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(-) Description

Title :  PRIMARY STRUCTURE OF SESBANIA MOSAIC VIRUS COAT PROTEIN: ITS IMPLICATIONS TO THE ASSEMBLY AND ARCHITECTURE OF THE VIRUS
 
Authors :  M. Bhuvaneshwari, M. R. N. Murthy
Date :  16 Jun 95  (Deposition) - 15 Sep 95  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (60x)
Keywords :  Coat Protein (Viral), Icosahedral Virus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Bhuvaneshwari, H. S. Subramanya, K. Gopinath, H. S. Savithri, M. V. Nayudu, M. R. Murthy
Structure Of Sesbania Mosaic Virus At 3 A Resolution.
Structure V. 3 1021 1995
PubMed-ID: 8589997  |  Reference-DOI: 10.1016/S0969-2126(01)00238-6
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SESBANIA MOSAIC VIRUS COAT PROTEIN
    Chains: A, B, C
    Organism Scientific: SESBANIA MOSAIC VIRUS
    Organism Taxid: 12558

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (60x): ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:138 , ASP A:141 , TYR B:199 , ASN B:259 , LEU B:260BINDING SITE FOR RESIDUE CA A 300
2AC2SOFTWAREASP B:138 , ASP B:141 , TYR C:199 , ASN C:259 , LEU C:260BINDING SITE FOR RESIDUE CA C 302
3AC3SOFTWARETYR A:199 , ASN A:259 , LEU A:260 , ASP C:138 , ASP C:141BINDING SITE FOR RESIDUE CA A 303

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:169 -A:176
2B:169 -B:176
3C:169 -C:176

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1SMV)

(-) 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:196
 aligned with Q9EB06_9VIRU | Q9EB06 from UniProtKB/TrEMBL  Length:268

    Alignment length:197
                                    81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       
         Q9EB06_9VIRU    72 GGITVLTHSELSAEIGVTDSIVVSSELVMPYTVGTWLRGVAANWSKYSWLSVRYTYIPSCPSSTAGSIHMGFQYDMADTVPVSVNQLSNLRGYVSGQVWSGSAGLCFINGTRCSDTSTAISTTLDVSKLGKKWYPYKTSADYATAVGVDVNIATPLVPARLVIALLDGSSSTAVAAGRIYCTYTIQMIEPTASALNN 268
               SCOP domains d1smva _ A: Sobemovirus coat protein                                                                                                                                                                  SCOP domains
               CATH domains 1smvA0 0 A:65-260  [code=2.60.120.20, no name defined]                                                                                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee-eeeeeeee......eeeeee..hhhh.hhhhhhhhh..eeeeeeeeeeeee........eeeeeee..........hhhhhh....eeee....hhhhhhh.......hhh..eee...............hhhhhhhhhh.hhhh......eeeeeee..........eeeeeeeeeeee....hhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1smv A  65 GAITVL-HCELTAEIGVTDSIVVSSELVMPYTVGTWLRGVADNWSKYSWLSVRYTYIPSCPSSTAGSIHMGFQYDMADTVPVSVNKLSNLRGYVSGQVWSGSAGLCFINNSRCSDTSTAISTTLDVSELGKKWYPYKTSADYATAVGVDVNIATDLVPARLVIALLDGSSSTAVAAGRIYDTYTIQMIEPTASALNL 260
                                 | |73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       
                                70 |                                                                                                                                                                                             
                                  71                                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:196
 aligned with Q9EB06_9VIRU | Q9EB06 from UniProtKB/TrEMBL  Length:268

