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(-) Description

Title :  STRUCTURE OF A MAJOR IMMUNOGENIC SITE ON FOOT-AND-MOUTH DISEASE VIRUS
 
Authors :  D. T. Logan, S. Lea, R. Lewis, D. Stuart, E. Fry
Date :  27 Oct 93  (Deposition) - 31 Jan 94  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  1,2,3,4
Biol. Unit 1:  1,2,3,4  (60x)
Keywords :  Virus, Icosahedral Virus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Logan, R. Abu-Ghazaleh, W. Blakemore, S. Curry, T. Jackson, A. King, S. Lea, R. Lewis, J. Newman, N. Parry, D. Rowlands, D. Stuart, E. Fry
Structure Of A Major Immunogenic Site On Foot-And-Mouth Disease Virus.
Nature V. 362 566 1993
PubMed-ID: 8385272  |  Reference-DOI: 10.1038/362566A0
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FOOT AND MOUTH DISEASE VIRUS
    Chains: 1
    Engineered: YES
    Organism Scientific: FOOT-AND-MOUTH DISEASE VIRUS
    Organism Taxid: 12110
    Strain: STRAIN BFS, 1860
 
Molecule 2 - FOOT AND MOUTH DISEASE VIRUS
    Chains: 2
    Engineered: YES
    Organism Scientific: FOOT-AND-MOUTH DISEASE VIRUS
    Organism Taxid: 12110
    Strain: STRAIN BFS, 1860
 
Molecule 3 - FOOT AND MOUTH DISEASE VIRUS
    Chains: 3
    Engineered: YES
    Organism Scientific: FOOT-AND-MOUTH DISEASE VIRUS
    Organism Taxid: 12110
    Strain: STRAIN BFS, 1860
 
Molecule 4 - FOOT AND MOUTH DISEASE VIRUS
    Chains: 4
    Engineered: YES
    Organism Scientific: FOOT-AND-MOUTH DISEASE VIRUS
    Organism Taxid: 12110
    Strain: STRAIN BFS, 1860

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : 1234
Biological Unit 1 (60x): 1234

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1FOD)

(-) Sites  (0, 0)

(no "Site" information available for 1FOD)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala 1:110 -Pro 1:111
2Leu 2:83 -Pro 2:84

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1FOD)

(-) 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 1 from PDB  Type:PROTEIN  Length:210
 aligned with Q84771_FMDVO | Q84771 from UniProtKB/TrEMBL  Length:720

    Alignment length:210
                                   517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717
         Q84771_FMDVO   508 TTSAGESADPVTTTVENYGGETQIQRRQHTDVSFIMDRFVKVTPQNQINILDLMQIPSHTLVGALLRASTYYFSDLEIAVKHEGDLTWVPNGAPEKALDNTTNPTAYHKAPLTRLALPYTAPHRVLATVYNGECRYNRNAVPNLRGDLQVLAQKVARTLPTSFNYGAIKATRVTELLYRMKRAETYCPRPLLAIHPTEARHKQKIVAPVK 717
               SCOP domains d1fod1_ 1: Aphthovirus (Foot-and-mouth disease virus) coat proteins                                                                                                                                                SCOP domains
               CATH domains 1fod100 1:1-210  [code=2.60.120.20, no name defined]                                                                                                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............hhhhhh.......hhhhhhhhhhh..eee.....eee.hhhhh...hhhhhhhhheeeeeeeeeeeeeee..eeee....hhhhhhh....ee......eeeee........ee.................eehhhhhhhhhhh.........eee..eeeeeeeeeeeeeeeee...................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1fod 1   1 TTSAGESADPVTTTVENYGGETQIQRRQHTDVSFIMDRFVKVTPQNQINILDLMQVPSHTLVGGLLRASTYYFSDLEIAVKHEGDLTWVPNGAPEKALDNTTNPTAYHKAPLTRLALPYTAPHRVLATVYNGECRYSRNAVPNLRGDLQVLAQKVARTLPTSFNYGAIKATRVTELLYRMKRAETYCPRPLLAIHPTEARHKQKIVAPVK 210
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210


Chain 2 from PDB  Type:PROTEIN  Length:214
 aligned with Q84771_FMDVO | Q84771 from UniProtKB/TrEMBL  Length:720

