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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN ASTROVIRUS CAPSID PROTEIN
 
Authors :  Y. J. Tao, Y. S. Toh
Date :  22 Feb 16  (Deposition) - 03 Aug 16  (Release) - 12 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym./Biol. Unit :  A
Keywords :  Astrovirus, Capsid, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Toh, J. Harper, K. A. Dryden, M. Yeager, C. F. Arias, E. Mendez, Y. J. Tao
Crystal Structure Of The Human Astrovirus Capsid Protein.
J. Virol. V. 90 9008 2016
PubMed-ID: 27466429  |  Reference-DOI: 10.1128/JVI.00694-16

(-) Compounds

Molecule 1 - CAPSID POLYPROTEIN VP90
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: HSSTV-8 CP71-415
    Expression System Taxid: 562
    Expression System Vector Type: PET28
    Fragment: UNP RESIDUES 71-416
    Gene: ORF2
    Organism Common: HASTV-8
    Organism Scientific: HUMAN ASTROVIRUS-8
    Organism Taxid: 43358

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 5IBV)

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:82 -A:254

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Pro A:340 -Pro A:341
2Ala A:360 -Arg A:361
3Arg A:361 -Thr A:362

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5IBV)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5IBV)

(-) Exons   (0, 0)

(no "Exon" information available for 5IBV)

(-) Sequences/Alignments

Asymmetric/Biological 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:324
                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeeeeeeeee.......eeeeeee.............hhhhhhhhhhheeeeeeeeeeeeeee......ee..eeeeeee.......hhhhhhhhh.eeeee....eeeeehhhhhheeeeeeee.....hhhhh...eeeeeee...ee.........eeeeeeeeeeeeeeee..........eeeeeee..eee.......eeee...hhhhhhhhhhh...eee......eeeeeeeeeee..........hhhhhhhheeeeeee........eeeeee.hhhhhhh............eeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ibv A  77 PKPAICQTATATLGTIGSNTTGATEIEACILLNPVLVKDATGSTQFGPVQALGAQYSMWKLKYLNVRLTSmVGASAVNGTVVRISLNPTSTPSSTSWSGLGARKHLDVTVGKNAVFKLKPSDLGGPRDGWWLTNTNDNASDTLGPSIEIHTLGQTmSSYQNTQFTGGLFLVELSSAWCFTGYAANPNLVNLVKSTDKSVNVTFEGSAGTPLImNVPEHSHFARTAVEHSSLSTSLSRAGGESSSDTVWQVLNTAVELVTPPPFNWLVKGGWWFVKLIAGRARTGARRFYVYLSYQDALSNKPALCTGGVPRTTLQFTQmNQPSL 412
                                    86        96       106       116       126       136       146|      156       166       176       186       196       206       216       226     | 236       246       256       266       276       286  |    296       306       316       326    || 339       349       359       369       379       389|      408    
                                                                                                147-MSE                                                                              232-MSE                                                  289-MSE                                   331|                                                   389|     407-MSE 
                                                                                                                                                                                                                                                                                         335                                                    399
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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  (0, 0)

(no "SCOP Domain" information available for 5IBV)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5IBV)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5IBV)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala A:360 - Arg A:361   [ RasMol ]  
    Arg A:361 - Thr A:362   [ RasMol ]  
    Pro A:340 - Pro A:341   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        CAPSD_HASV8 | Q9IFX1: 3qsq

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5IBV)