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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ECTODOMAIN OF BOVINE VIRAL DIARRHEA VIRUS 1 E2 ENVELOPE PROTEIN
 
Authors :  Y. Li, J. Wang, Y. Modis
Date :  15 Mar 13  (Deposition) - 17 Apr 13  (Release) - 22 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  4.09
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Bvdv1, E2, Viral Envelope Protein, E2 Envelope Protein, Viral Membrane Fusion, Viral Surface Membrane, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Li, J. Wang, R. Kanai, Y. Modis
Crystal Structure Of Glycoprotein E2 From Bovine Viral Diarrhea Virus.
Proc. Natl. Acad. Sci. Usa V. 110 6805 2013
PubMed-ID: 23569276  |  Reference-DOI: 10.1073/PNAS.1300524110

(-) Compounds

Molecule 1 - ENVELOPE GLYCOPROTEIN E2
    Chains: A, B
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Expression System Vector Type: PACGP67A
    Fragment: ECTODOMAIN (UNP RESIDUES 693-1030)
    Organism Common: BVDV
    Organism Scientific: BOVINE VIRAL DIARRHEA VIRUS 1
    Organism Taxid: 11099
    Synonym: GP55

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 16)

Asymmetric/Biological Unit (1, 16)
No.NameCountTypeFull Name
1NAG16Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:809 , TRP A:879 , THR B:811 , TRP B:879BINDING SITE FOR LINKED RESIDUES A 2401 to 2402
2AC2SOFTWAREGLY A:859 , ASN A:878BINDING SITE FOR LINKED RESIDUES A 2403 to 2404
3AC3SOFTWARELYS A:890 , ASN A:922 , GLU A:923BINDING SITE FOR LINKED RESIDUES A 2405 to 2406
4AC4SOFTWAREASN A:990 , TRP A:1019BINDING SITE FOR LINKED RESIDUES A 2407 to 2408
5AC5SOFTWAREASN B:809BINDING SITE FOR LINKED RESIDUES B 2401 to 2402
6AC6SOFTWAREGLY A:806 , THR A:827 , CYS B:822 , GLN B:858 , GLY B:859 , ASN B:878BINDING SITE FOR LINKED RESIDUES B 2403 to 2404
7AC7SOFTWAREGLN B:863 , LYS B:890 , ASN B:922 , GLU B:923 , ARG B:927BINDING SITE FOR LINKED RESIDUES B 2405 to 2406
8AC8SOFTWAREGLU A:699 , ARG A:764 , ASN B:990 , TRP B:1019BINDING SITE FOR LINKED RESIDUES B 2407 to 2408

(-) SS Bonds  (16, 16)

Asymmetric/Biological Unit
No.Residues
1A:696 -A:740
2A:751 -A:798
3A:796 -A:832
4A:822 -A:860
5A:873 -A:881
6A:897 -A:918
7A:900 -A:934
8A:949 -A:970
9A:987 -B:987
10B:696 -B:740
11B:796 -B:832
12B:822 -B:860
13B:873 -B:881
14B:897 -B:918
15B:900 -B:934
16B:949 -B:970

(-) Cis Peptide Bonds  (9, 9)

Asymmetric/Biological Unit
No.Residues
1Glu A:741 -Asp A:742
2Asp A:742 -Gly A:743
3Lys A:780 -Gln A:781
4Tyr A:913 -Pro A:914
5Gly A:945 -Thr A:946
6Glu A:1001 -Pro A:1002
7Tyr B:913 -Pro B:914
8Gly B:945 -Thr B:946
9Glu B:1001 -Pro B:1002

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JNT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JNT)

(-) Exons   (0, 0)

(no "Exon" information available for 4JNT)

(-) 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 ......eeeeeeeeeeee..eeeee....ee.....eee....eeee....eee........eeeeeee...hhhhheeeeee........ee......eee........eee....eeee..eeee.......eeeeeeee......eeeeeeeee............eeee..eeeeeee......eeeee.......eeeeee..eee............eeee......ee..........eee.....eeeee..eeeeeee.....ee...ee...ee...eeeeeee....ee...........ee...eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4jnt A  694 LDCKPEFSYAIAKDERIGQLGAEGLTTTWKEYSPGMKLEDTMVIAWCEDGKLMYLQRCTRETRYLAILHTRALPTSVVFKKLFDGRKQEDVVEMDDNFEFGLCPCDAKPIVRGKFNTTLLNGPAFQMVCPIGWTGTVSCTSFNMDTLATTVVRTYRRSKPFPHRQGCITQKNLGEDLHNCILGGNWTCVPGDQLLYKGGSIESCKWCGYQFKESEGLPHYPIGKCKLENETGYRLVDSTSCNREGVAIVPQGTLKCKIGKTTVQVIAMDTKLGPMPCRPYEIISSTACTFNYTKTLKNKYFEPRDSYFQQYMLKGEYQYWFDLE 1023
                                   703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963       973    || 989       999      1009      1019    
                                                                                                                                                                                                                                                                                                                      978|                                      
                                                                                                                                                                                                                                                                                                                       985                                      


Chain B from PDB  Type:PROTEIN  Length:324
                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeee....ee..ee.......ee.....eee...eeeee....eeeee......eeeeeee...hhhhheeeeee........ee......eee.......eeee....eeee..eeee.......eeee..ee......ee...eeee............eeee..eeeeeee......eeeee.......eeeeee..eee............eeee......ee......ee..eee.....eeeee..eeeeeee..........ee...ee...eeeeeee..........hhhhh.......eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4jnt B  694 LDCKPEFSYAIAKDERIGQLGAEGLTTTWKEYSPGMKLEDTMVIAWCEDGKLMYLQRCTRETRYLAILHTRALPTSVVFKKLFDGRKQEDVVEMDDNFEFGLCPCDAKPIVRGKFNTTLLNGPAFQMVCPIGWTGTVSCTSFNMDTLATTVVRTYRRSKPFPHRQGCITQKNLGEDLHNCILGGNWTCVPGDQLLYKGGSIESCKWCGYQFKESEGLPHYPIGKCKLENETGYRLVDSTSCNREGVAIVPQGTLKCKIGKTTVQVIAMDTKLGPMPCRPYEIISSTACTFNYTKTLKNKYFEPRDSYFQQYMLKGEYQYWFDLE 1023
                                   703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963       973    || 989       999      1009      1019    
                                                                                                                                                                                                                                                                                                                      978|                                      
                                                                                                                                                                                                                                                                                                                       985
   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 4JNT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JNT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JNT)

(-) Gene Ontology  (55, 55)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp A:742 - Gly A:743   [ RasMol ]  
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    Gly A:945 - Thr A:946   [ RasMol ]  
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    Lys A:780 - Gln A:781   [ RasMol ]  
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 Related Entries

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        POLG_BVDVN | P19711: 1s48 1s49 1s4f 4ild

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