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(-) Description

Title :  CRYSTAL STRUCTURE OF THE HUMAN ASTROVIRUS 1 CAPSID PROTEIN CORE DOMAIN AT 2.6 A RESOLUTION
 
Authors :  R. L. York, P. A. Yousefi, W. Bogdanoff, S. Haile, S. Tripathi, R. M. Dubo
Date :  20 Nov 15  (Deposition) - 23 Dec 15  (Release) - 24 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Virus Protein, Capsid Protein, Icosahedral Virus, Jelly-Roll, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. L. York, P. A. Yousefi, W. Bogdanoff, S. Haile, S. Tripathi, R. M. Dubois
Structural, Mechanistic, And Antigenic Characterization Of The Human Astrovirus Capsid.
J. Virol. V. 90 2254 2015
PubMed-ID: 26656707  |  Reference-DOI: 10.1128/JVI.02666-15

(-) Compounds

Molecule 1 - STRUCTURAL PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET52B
    Expression System Strain: BL21(DE3) PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 80-429
    Organism Common: HASTV-1
    Organism Scientific: HUMAN ASTROVIRUS-1
    Organism Taxid: 12456

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1CL4Ligand/IonCHLORIDE ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:100 , TRP A:173binding site for residue CL A 501
2AC2SOFTWARESER A:172 , SER A:174 , GLY B:155 , HOH B:617binding site for residue CL A 502
3AC3SOFTWAREGLY A:155 , THR B:100 , TRP B:173binding site for residue CL B 501
4AC4SOFTWAREASN A:154 , GLY A:155 , HOH A:625 , SER B:172 , SER B:174binding site for residue CL B 502

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:82 -A:254
2B:82 -B:254

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Pro A:340 -Pro A:341
2Pro B:340 -Pro B:341

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5EWN)

(-) 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:321
                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee.......eeeeeee..............hhhhhhhhhheeeeeeeeeeeeeee......ee..eeeeeee........hhhhhhhh.eeeee....eeeeehhhhhheeeeeeee.............eeeeeee...ee....ee...eeeeeeeeeeeeeeee..hhhhhh..eeeeeeeeeeee.......eeeee..hhhhhhhhhhh...........eeeeeeeee..hhhhhhh.....hhhhhhh.eeeeeee.......eeeeeee.hhhhhhh...........eeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ewn A  80 AICQRATATLGTVGSNTSGTTEIEACILLNPVLVKDATGSTQFGPVQALGAQYSMWKLKYLNVKLTSMVGASAVNGTVLRVSLNPTSTPSSTSWSGLGARKHLDVTVGKNATFKLKPSDLGGPRDGWWLTNTNDNASDTLGPSIEIHTLGRTMSSYKNEQFTGGLFLVELASEWCFTGYAANPNLVNLVKSTDNQVPVTFEGSAGSPLIMNVSEGSHFARTVLARSTTPTTLAGERTTSDTVWQVLNTAVSAAELVTPPPFNWLVKGGWWFVKLIAGRTRTGSRSFYVYPSYQDALSNKPALCTGSTPVTTTLQFTQMNQP 410
                                    89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309 ||    321       331       341       351       361       371       381      |399       409 
                                                                                                                                                                                                                                                                 311|                                                                       388|             
                                                                                                                                                                                                                                                                  314                                                                        397             


Chain B from PDB  Type:PROTEIN  Length:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee.......eeeeeee.........hhhhhhhhh.eeeeeeeeeeeeeee......ee..eeeeeee........hhhhhhh..eeeee....eeeeehhhhhheeeeeeee.............eeeeeee...ee....ee...eeeeeeeeeeeeeeee..hhhhh...eeeeeeeeeeee.......eeeee..hhhhhhhhhhh.............eeeeeeeeee........hhhhhhh.eeeeeee.......eeeeeee.hhhhhhh............eeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ewn B  80 AICQRATATLGTVGSNTSGTTEIEACILLNPVLVKDQFGPVQALGAQYSMWKLKYLNVKLTSMVGASAVNGTVLRVSLNPTSTPSSTSWSGLGARKHLDVTVGKNATFKLKPSDLGGPRDGWWLTNTNDNASDTLGPSIEIHTLGRTMSSYKNEQFTGGLFLVELASEWCFTGYAANPNLVNLVKSTDNQVPVTFEGSAGSPLIMNVSEGSHFARTVLARSTTPTTLARAGERTTSDTVWQVLNTALVTPPPFNWLVKGGWWFVKLIAGRTRTGSRSFYVYPSYQDALSNKPALCTGSTPPVTTTLQFTQMNQPS 411
                                    89        99       109     ||124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324     ||339       349       359       369       379       389|      406     
                                                             115|                                                                                                                                                                                                              330|                                                  389|              
                                                              121                                                                                                                                                                                                               336                                                   397
   Legend:   → Mismatch (orange background)
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  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 5EWN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 5EWN)

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  5ewn
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 Related Entries

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UniProtKB/TrEMBL
        Q82452_HASV1 | Q82452: 5ewo

(-) Related Entries Specified in the PDB File

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