxidation Phenolic Non-Phenolic Aromatics, Mnii Oxidation, Peroxidase, Polyvalent Peroxidase, Oxidoreductase, Heme, Hydrogen Peroxide, Iron, Manganese, Metal-Binding, Secreted, Zymogen (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Saez-Jimenez, E. Fernendez-Fueyo, F. J. Medrano, A. Romero, A. T. Martinez, F. J. Ruiz-Duenas
Improving The Ph-Stability Of Versatile Peroxidase By Comparative Structural Analysis With A Naturally-Stable Manganese Peroxidase.
Plos One V. 10 40984 2015
PubMed-ID: 26496708  |  Reference-DOI: 10.1371/JOURNAL.PONE.0140984

(-) Compounds

Molecule 1 - VERSATILE PEROXIDASE
    Chains: A
    EC Number: 1.11.1.16
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: W3110
    Expression System Taxid: 316407
    Mutation: YES
    Organism Common: BOLETUS OF THE STEPPES
    Organism Scientific: PLEUROTUS ERYNGII
    Organism Taxid: 5323
    Strain: IJFM, A169

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:48 , GLY A:60 , ASP A:62 , SER A:64 , HOH A:2008 , HOH A:2011BINDING SITE FOR RESIDUE CA A1315
2AC2SOFTWARESER A:170 , ASP A:187 , THR A:189 , VAL A:192 , ASP A:194BINDING SITE FOR RESIDUE CA A1316
3AC3SOFTWAREHIS A:39 , GLU A:40 , LEU A:42 , ARG A:43 , PHE A:46 , PRO A:139 , GLU A:140 , PRO A:141 , LEU A:165 , LEU A:166 , SER A:168 , HIS A:169 , ALA A:172 , ALA A:173 , ALA A:174 , ASP A:175 , LYS A:176 , VAL A:177 , PHE A:186 , LEU A:228 , SER A:230 , HOH A:2006 , HOH A:2007BINDING SITE FOR RESIDUE HEM A 500
4AC4SOFTWAREASN A:96 , GLU A:140 , ASP A:143 , HOH A:2028 , HOH A:2030 , HOH A:2031BINDING SITE FOR RESIDUE CA A1317
5AC5SOFTWAREGLY A:297 , HOH A:2062BINDING SITE FOR RESIDUE CA A1318

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1A:3 -A:15
2A:14 -A:278
3A:34 -A:114
4A:49 -A:61
5A:242 -A:307

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5ABQ)

(-) 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:312
                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..........ee...................hhhhhhhhhhhh..hhhhhhhhhhhhhh.ee.........ee.........hhhhhhhh..............ee........eehhhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhhh........ee.hhhh................................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5abq A   3 CDDGRTTANAACCILFPILDDIQENLFDGAQCGEEVHESLRLTFHDCIGFSPTLGGGGCDGSIIAFSDIETNFPANAGIDEIVEAQKPFVAKHNISAGDFIQFAGAVGVSNCPGGVRIPFFLGRPDAVKASPDHLVPEPFDSVTSILARMGDAGFSPVEVVWLLASHSIAAADKVDPSIPGTPFDSTPGVFDSQFFIETLLKGRLFPGTADNKGEAQSPLQGEIRLQSDELLARDPRTACEWQSMVNNQPKIQNRFAATMSKMALLGQDKTKLIDCSDVIPTPPALVGAAHLPAGFSLKDVEQACRKTPFPR 314
                                    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       282       292       302       312
   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 5ABQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  5abq
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  VPL2_PLEER | O94753
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  1.11.1.16
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 Related Entries

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

UniProtKB/Swiss-Prot
        VPL2_PLEER | O94753: 2boq 2vka 2w23 3fjw 3fkg 3fm1 3fm4 3fm6 3fmu 4fcn 4fcs 4fdq 4fef 4g05 5abn 5abo 5fnb 5fne

(-) Related Entries Specified in the PDB File

5abn CRYSTAL STRUCTURE ANALYSIS OF FUNGAL VERSATILE PEROXIDASE FROM PLEUROTUS ERYNGII. MUTANT VPI. MUTATED RESIDUES D69S, T70D, S86E, D146T, Q202L, H232E, Q239R AND S301K .
5abo CRYSTAL STRUCTURE ANALYSIS OF FUNGAL VERSATILE PEROXIDASE FROM PLEUROTUS ERYNGII. MUTANT VPI-BR. MUTATED RESIDUES T2K, D69S, T70D, S86E, A131K, D146T, Q202L, Q219K, H232E, Q239R, L288R, S301K, A308R, A309K AND A314R.