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(-) Description

Title :  HIGH-RESOLUTION CRYO-EM STRUCTURE OF TOBACCO MOSAIC VIRUS
 
Authors :  C. Sachse
Date :  20 Jan 07  (Deposition) - 16 Oct 07  (Release) - 24 Feb 09  (Revision)
Method :  ELECTRON MICROSCOPY
Resolution :  4.40
Chains :  Asym. Unit :  A,R  (5x)
Biol. Unit 1:  A,R  (49x)
Keywords :  Protein-Rna Complex, Four-Helical Up-And-Down Bundle, Helical Virus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Sachse, J. Z. Chen, P. D. Coureux, M. E. Stroupe, M. Fandrich, N. Grigorieff
High-Resolution Electron Microscopy Of Helical Specimens: A Fresh Look At Tobacco Mosaic Virus.
J. Mol. Biol. V. 371 812 2007
PubMed-ID: 17585939  |  Reference-DOI: 10.1016/J.JMB.2007.05.088
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - COAT PROTEIN
    Chains: A
    Organism Scientific: TOBACCO MOSAIC VIRUS
    Organism Taxid: 12242
    Synonym: CAPSID PROTEIN
 
Molecule 2 - TOBACCO MOSAIC VIRUS RNA
    Chains: R
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit (5x): AR
Biological Unit 1 (49x): AR

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2OM3)

(-) Sites  (0, 0)

(no "Site" information available for 2OM3)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OM3)

(-) Cis Peptide Bonds  (3, 11)

Asymmetric Unit
No.ModelResidues
11, 2, 3, 4, 5Gln A:99 -Ala A:100
21, 2, 3, 4, 5Ser A:148 -Gly A:149
32Asn A:91 -Arg A:92

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OM3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2OM3)

(-) Exons   (0, 0)

(no "Exon" information available for 2OM3)

(-) 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:154
 aligned with Q77LT8_9VIRU | Q77LT8 from UniProtKB/TrEMBL  Length:159

    Alignment length:154
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151    
         Q77LT8_9VIRU     2 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTS 155
               SCOP domains d2om3a1 A:1-154 Tobacco mosaic virus coat protein                                                                                                          SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains TMV_coat-2om3A01 A:1-145                                                                                                                         --------- Pfam domains
         Sec.struct. author .......hhhhh....eehhhhhhhhhhh.......hhhhhhhhhhhhhhh...............eeee.....hhhhhhhhhhhhh...hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeehhhhh......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2om3 A   1 SYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPLVTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTS 154
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150    


Chain R from PDB  Type:RNA  Length:3
                                   
                 2om3 R   4 GAA   6
   Legend:   → Mismatch (orange background)
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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  (1, 1)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2OM3)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: no clan defined [family: TMV_coat] (6)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q77LT8_9VIRU | Q77LT8)
molecular function
    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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    Asn A:91 - Arg A:92   [ RasMol ]  
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 Related Entries

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

UniProtKB/TrEMBL
        Q77LT8_9VIRU | Q77LT8: 2xea

(-) Related Entries Specified in the PDB File

1ei7 STRUCTURE OF THE RNA-FREE DISK PROTEIN RESOLVED BY X-RAY CRYSTALLOGRAPHY RELATED ID: EMD-1316 RELATED DB: EMDB
2tmv THE SAME PROTEIN/RNA COMPLEX RESOLVED BY X-RAY FIBER DIFFRACTION