    Alignment length:197
                                    81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       
         Q9EB06_9VIRU    72 GGITVLTHSELSAEIGVTDSIVVSSELVMPYTVGTWLRGVAANWSKYSWLSVRYTYIPSCPSSTAGSIHMGFQYDMADTVPVSVNQLSNLRGYVSGQVWSGSAGLCFINGTRCSDTSTAISTTLDVSKLGKKWYPYKTSADYATAVGVDVNIATPLVPARLVIALLDGSSSTAVAAGRIYCTYTIQMIEPTASALNN 268
               SCOP domains d1smvb _ B: Sobemovirus coat protein                                                                                                                                                                  SCOP domains
               CATH domains 1smvB0 0 B:65-260  [code=2.60.120.20, no name defined]                                                                                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee-eeeeeeee......eeeeee..hhhh.hhhhhhhhh..eeeeeeeeeeeee........eeeeeee..........hhhhhh....eeee....hhhhhhh...........eeee..hhh..........hhhhhhhhhh.hhhhh.....eeeeeee..........eeeeeeeeeeee....hhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1smv B  65 GAITVL-HCELTAEIGVTDSIVVSSELVMPYTVGTWLRGVADNWSKYSWLSVRYTYIPSCPSSTAGSIHMGFQYDMADTVPVSVNKLSNLRGYVSGQVWSGSAGLCFINNSRCSDTSTAISTTLDVSELGKKWYPYKTSADYATAVGVDVNIATDLVPARLVIALLDGSSSTAVAAGRIYDTYTIQMIEPTASALNL 260
                                 | |73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       
                                70 |                                                                                                                                                                                             
                                  71                                                                                                                                                                                             


Chain C from PDB  Type:PROTEIN  Length:222
 aligned with Q9EB06_9VIRU | Q9EB06 from UniProtKB/TrEMBL  Length:268

    Alignment length:223
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
         Q9EB06_9VIRU    46 QAGISMAPSAQGAMVRIRNPAVSSSRGGITVLTHSELSAEIGVTDSIVVSSELVMPYTVGTWLRGVAANWSKYSWLSVRYTYIPSCPSSTAGSIHMGFQYDMADTVPVSVNQLSNLRGYVSGQVWSGSAGLCFINGTRCSDTSTAISTTLDVSKLGKKWYPYKTSADYATAVGVDVNIATPLVPARLVIALLDGSSSTAVAAGRIYCTYTIQMIEPTASALNN 268
               SCOP domains d1smvc_ C: Sobemovirus coat prot ein                                                                                                                                                                                            SCOP domains
               CATH domains 1smvC00 C:39-260  [code=2.60.120 .20, no name defined]                                                                                                                                                                          CATH domains
           Pfam domains (1) Viral_coat-1smvC01 C:39-257     -                                                                                                                                                                                           --- Pfam domains (1)
           Pfam domains (2) Viral_coat-1smvC02 C:39-257     -                                                                                                                                                                                           --- Pfam domains (2)
           Pfam domains (3) Viral_coat-1smvC03 C:39-257     -                                                                                                                                                                                           --- Pfam domains (3)
         Sec.struct. author ....................eeee....eeee-eeeeeeee......eeeeee..hhhh.hhhhhhhhh..eeeeeeeeeeeee........eeeeeee..........hhhhhh....eeee....hhhhhhhh..........eeee..hhh..........hhhhhhhhhh.hhhh......eeeeeee..........eeeeeeeeeeee....hhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1smv C  39 QAGISMAPSAQGAMVRIRNPAVSSSRGAITVL-HCELTAEIGVTDSIVVSSELVMPYTVGTWLRGVADNWSKYSWLSVRYTYIPSCPSSTAGSIHMGFQYDMADTVPVSVNKLSNLRGYVSGQVWSGSAGLCFINNSRCSDTSTAISTTLDVSELGKKWYPYKTSADYATAVGVDVNIATDLVPARLVIALLDGSSSTAVAAGRIYDTYTIQMIEPTASALNL 260
                                    48        58        68 | |    77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257   
                                                          70 |                                                                                                                                                                                             
                                                            71
   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, 3)

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

(-) CATH Domains  (1, 3)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 3)

Asymmetric Unit
(-)
Clan: Viral_ssRNA_CP (106)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (Q9EB06_9VIRU | Q9EB06)
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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q9EB06_9VIRU | Q9EB06: 1vak 1vb2 1vb4 1x33 1x35 1x36 2vq0 2wlp 4y4y 4y5z

(-) Related Entries Specified in the PDB File

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