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(-) Description

Title :  SATELLITE TOBACCO NECROSIS VIRUS (STNV) VIRUS LIKE PARTICLE IN COMPLEX WITH THE B3 APTAMER
 
Authors :  R. J. Ford, A. M. Barker, S. E. Bakker, R. H. Coutts, N. A. Ranson, S. E. V. P A. R. Pearson, P. G. Stockley
Date :  03 Oct 12  (Deposition) - 23 Jan 13  (Release) - 20 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (60x)
Keywords :  Virus, Vlp, Rna Aptamer, Metal Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. J. Ford, A. M. Barker, S. E. Bakker, R. H. Coutts, N. A. Ranson, S. E. V. Phillips, A. R. Pearson, P. G. Stockley
Sequence-Specific, Rna-Protein Interactions Overcome Electrostatic Barriers Preventing Assembly Of Satellite Tobacco Necrosis Virus Coat Protein.
J. Mol. Biol. V. 425 1050 2013
PubMed-ID: 23318955  |  Reference-DOI: 10.1016/J.JMB.2013.01.004

(-) Compounds

Molecule 1 - COAT PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: STNV
    Organism Scientific: TOBACCO NECROSIS SATELLITE VIRUS
    Organism Taxid: 12881

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:61 , GLN A:64 , ASP A:194 , HOH A:2103BINDING SITE FOR RESIDUE CA A 201
2AC2SOFTWARETHR A:138 , HOH A:2186 , HOH A:2187BINDING SITE FOR RESIDUE CA A 205

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4BCU)

(-) Sequences/Alignments

Asymmetric Unit
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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:188
 aligned with COAT_STNV1 | P03606 from UniProtKB/Swiss-Prot  Length:196

    Alignment length:188
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188        
           COAT_STNV1     9 RKSATMRAVKRMINTHLEHKRFALINSGNTNATAGTVQNLSNGIIQGDDINQRSGDQVRIVSHKLHVRGTAITVSQTFRFIWFRDNMNRGTTPTVLEVLNTANFMSQYNPITLQQKRFTILKDVTLNCSLTGESIKDRIINLPGQLVNYNGATAVAASNGPGAIFMLQIGDSLVGLWDSSYEAVYTDA 196
               SCOP domains d4bcua_ A: STNV coat protein                                                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh...eeeeeeeeeee.....eeee.................eeeeeeeeeeeeee.....eeeeeeeeee........hhhhhh.........hhhhhhh..eeeeeeeeeee......eeeeeeeee..eee......hhhh.....eeeeeee.....eeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4bcu A   8 RKSATMRAVKRMINTHLEHKRFALINSGNTNATAGTVQNLSNGIIQGDDINQRSGDQVRIVSHKLHVRGTAITVSQTFRFIWFRDNMNRGTTPTVLEVLNTANFMSQYNPITLQQKRFTILKDVTLNCSLTGESIKDRIINLPGQLVNYNGATAVAASNGPGAIFMLQIGDSLVGLWDSSYEAVYTDA 195
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187
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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 Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (COAT_STNV1 | P03606)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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: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

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

UniProtKB/Swiss-Prot
        COAT_STNV1 | P03606: 2buk 3s4g 4v4m

(-) Related Entries Specified in the PDB File

2buk SATELLITE TOBACCO NECROSIS VIRUS