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(-) Description

Title :  STRUCTURE DETERMINATION OF CUCUMBER GREEN MOTTLE MOSAIC VIRUS BY X-RAY FIBER DIFFRACTION. SIGNIFICANCE FOR THE EVOLUTION OF TOBAMOVIRUSES
 
Authors :  H. Wang, G. Stubbs
Date :  17 Nov 93  (Deposition) - 30 Apr 94  (Release) - 25 Aug 09  (Revision)
Method :  FIBER DIFFRACTION
Resolution :  3.40
Chains :  Asym. Unit :  E,I
Biol. Unit 1:  E,I  (49x)
Keywords :  Virus, Helical Virus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Wang, G. Stubbs
Structure Determination Of Cucumber Green Mottle Mosaic Virus By X-Ray Fiber Diffraction. Significance For The Evolution Of Tobamoviruses.
J. Mol. Biol. V. 239 371 1994
PubMed-ID: 8201619  |  Reference-DOI: 10.1006/JMBI.1994.1379
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RNA (5'-R(P*GP*AP*A)-3')
    Chains: I
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - CUCUMBER GREEN MOTTLE MOSAIC VIRUS
    Chains: E
    Engineered: YES
    Organism Scientific: CUCUMBER GREEN MOTTLE MOSAIC VIRUS
    Organism Taxid: 12235
    Tissue: WATERMELON

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : EI
Biological Unit 1 (49x): EI

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ACE-1Mod. Amino AcidACETYL GROUP

(-) Sites  (0, 0)

(no "Site" information available for 1CGM)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1CGM)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1CGM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1CGM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1CGM)

(-) Exons   (0, 0)

(no "Exon" information available for 1CGM)

(-) 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 E from PDB  Type:PROTEIN  Length:161
 aligned with CAPSD_CGMVS | P69474 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:161
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160 
          CAPSD_CGMVS     1 MAYNPITPSKLIAFSASYVPVRTLLNFLVASQGTAFQTQAGRDSFRESLSALPSSVVDINSRFPDAGFYAFLNGPVLRPIFVSLLSSTDTRNRVIEVVDPSNPTTAESLNAVKRTDDASTAARAEIDNLIESISKGFDVYDRASFEAAFSVVWSEATTSKA 161
               SCOP domains d1cgme_ E: Cucumber green mottle mosaic virus                                                                                                                     SCOP domains
               CATH domains -1cgmE00 E:1-160  [code=1.20.120.70, no name defined]                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh.......................hhhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhhhhhhh........................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1cgm E   0 xAYNPITPSKLIAFSASYVPVRTLLNFLVASQGTAFQTQAGRDSFRESLSALPSSVVDINSRFPDAGFYAFLNGPVLRPIFVSLLSSTDTRNRVIEVVDPSNPTTAESLNAVKRTDDASTAARAEIDNLIESISKGFDVYDRASFEAAFSVVWSEATTSKA 160
                            |        9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159 
                            |                                                                                                                                                                
                            0-ACE                                                                                                                                                            


Chain E from PDB  Type:PROTEIN  Length:161
 aligned with CAPSD_CGMVW | P69475 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:161
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160 
          CAPSD_CGMVW     1 MAYNPITPSKLIAFSASYVPVRTLLNFLVASQGTAFQTQAGRDSFRESLSALPSSVVDINSRFPDAGFYAFLNGPVLRPIFVSLLSSTDTRNRVIEVVDPSNPTTAESLNAVKRTDDASTAARAEIDNLIESISKGFDVYDRASFEAAFSVVWSEATTSKA 161
               SCOP domains d1cgme_ E: Cucumber green mottle mosaic virus                                                                                                                     SCOP domains
               CATH domains -1cgmE00 E:1-160  [code=1.20.120.70, no name defined]                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh.......................hhhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhhhhhhh........................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1cgm E   0 xAYNPITPSKLIAFSASYVPVRTLLNFLVASQGTAFQTQAGRDSFRESLSALPSSVVDINSRFPDAGFYAFLNGPVLRPIFVSLLSSTDTRNRVIEVVDPSNPTTAESLNAVKRTDDASTAARAEIDNLIESISKGFDVYDRASFEAAFSVVWSEATTSKA 160
                            |        9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159 
                            0-ACE                                                                                                                                                            


Chain I from PDB  Type:RNA  Length:3
                                   
                 1cgm I   1 GAA   3
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1CGM)

(-) Gene Ontology  (4, 8)

Asymmetric Unit(hide GO term definitions)
Chain E   (CAPSD_CGMVW | P69475)
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:0019029    helical viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles; the subunits are arranged to form a protein helix with the genetic material contained within. Tobacco mosaic virus has such a capsid structure.
    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.

Chain E   (CAPSD_CGMVS | P69474)
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:0019029    helical viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles; the subunits are arranged to form a protein helix with the genetic material contained within. Tobacco mosaic virus has such a capsid structure.
    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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