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(-) Description

Title :  CRYSTAL STRUCTURE OF TRUNCATED BOVINE VIRAL DIARRHEA VIRUS 1 E2 ENVELOPE PROTEIN
 
Authors :  Y. Modis, Y. Li, J. Wang
Date :  30 Dec 12  (Deposition) - 10 Apr 13  (Release) - 08 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.27
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Bvdv1, Viral Envelope Protein, Viral Membrane Fusion, E1 Envelope Protein, 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 Common: CABBAGE LOOPER
    Expression System Plasmid: PACGP67A
    Expression System Taxid: 7111
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL TRUNCATED BVDV1 E2 ENVELOPE PROTEIN, UNP RESIDUES 781-1030
    Organism Common: BVDV
    Organism Scientific: BOVINE VIRAL DIARRHEA VIRUS 1-NADL
    Organism Taxid: 11100
    Synonym: GP55

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 24)

Asymmetric/Biological Unit (3, 24)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
2IUM4Ligand/IonURANYL (VI) ION
3NAG16Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:788BINDING SITE FOR RESIDUE CA A 2409
02AC2SOFTWAREARG A:849 , ASP A:885BINDING SITE FOR RESIDUE CA A 2410
03AC3SOFTWARELEU A:947BINDING SITE FOR RESIDUE CA A 2411
04AC4SOFTWAREASP B:1021BINDING SITE FOR RESIDUE CA B 2409
05AC5SOFTWARETHR A:985 , GLU A:1023 , GLU B:974BINDING SITE FOR RESIDUE IUM B 2410
06AC6SOFTWAREASP A:783 , GLU B:906 , GLU B:908 , LYS B:953 , IUM B:2412BINDING SITE FOR RESIDUE IUM B 2411
07AC7SOFTWAREGLU B:906 , GLU B:908 , IUM B:2411BINDING SITE FOR RESIDUE IUM B 2412
08AC8SOFTWAREASP A:799 , ASP B:799BINDING SITE FOR RESIDUE IUM B 2413
09AC9SOFTWAREASN A:809 , NAG B:2401BINDING SITE FOR LINKED RESIDUES A 2401 to 2402
10BC1SOFTWARECYS A:822 , GLY A:859 , ILE A:861 , ASN A:878 , ARG B:805 , GLY B:806BINDING SITE FOR LINKED RESIDUES A 2403 to 2404
11BC2SOFTWARELYS A:890 , ASN A:922 , NAG B:2406BINDING SITE FOR LINKED RESIDUES A 2405 to 2406
12BC3SOFTWARESER A:977 , ASN A:990BINDING SITE FOR LINKED RESIDUES A 2407 to 2408
13BC4SOFTWARELEU A:813 , TRP A:879 , NAG A:2401 , NAG A:2402 , ASN B:809 , TRP B:879BINDING SITE FOR LINKED RESIDUES B 2401 to 2402
14BC5SOFTWAREGLY B:859 , ASN B:878BINDING SITE FOR LINKED RESIDUES B 2403 to 2404
15BC6SOFTWARENAG A:2406 , ASN B:922BINDING SITE FOR LINKED RESIDUES B 2405 to 2406
16BC7SOFTWAREASN B:990BINDING SITE FOR LINKED RESIDUES B 2407 to 2408

(-) SS Bonds  (13, 13)

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

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Tyr A:913 -Pro A:914
2Gly A:945 -Thr A:946
3Glu A:1001 -Pro A:1002
4Gly B:876 -Gly B:877
5Glu B:1001 -Pro B:1002

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ILD)

(-) 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:235
                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee......eee.......eee.....eeee..eeee.......eeeeeeee......eeeeeeeee............eeee..eeeeeee......eeeee.......eeeeee..eee............eeee......ee......ee..eee.....eeeee..eeeeeee.....ee.............eeeeeee....ee...........ee...eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ild A  783 DVVEMDDNFEFGLCPCDAKPIVRGKFNTTLLNGPAFQMVCPIGWTGTVSCTSFNMDTLATTVVRTYRRSKPFPHRQGCITQKNLGEDLHNCILGGNWTCVPGDQLLYKGGSIESCKWCGYQFKESEGLPHYPIGKCKLENETGYRLVDSTSCNREGVAIVPQGTLKCKIGKTTVQVIAMDTKLGPMPCRPYEIISSTACTFNYTKTLKNKYFEPRDSYFQQYMLKGEYQYWFDLE 1023
                                   792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972     ||988       998      1008      1018     
                                                                                                                                                                                                                             978|                                      
                                                                                                                                                                                                                              985                                      


Chain B from PDB  Type:PROTEIN  Length:237
                                                                                                                                                                                                                                                                              
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee......eee.....ee........eeee..eeee.......ee..ee..........eee.eee.............eee..eee......................eeeeee..eee............eeee.....eee......ee..eee.....eeeee..eeeeeee.....ee................eeeeee....ee...........ee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ild B  783 DVVEMDDNFEFGLCPCDAKPIVRGKFNTTLLNGPAFQMVCPIGWTGTVSCTSFNMDTLATTVVRTYRRSKPFPHRQGCITQKNLGEDLHNCILGGNWTCVPGDQLLYKGGSIESCKWCGYQFKESEGLPHYPIGKCKLENETGYRLVDSTSCNREGVAIVPQGTLKCKIGKTTVQVIAMDTKLGPMPCRPYEIISSEKTACTFNYTKTLKNKYFEPRDSYFQQYMLKGEYQYWFDLE 1023
                                   792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972     ||986       996      1006      1016       
                                                                                                                                                                                                                             978|                                        
                                                                                                                                                                                                                              983
   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 4ILD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (55, 55)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Glu A:1001 - Pro A:1002   [ RasMol ]  
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    Gly A:945 - Thr A:946   [ RasMol ]  
    Gly B:876 - Gly B:877   [ RasMol ]  
    Tyr A:913 - Pro A:914   [ RasMol ]  
 

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

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