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(-) Description

Title :  THE CRYSTAL STRUCTURE OF RECOMBINANT BACULOVIRUS POLYHEDRA
 
Authors :  X. Ji, G. Sutton, G. Evans, D. Axford, R. Owen, D. I. Stuart
Date :  10 Oct 09  (Deposition) - 15 Dec 09  (Release) - 23 Feb 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.84
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (12x)
Keywords :  Microcrystals, Polyhedra, Viral Protein, Viral Occlusion Body, Viral Capsid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Ji, G. Sutton, G. Evans, D. Axford, R. Owen, D. I. Stuart
How Baculovirus Polyhedra Fit Square Pegs Into Round Holes To Robustly Package Viruses.
Embo J. V. 29 505 2010
PubMed-ID: 19959989  |  Reference-DOI: 10.1038/EMBOJ.2009.352

(-) Compounds

Molecule 1 - POLYHEDRIN
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9
    Expression System Plasmid: PBACPAK9
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Mutation: YES
    Organism Scientific: AUTOGRAPHA CALIFORNICA NUCLEAR POLYHEDROSIS VIRUS
    Organism Taxid: 46015

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (12x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2WUX)

(-) Sites  (0, 0)

(no "Site" information available for 2WUX)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Phe A:107 -Pro A:108
2Gly A:242 -Pro A:243

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2WUX)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2WUX)

(-) Exons   (0, 0)

(no "Exon" information available for 2WUX)

(-) 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    
   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:213
 aligned with PYHD_NPVAC | P04871 from UniProtKB/Swiss-Prot  Length:245

    Alignment length:243
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242   
           PYHD_NPVAC     3 DYSYRPTIGRTYVYDNKYYKNLGAVIKNAKRKKHFAEHEIEEATLDPLDNYLVAEDPFLGPGKNQKLTLFKEIRNVKPDTMKLVVGWKGKEFYRETWTRFMEDSFPIVNDQEVMDVFLVVNMRPTRPNRCYKFLAQHALRCDPDYVPHDVIRIVEPSWVGSNNEYRISLAKKGGGCPIMNLHSEYTNSFEQFIDRVIWENFYKPIVYIGTDSAEEEEILLEVSLVFKVKEFAPDAPLFTGPAY 245
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------Polyhedrin-2wuxA01 A:1                 0-244                                                                                                                                                                                               - Pfam domains
         Sec.struct. author ..........eeee..eeeeehhhhhh..-----------------hhhh.eee........eeeeeeeeeeeeee...eeee....hhhhhhhhhhhhhhhhhh....eeeeeeeeeeeeeee........eeeeeeee.........eee....ee.....eeeee...-------------...hhhhhhhhhhhhh..eeeeeeee.....eeeeeeeeeeeeeeee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wux A   3 DYSYRPTIGRTYVYDNKYYKNLDAVIKNA-----------------PLDNYLVAEDPFLGPGKNQKLTLFKEIRNVKPDTMKLVVGWKGKEFYRETWTRFMEDSFPIVNDQEVMDVFLVVNMRPTRPNRCYKFLAQHALRCDPDYVPHDVIRIVEPSWVGSNNEYRISLAK-------------YTNSFEQFIDRVIWENFYKPIVYIGTDSAEEEEILLEVSLVFKVKEFAPDAPLFTGPAY 245
                                    12        22        |-         -      | 52        62        72        82        92       102       112       122       132       142       152       162       172|        -    |  192       202       212       222       232       242   
                                                       31                49                                                                                                                         173           187
   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 2WUX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: no clan defined [family: Polyhedrin] (4)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (PYHD_NPVAC | P04871)
molecular function
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    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.
cellular component
    GO:0039679    viral occlusion body    A crystalline protein matrix surrounding the nucleocapsids of some insect viruses after their release in the environment. Produced in the host cell, the occlusion body protects the infectious virion after death of the host.

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  Cis Peptide Bonds
    Gly A:242 - Pro A:243   [ RasMol ]  
    Phe A:107 - Pro A:108   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        PYHD_NPVAC | P04871: 2wuy 3jw6

(-) Related Entries Specified in the PDB File

2wuy THE CRYSTAL STRUCTURE OF WILD-TYPE BACULOVIRUS POLYHEDRA