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(-) Description

Title :  STRUCTURE AND GENOME RELEASE MECHANISM OF HUMAN CARDIOVIRUS SAFFOLD VIRUS-3
 
Authors :  E. Mullapudi, J. Novacek, L. Palkova, P. Kulich, M. Lindberg, F. J. M. Vankuppeveld, P. Plevka
Date :  15 Jul 15  (Deposition) - 08 Jun 16  (Release) - 31 Aug 16  (Revision)
Method :  ELECTRON MICROSCOPY
Resolution :  10.60
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (60x)
Keywords :  Viral Protein, Saffold, Virus, Cardiovirus, Picornavirales, A, Altered, Virion, Particle, Capsid, Genome, Rna, Ssrna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Mullapudi, J. Novacek, L. Palkova, P. Kulich, A. M. Lindberg, F. J. M. Van Kuppeveld, P. Plevka
Structure And Genome Release Mechanism Of Human Cardiovirus Saffold Virus-3.
J. Virol. V. 90 7628 2016
PubMed-ID: 27279624  |  Reference-DOI: 10.1128/JVI.00746-16

(-) Compounds

Molecule 1 - HUMAN SAFFOLD VIRUS-3 VP1
    Chains: A
    Organism Scientific: SAFFOLD VIRUS
    Organism Taxid: 434309
 
Molecule 2 - GENOME POLYPHUMAN SAFFOLD VIRUS-3 VP3 PROTEIN
    Chains: B
    Organism Scientific: SAFFOLD VIRUS
    Organism Taxid: 434309
 
Molecule 3 - HUMAN SAFFOLD VIRUS-3 VP2
    Chains: C
    Organism Scientific: SAFFOLD VIRUS
    Organism Taxid: 434309

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5A8F)

(-) Sites  (0, 0)

(no "Site" information available for 5A8F)

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1B:87 -B:89

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Pro A:106 -Pro A:107
2Leu C:84 -Pro C:85

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5A8F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5A8F)

(-) Exons   (0, 0)

(no "Exon" information available for 5A8F)

(-) 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:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeee...........ee..ee.eee.....ee........ee....................hhhhhhh..eeeeeeeeeeeeee......eeeeeee................hhhhh....eeeee......eeeeee........ee.........................eeeee..eeeeeeeeeeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5a8f A  34 SFFYDRSTLSSVLQSTSDVSSKFTPSTAKNLQNSILLTPLPSDIVNNSVLPEQERWISFASPTTQKPPYKTKQDWNFIMFSPFTYYKCDLEVTLSKNDRETISSVVRYVPCGAPSDLSDQTMPQTPSLADTRDPHMWVVGQGTTNQISFVIPYTSPLSVLPSVWFNGFSNFDNSSRFGVAPNADFGRLLLQGQGTFSVHYRYKKMRVFCPRPTVFIPWP 260
                                    43        53        63        73        89        99       109       119       129       139       149       159       169       179       191       201       211       221       231       241       251         
                                                                           82|                                                                                                188|                                                                     
                                                                            89                                                                                                 191                                                                     


Chain B from PDB  Type:PROTEIN  Length:189
                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh..ee..ee.....ee.eeee.........eeee....hhhhh.hhhhhhhh.eeeee..eeeeeee......eeeeeeeee........hhhhhh..eeeeee.....eeeeee........ee.............eeeeeeeeeee........eeeeeeeee....eeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5a8f B  44 LLSLCKIPTFLGNLDSNKKRIPYFSATNSTPATPLVTYQVTLSCSCMANSMLAAVARNFNQYRGSLNYLFVFTGSAMTKGKFLISYTPPGAGEPKTLDQAMQATYAIWDLGLNSSYNFTVPFISPTHYRQTSYNTPTITSVDGWLTVWQLTPLTYPLGVPNDSHILTLVSGGDDFTLRMPVTFTKYVPQ 232
                                    53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223         


Chain C from PDB  Type:PROTEIN  Length:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeee..eeeee.....eee.hhh........................eeeeeeee........eeeeeehhhhhhhhhhhhhhhhh.eeeeeeeeeeeee.......eeeeeeeeee...........................hhhhh........hhhhhh.......hhhhhhhh.eeeee.....eeeeee.........hhhh...eeeeeeeeeeee........eeeeeeeeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5a8f C  11 SDRVSSDTAGNTATNTQSTVGRLFGFGQRHKGKHPASCADTATDKVLAAERYYTIKLASWTKTQESFDHIRVPLPHALAGENGGVFSSTLRRHYLCKCGWRIQVQCNASQFHAGSLLVFMAPEFDTSNHSTEVEPRADTAFKVDANWQKHAQILTGHAYVNTTTKVNVPLALNHQNFWQWTTYPHQILNLRTNTTCDLEVPYVNVCPTSSWTQHANWTLVIAVLTPLQYSQGSATTIEITASIQPVKPVFNGLRHTVV 268
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260
   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  (0, 0)

(no "SCOP Domain" information available for 5A8F)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5A8F)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5A8F)

(-) Gene Ontology  (36, 71)

Asymmetric Unit(hide GO term definitions)

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  Ligands, Modified Residues, Ions
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  Sites
(no "Sites" information available for 5a8f)
 
  Cis Peptide Bonds
    Leu C:84 - Pro C:85   [ RasMol ]  
    Pro A:106 - Pro A:107   [ RasMol ]  
 
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 Related Entries

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        C0MHL9_9PICO | C0MHL9: 5cfc 5cfd

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