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(-) Description

Title :  CRYSTAL STRUCTURE OF MAJOR CAPSID PROTEIN S DOMAIN FROM RABBIT HEMORRHAGIC DISEASE VIRUS
 
Authors :  F. Xu, J. Ma, K. Zhang, X. Wang, F. Sun
Date :  07 Apr 12  (Deposition) - 30 Jan 13  (Release) - 06 Feb 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Viral Protein, Capsid Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Wang, F. Xu, J. Liu, B. Gao, Y. Liu, Y. Zhai, J. Ma, K. Zhang, T. S. Baker K. Schulten, D. Zheng, H. Pang, F. Sun
Atomic Model Of Rabbit Hemorrhagic Disease Virus By Cryo-Electron Microscopy And Crystallography.
Plos Pathog. V. 9 03132 2013
PubMed-ID: 23341770  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1003132

(-) Compounds

Molecule 1 - MAJOR CAPSID PROTEIN VP60
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PEXS-DH
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: S (INNER SHELL) DOMAIN (UNP RESIDUES 1-230)
    Gene: VP60
    Organism Common: RHDV
    Organism Scientific: RABBIT HEMORRHAGIC DISEASE VIRUS
    Organism Taxid: 11976
    Strain: JX/CHA/97

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (2x):  B

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4EJR)

(-) Sites  (0, 0)

(no "Site" information available for 4EJR)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4EJR)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:204 -Ser A:205
2Ile B:144 -Gly B:145

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4EJR)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  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:163
                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeeee.......eeeeee.hhhhhhhhhhhh..eeeee..eeeeeee......eeeeeeeee................eeeee......eeeee........ee........eeeeeeeeeee........eeeeeeeeee....eeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ejr A  67 TWRTNFYYNDVFTWSVADAPGSILYTVQHSPQNNPFTAVLSQMYAGWAGGMQFRFIVAGSGVFGGRLVAAVIPPGIEIGPGLEVRQFPHVVIDARSLEPVTITMPDLRPNMYHPTGDPGLVPTLVLSVYNNLINPFGGSTNAIQVTVETRPSDDFEFVMIRAP 229
                                    76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226   


Chain B from PDB  Type:PROTEIN  Length:163
                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeeee.......eeeeee.hhhhhhhhhhhh..eeeee..eeeeeee......eeeeeeeee................eeeee......eeeee........ee........eeeeeeeeeee........eeeeeeeeee....eeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ejr B  67 TWRTNFYYNDVFTWSVADAPGSILYTVQHSPQNNPFTAVLSQMYAGWAGGMQFRFIVAGSGVFGGRLVAAVIPPGIEIGPGLEVRQFPHVVIDARSLEPVTITMPDLRPNMYHPTGDPGLVPTLVLSVYNNLINPFGGSTNAIQVTVETRPSDDFEFVMIRAP 229
                                    76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226
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  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 4EJR)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (20, 20)

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  Cis Peptide Bonds
    Gly A:204 - Ser A:205   [ RasMol ]  
    Ile B:144 - Gly B:145   [ RasMol ]  
 
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 Related Entries

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

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        Q3HNQ1_RHDV | Q3HNQ1: 4egt
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(-) Related Entries Specified in the PDB File

4egt CRYSTAL STRUCTURE OF P DOMAIN OF MAJOR CAPSID PROTEIN VP60 FROM RABBIT HEMORRHAGIC DISEASE VIRUS
4j1p ATOMIC MODEL OF RABBIT HEMORRHAGIC DISEASE VIRUS