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(-) Description

Title :  THE CRYSTAL STRUCTURES OF SEVERAL MUTANTS OF PLEUROTUS ERYNGII VERSATILE PEROXIDASE
 
Authors :  M. J. Mate, A. Romero, F. J. Ruiz-Duenas, A. T. Martinez
Date :  25 May 12  (Deposition) - 24 Oct 12  (Release) - 19 Dec 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Lignin Peroxidase, Lignin Degradation, Aromatic-Substrate Binding, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Morales, M. J. Mate, A. Romero, M. J. Martinez, A. T. Martinez, F. J. Ruiz-Duenas
Two Oxidation Sites For Low Redox Potential Substrates: A Directed Mutagenesis, Kinetic, And Crystallographic Study O Pleurotus Eryngii Versatile Peroxidase.
J. Biol. Chem. V. 287 41053 2012
PubMed-ID: 23071108  |  Reference-DOI: 10.1074/JBC.M112.405548
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VERSATILE PEROXIDASE VPL2
    Chains: A
    EC Number: 1.11.1.16
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 31-349
    Gene: VPL2
    Mutation: YES
    Organism Common: BOLETUS OF THE STEPPES
    Organism Scientific: PLEUROTUS ERYNGII
    Organism Taxid: 5323
    Synonym: VERSATILE LIQUID PHASE PEROXIDASE 2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3SO41Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:170 , ASP A:187 , THR A:189 , VAL A:192 , ASP A:194BINDING SITE FOR RESIDUE CA A 401
2AC2SOFTWAREASP A:48 , GLY A:60 , ASP A:62 , SER A:64 , HOH A:520 , HOH A:548BINDING SITE FOR RESIDUE CA A 402
3AC3SOFTWAREGLU A:36 , HIS A:39 , GLU A:40 , LEU A:42 , ARG A:43 , PHE A:46 , GLY 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 , GLY A:176 , VAL A:177 , PHE A:186 , LEU A:228 , SER A:230 , HOH A:597 , HOH A:623 , HOH A:645 , HOH A:649 , HOH A:734BINDING SITE FOR RESIDUE HEM A 403
4AC4SOFTWAREHIS A:136 , PHE A:142 , ARG A:206 , HOH A:565 , HOH A:577 , HOH A:754 , HOH A:763 , HOH A:802 , HOH A:840 , HOH A:841BINDING SITE FOR RESIDUE SO4 A 404

(-) SS Bonds  (4, 4)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4FCN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FCN)

(-) 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:319
                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains d4fcna_ A: automated matches                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.........ee...................hhhhhhhhhhhhh.hhhhhhhhhhhhhh.ee.........ee.........hhhhhhh...............ee........eehhhhhhh....hhhhhhhh..hhhhhhhhhhhhhhhhhh...hhhhhee.hhhh................hhhhh................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fcn A   1 ATCDDGRTTANAACCILFPILDDIQENLFDGAQCGEEVHESLRLTFHDAIGFSPTLGGGGADGSIIAFDTIETNFPANAGIDEIVSAQKPFVAKHNISAGDFIQFAGAVGVSNCPGGVRIPFFLGRPDAVAASPDHLVPGPFDSVDSILARMGDAGFSPVEVVWLLASHSIAAADGVDPSIPGTPFDSTPEVFDSQFFIETQLKGRLFPGTADNKGEAQSPLQGEIRLQSDHLLARDPQTACEWQSMVNNQPKIQNRFAATMSKMALLGQDKTKLIDCSDVIPTPPALVGAAHLPAGFSLSDVEQACAATPFPALTADP 319
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  4fcn
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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 4fcs 4fdq 4fef 4g05 5abn 5abo 5abq 5fnb 5fne

(-) Related Entries Specified in the PDB File

4fcn THE SAME PROTEIN MUTATED AT POSITIONS 140 AND 176 BY GLYCINES (E140G/K176G)
4fdq THE SAME PROTEIN MUTATED AT POSITION 1S40 BY A GLYCINE (E140G)
4fef THE SAME PROTEIN MUTATED AT POSITION 141 BY A GLYCINE (P141G)