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(-) Description

Title :  PENICILLIUM CHRYSOGENUM VIRUS (PCV) CAPSID STRUCTURE
 
Authors :  D. Luque, J. Gomez-Blanco, D. Garriga, A. Brilot, J. M. Gonzalez, W. H. H J. L. Carrascosa, B. L. Trus, N. Verdaguer, N. Grigorieff, S. A. Ghabri J. R. Caston
Date :  08 Mar 13  (Deposition) - 14 May 14  (Release) - 25 Jun 14  (Revision)
Method :  ELECTRON MICROSCOPY
Resolution :  4.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (60x)
Keywords :  Double-Stranded Rna, Fungal Virus, Viral Structure, T=1 Virus, Duplicated Helical Fold, Virus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Luque, J. Gomez-Blanco, D. Garriga, A. F. Brilot, J. M. Gonzalez, W. M. Havens, J. L. Carrascosa, B. L. Trus, N. Verdaguer, S. A. Ghabrial J. R. Caston
Cryo-Em Near-Atomic Structure Of A Dsrna Fungal Virus Shows Ancient Structural Motifs Preserved In The Dsrna Viral Lineage.
Proc. Natl. Acad. Sci. Usa V. 111 7641 2014
PubMed-ID: 24821769  |  Reference-DOI: 10.1073/PNAS.1404330111

(-) Compounds

Molecule 1 - CAPSID PROTEIN
    Chains: A
    Organism Common: PCV
    Organism Scientific: PENICILLIUM CHRYSOGENUM VIRUS (ISOLATE CASTON)
    Organism Taxid: 654932
    Synonym: CP, COAT PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (60x): A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3J3I)

(-) Sites  (0, 0)

(no "Site" information available for 3J3I)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3J3I)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala A:3 -Pro A:4
2Pro A:273 -Pro A:274

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3J3I)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3J3I)

(-) Exons   (0, 0)

(no "Exon" information available for 3J3I)

(-) 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:982
 aligned with CAPSD_PCVC | Q8JVC1 from UniProtKB/Swiss-Prot  Length:982

