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(-) Description

Title :  STRUCTURAL INSIGHTS INTO DE MULTIFUNCTIONAL VP3 PROTEIN OF BIRNAVIRUSES:GOLD DERIVATIVE
 
Authors :  A. Casanas, A. Navarro, C. Ferrer-Orta, D. Gonzalez, J. F. Rodriguez, N. Verdaguer
Date :  23 Aug 07  (Deposition) - 05 Feb 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Helix, Capsid Protein, Hydrolase, Protease, Serine Protease, Virion, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Casanas, A. Navarro, C. Ferrer-Orta, D. Gonzalez, J. F. Rodriguez, N. Verdaguer
Structural Insights Into The Multifunctional Protein Vp3 Of Birnaviruses.
Structure V. 16 29 2008
PubMed-ID: 18184581  |  Reference-DOI: 10.1016/J.STR.2007.10.023

(-) Compounds

Molecule 1 - CAPSID ASSEMBLY PROTEIN VP3
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Organism Common: GUMBORO VIRUS
    Organism Scientific: INFECTIOUS BURSAL DISEASE VIRUS
    Organism Taxid: 10995

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1AU3Ligand/IonGOLD ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1AU-1Ligand/IonGOLD ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:126 , LYS A:135 , HIS A:155 , GLU A:157 , HOH A:235BINDING SITE FOR RESIDUE AU A 1
2AC2SOFTWAREHIS A:220 , HOH A:247BINDING SITE FOR RESIDUE AU A 2
3AC3SOFTWAREHIS A:199BINDING SITE FOR RESIDUE AU A 3

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Z7J)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2Z7J)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 2Z7J)

(-) 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    
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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:125
 aligned with POLS_IBDVP | P25220 from UniProtKB/Swiss-Prot  Length:993

    Alignment length:125
                                   840       850       860       870       880       890       900       910       920       930       940       950     
           POLS_IBDVP   831 AQREKDTRISKKMETMGIYFATPEWVALNGHRGPSPGQLKYWQNTREIPDPNEDYLDYVHAEKSRLASEEQILRAATSIYGAPGQAEPPQAFIDEVAKVYEINHGRGPNQEQMKDLLLTAMEMKH 955
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains Birna_VP3-2z7jA01 A:96-220                                                                                                    Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh......hhhhhhhh.....hhhhhhhhhhhh.....................hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 2z7j A  96 AQREKDTRISKKMETMGIYFATPEWVALNGHRGPSPGQLKYWQNTREIPDPNEDYLDYVHAEKSRLASEEQILRAATSIYGAPGQAEPPQAFIDEVAKVYEINHGRGPNQEQMKDLLLTAMEMKH 220
                                   105       115       125       135       145       155       165       175       185       195       205       215
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 2Z7J)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2Z7J)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: no clan defined [family: Birna_VP3] (2)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A   (POLS_IBDVP | P25220)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    GO:0008236    serine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
    GO:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    GO:0030430    host cell cytoplasm    The cytoplasm of a host cell.
    GO:0019028    viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles. It comprises numerous regularly arranged subunits, or capsomeres.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.

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 Related Entries

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        POLS_IBDVP | P25220: 2r18

(-) Related Entries Specified in the PDB File

2r18