    Alignment length:214
                                    83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283    
         Q84771_FMDVO    74 EETTLLEDRILTTRNGHTTSTTQSSVGVTYGYATAEDFVSGPNTSGLETRVVQAERFFKTHLFDWVTSDSFGRCHLLELPTDHKGVYGSLTDSYAYMRNGWDVEVTAVGNQFNGGCLLVAMVPELYSIQKRELYQLTLFPHQFINPRTNMTAHITVPFVGVNRYDQYKVHKPWTLVVMVVAPLTVNTEGAPQIKVYANIAPTNVHVAGEFPSKE 287
               SCOP domains d1fod.1 4:,2: Aphthovirus (Foot-and-mouth disease virus) coat proteins                                                                                                                                                 SCOP domains
               CATH domains 1fod200 2:5-218  [code=2.60.120.20, no name defined]                                                                                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeee..eeeee......ee..........hhhhh...ee.hhhh..eeeeeeee........eeeeee.....hhhhhhh..eeeeeeeeeeeeee......eeeeeeeeee.....hhhhhhhhhhh.eeee......eeeeee................eeeeeeeeeeee........eeeeeeeeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1fod 2   5 EETTLLEDRILTTRNGHTTSTTQSSVGVTYGYATAEDFVSGPNTSGLETRVVQAERFFKTHLFDWVTSDSFGRCHLLELPTDHKGVYGSLTDSYAYMRNGWDVEVTAVGNQFNGGCLLVAMVPELCSIQKRELYQLTLFPHQFINPRTNMTAHITVPFVGVNRYDQYKVHKPWTLVVMVVAPLTVNTEGAPQIKVYANIAPTNVHVAGEFPSKE 218
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214    


Chain 3 from PDB  Type:PROTEIN  Length:220
 aligned with Q84771_FMDVO | Q84771 from UniProtKB/TrEMBL  Length:720

    Alignment length:220
                                   297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507
         Q84771_FMDVO   288 GIFPVACSDGYGGLVTTDPKTADPVYGKVFNPPRNQLPGRFTNLLDVAEACPTFLRFEGGVPYVTTKTDSDRVLAQFDMSLAAKQMSNTFLAGLAQYYTQYSGTINLHFMFTGPTDAKARYMVAYAPPGMEPPKTPEAAAHCIHAEWDTGLNSKFTFSIPYLSAADYAYTASGVAETTNVQGWVCLFQITHGKADGDALVVLASAGKDFELRLPVDARAE 507
               SCOP domains d1fod3_ 3: Aphthovirus (Foot-and-mouth disease virus) coat proteins                                                                                                                                                          SCOP domains
               CATH domains 1fod300 3:1-220  [code=2.60.120.20, no name defined]                                                                                                                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........................................hhhhhhhhh.ee........eee.......eeeeee..........hhhhhhhh.eeeee..eeeeeee......eeeeeeeee........hhhhhh..eeeeee.....eeeeee........ee.............eeeeeeeeee.....eeeeeeee....eeeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1fod 3   1 GIFPVACSDGYGGLVTTDPKTADPVYGKVFNPPRNQLPGRFTNLLDVAEACPTFLRFEGGVPYVTTKTDSDRVLAQFDMSLAAKHMSNTFLAGLAQYYTQYSGTINLHFMFTGPTDAKARYMVAYAPPGMEPPKTPEAAAHCIHAEWDTGLNSKFTFSIPYLSAADYTYTASDVAETTNVQGWVCLFQITHGKADGDALVVLASAGKDFELRLPVDARAE 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220


Chain 4 from PDB  Type:PROTEIN  Length:47
 aligned with P87677_9PICO | P87677 from UniProtKB/TrEMBL  Length:736

    Alignment length:71
                                    24        34        44        54        64        74        84 
         P87677_9PICO    15 SGNTGSIINNYYMQQYQNSMDTQLGDNAISGGSNEGSTDTTSTHTTNTQNNDWFSKLASSAFSGLFGALLA  85
               SCOP domains d1fod.1 4:,2: Aphthovirus                         (Foot-and-mouth disea SCOP domains
               CATH domains 1fod400 4:15-85 Foot-And-M                        outh Disease Virus, s CATH domains
               Pfam domains ----------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhh........------------------------hhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------- Transcript
                 1fod 4  15 SGNTGSIINNYYMQQYQNSMDTQLGD------------------------NDWFSKLASSAFSGLFGALLA  85
                                    24        34     |   -         -         -|       74        84 
                                                    40                       65
   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, 3)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Few Secondary Structures (1120)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 8)

Asymmetric Unit(hide GO term definitions)
Chain 1,2,3   (Q84771_FMDVO | Q84771)
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:0019030    icosahedral viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles; the subunits are arranged to form an icosahedron, a solid with 20 faces and 12 vertices. Icosahedral capsids have 12 pentamers plus 10(T-1) hexamers, where T is the triangulation number. Tobacco satellite necrosis 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 4   (P87677_9PICO | P87677)
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:0019030    icosahedral viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles; the subunits are arranged to form an icosahedron, a solid with 20 faces and 12 vertices. Icosahedral capsids have 12 pentamers plus 10(T-1) hexamers, where T is the triangulation number. Tobacco satellite necrosis 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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 Related Entries

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

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