    Alignment length:982
                                    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       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850       860       870       880       890       900       910       920       930       940       950       960       970       980  
           CAPSD_PCVC     1 MAAPVLYGGAGGTATGPGDMRRSLMHEKKQVFAELRREAQALRVAKEARGKMSVWDPSTREGARGYREKVVRFGRQIASLLQYFENMHSPALDIIACDKFLLKYQIYGDIDRDPAFGENTMTAEVPVVWDKCEVEVKLYAGPLQKLMSRAKLVGAAREGIPNRNDVAKSTGWNQDQVQKFPDNRMDSLISLLEQMQTGQSKLTRLVKGFLILLEMAERKEVDFHVGNHIHVTYAIAPVCDSYDLPGRCYVFNSKPTSEAHAAVLLAMCREYPPPQFASHVSVPADAEDVCIVSQGRQIQPGSAVTLNPGLVYSSILTYAMDTSCTDLLQEAQIIACSLQENRYFSRIGLPTVVSLYDLMVPAFIAQNSALEGARLSGDLSKAVGRVHQMLGMVAAKDIISATHMQSRTGFDPSHGIRQYLNSNSRLVTQMASKLTGIGLFDATPQMRIFSEMDTADYADMLHLTIFEGLWLVQDASVCTDNGPISFLVNGEKLLSADRAGYDVLVEELTLANIRIEHHKMPTGAFTTRWVAAKRDSALRLTPRSRTAHRVDMVRECDFNPTMNLKAAGPKARLRGSGVKSRRRVSEVPLAHVFRSPPRRESTTTTDDSPRWLTREGPQLTRRVPIIDEPPAYESGRSSSPVTSSISEGTSQHEEEMGLFDAEELPMQQTVIATEARRRLGRGTLERIQEAALEGQVAQGEVTAEKNRRIEAMLSARDPQFTGREQITKMLSDGGLGVREREEWLELVDKTVGVKGLKEVRSIDGIRRHLEEYGEREGFAVVRTLLSGNSKHVRRINQLIRESNPSAFETEASRMRRLRADWDGDAGSAPVNALHFVGNSPGWKRWLENNNIPSDIQVAGKKRMCSYLAEVLSHGNLKLSDATKLGRLVEGTSLDLFPPQLSSEEFSTCSEATLAWRNAPSSLGVRPFAQEDSRWLVMAATCGGGSFGIGKLKSLCKEFSVPKELRDALRVKYGLFGGKDSLE 982
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............................hhhhhhhhhhhhhhh.hhhhhh.....................hhhhhhhhhhhh......hhhhh.eeeeee..................eeeeee....................hhhhhh........hhhhhhhhh.hhhhhhh....hhhhhhhhhh.....eehhhhhhhhhhhhhhh............eee....hhhhhhhh......eee.....hhhhhhhhhhhhh....................eee.................hhhhhhhhhhh.....hhhhhhhhhhhhhh..............ee......................hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhh.hhhhh..................................hhhhhh....hhhhhhhhhh.............................................eeeeeee....eeeeeee..........................hhhhhhhhh............hhhhhhh............hhhhhhhhhhhhhhh...............ee...hhhhhhhhh...ee........hhhhhhhh.......................eee.............hhhhhhhhhhhh....hhhhhhh....hhhhhhhhh.......................................hhhhhhhhhhhhhhhhhhhhhhh...................hhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh................................hhhhhhhhhhhh......................hhhhhhhhh.......eeeee.........eehhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3j3i A   1 MAAPVLYGGAGGTATGPGDMRRSLMHEKKQVFAELRREAQALRVAKEARGKMSVWDPSTREGARGYREKVVRFGRQIASLLQYFENMHSPALDIIACDKFLLKYQIYGDIDRDPAFGENTMTAEVPVVWDKCEVEVKLYAGPLQKLMSRAKLVGAAREGIPNRNDVAKSTGWNQDQVQKFPDNRMDSLISLLEQMQTGQSKLTRLVKGFLILLEMAERKEVDFHVGNHIHVTYAIAPVCDSYDLPGRCYVFNSKPTSEAHAAVLLAMCREYPPPQFASHVSVPADAEDVCIVSQGRQIQPGSAVTLNPGLVYSSILTYAMDTSCTDLLQEAQIIACSLQENRYFSRIGLPTVVSLYDLMVPAFIAQNSALEGARLSGDLSKAVGRVHQMLGMVAAKDIISATHMQSRTGFDPSHGIRQYLNSNSRLVTQMASKLTGIGLFDATPQMRIFSEMDTADYADMLHLTIFEGLWLVQDASVCTDNGPISFLVNGEKLLSADRAGYDVLVEELTLANIRIEHHKMPTGAFTTRWVAAKRDSALRLTPRSRTAHRVDMVRECDFNPTMNLKAAGPKARLRGSGVKSRRRVSEVPLAHVFRSPPRRESTTTTDDSPRWLTREGPQLTRRVPIIDEPPAYESGRSSSPVTSSISEGTSQHEEEMGLFDAEELPMQQTVIATEARRRLGRGTLERIQEAALEGQVAQGEVTAEKNRRIEAMLSARDPQFTGREQITKMLSDGGLGVREREEWLELVDKTVGVKGLKEVRSIDGIRRHLEEYGEREGFAVVRTLLSGNSKHVRRINQLIRESNPSAFETEASRMRRLRADWDGDAGSAPVNALHFVGNSPGWKRWLENNNIPSDIQVAGKKRMCSYLAEVLSHGNLKLSDATKLGRLVEGTSLDLFPPQLSSEEFSTCSEATLAWRNAPSSLGVRPFAQEDSRWLVMAATCGGGSFGIGKLKSLCKEFSVPKELRDALRVKYGLFGGKDSLE 982
                                    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       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850       860       870       880       890       900       910       920       930       940       950       960       970       980
   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 3J3I)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3J3I)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3J3I)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (CAPSD_PCVC | Q8JVC1)
cellular component
    GO:0039615    T=1 icosahedral viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles where the subunits (capsomeres) are arranged to form an icosahedron with T=1 symmetry. The T=1 capsid is composed of 12 pentameric capsomeres.
    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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  Cis Peptide Bonds
    Ala A:3 - Pro A:4   [ RasMol ]  
    Pro A:273 - Pro A:274   [ RasMol ]  
 
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