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(-) Description

Title :  CRYSTAL STRUCTURE OF EBOLA GLYCOPROTEIN
 
Authors :  Y. Zhao, J. Ren, D. I. Stuart
Date :  04 May 16  (Deposition) - 29 Jun 16  (Release) - 13 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.23
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Keywords :  Ebola Virus, Filoviridae, Envelope Glycoprotein, Protein Inhibitor Complex, Ibuprofen, Toremifene, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Zhao, J. Ren, K. Harlos, D. M. Jones, A. Zeltina, T. A. Bowden, S. Padilla-Parra, E. E. Fry, D. I. Stuart
Toremifene Interacts With And Destabilizes The Ebola Virus Glycoprotein.
Nature V. 535 168 2016
PubMed-ID: 27362232  |  Reference-DOI: 10.1038/NATURE18615

(-) Compounds

Molecule 1 - ENVELOPE GLYCOPROTEIN 1,ENVELOPE GLYCOPROTEIN 1,ENVELOPE GLYCOPROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293T
    Expression System Common: HUMAN
    Expression System Taxid: 9606
    Gene: GP
    Mutation: YES
    Organism Scientific: EBOLA VIRUS - MAYINGA, ZAIRE, 1976
    Organism Taxid: 128952
    Synonym: GP1,2,GP,GP1,2,GP,GP1,2,GP
 
Molecule 2 - ENVELOPE GLYCOPROTEIN 2
    Chains: B
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293T
    Expression System Common: HUMAN
    Expression System Taxid: 9606
    Gene: GP
    Organism Scientific: EBOLA VIRUS - MAYINGA, ZAIRE, 1976
    Organism Taxid: 128952
    Synonym: GP1,2,GP

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 21)

Asymmetric Unit (5, 21)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2GOL2Ligand/IonGLYCEROL
3MAN2Ligand/IonALPHA-D-MANNOSE
4NAG7Ligand/IonN-ACETYL-D-GLUCOSAMINE
5UNK9Mod. Amino Acid
Biological Unit 1 (4, 36)
No.NameCountTypeFull Name
1BMA3Ligand/IonBETA-D-MANNOSE
2GOL6Ligand/IonGLYCEROL
3MAN6Ligand/IonALPHA-D-MANNOSE
4NAG21Ligand/IonN-ACETYL-D-GLUCOSAMINE
5UNK-1Mod. Amino Acid

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:104 , GLU A:106 , PHE A:290 , HOH A:708 , HIS B:516binding site for residue GOL A 605
2AC2SOFTWAREGLU A:120 , CYS A:121 , LEU A:122 , PRO A:123 , ASP A:150binding site for residue GOL A 606
3AC3SOFTWAREASN A:228binding site for Mono-Saccharide NAG A 603 bound to ASN A 228
4AC4SOFTWAREASN A:238 , LEU A:239binding site for Mono-Saccharide NAG A 602 bound to ASN A 238
5AC5SOFTWARETHR A:217 , LEU A:254 , ASN A:257 , TYR A:261binding site for Mono-Saccharide NAG A 601 bound to ASN A 257
6AC6SOFTWARETHR A:262 , GLY A:264 , LYS A:265 , ASN A:268binding site for Mono-Saccharide NAG A 604 bound to ASN A 268
7AC7SOFTWAREGLU A:156 , GLN B:508 , PHE B:535 , ASN B:563 , THR B:566 , HOH B:804 , HOH B:826 , HOH B:827 , HOH B:842binding site for Poly-Saccharide residues NAG B 702 through MAN B 706 bound to ASN B 563
8AC8SOFTWAREASN B:618 , LYS B:622binding site for Mono-Saccharide NAG B 701 bound to ASN B 618

(-) SS Bonds  (5, 5)

Asymmetric Unit
No.Residues
1A:53 -B:609
2A:108 -A:135
3A:121 -A:147
4B:511 -B:556
5B:601 -B:608

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5JQ3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5JQ3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5JQ3)

(-) Exons   (0, 0)

(no "Exon" information available for 5JQ3)

(-) 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:263
                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee..eeee.............hhh.eeeeeee.hhhh...hhhhhhh.eeee......eee..eee.eeeeeeeeee....................eeeeeeeeee......eeee....eee...eee.........eeeeeeeee...............eeeeeeee.......eeeeeee..eeee.....hhhhhhhhhhhhhhhh........eeeee..................eeee...eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jq3 A  32 SIPLGVIHNSALQVSDVDKLVCRDKLSSTNQLRSVGLNLEGNGVATDVPSATKRWGFRSGVPPKVVNYEAGEWAENCYNLEIKKPDGSECLPAAPDGIRGFPRCRYVHKVSGTGPCAGDFAFHKEGAFFLYDRLASTVIYRGTTFAEGVVAFLILPQAKKDFFSSGYYSTTIRYQATGFGTNETEYLFEVDNLTYVQLESRFTPQFLLQLNETIYTSGKRSNTTGKLIWKVNPEIDTTEWAFWETSEELSFTVVxxxxxxxxx 478
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191   ||  216       226       236       246       256       266       276       288    || 306   ||||475|||
                                                                                                                                                                                             195|                                                                      284|   293|     310||||||478-UNK
                                                                                                                                                                                              211                                                                       287    302      470-UNK||| 
                                                                                                                                                                                                                                                                                         471-UNK|| 
                                                                                                                                                                                                                                                                                          472-UNK| 
                                                                                                                                                                                                                                                                                           473-UNK 
                                                                                                                                                                                                                                                                                            474-UNK
                                                                                                                                                                                                                                                                                             475-UNK
                                                                                                                                                                                                                                                                                              476-UNK
                                                                                                                                                                                                                                                                                               477-UNK


Chain B from PDB  Type:PROTEIN  Length:130
                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeee.................hhhh.eeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh...ee.hhhhhhhhhhhhhhhh.............hhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jq3 B 502 EAIVNAQPKCNPNLHYWTTQDEGAAIGLAWIPYFGPAAEGIYIEGLMHNQDGLICGLRQLANETTQALQLFLRATTELRTFSILNRKAIDFLLQRWGGTCHILGPDCCIEPHDWTKNITDKIDQIIHDFV 631
                                   511       521       531       541       551       561       571       581       591       601       611       621       631
   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 5JQ3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5JQ3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5JQ3)

(-) Gene Ontology  (23, 23)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        VGP_EBOZM | Q05320: 2ebo 2rlj 3csy 5fhc 5hj3 5jq7 5jqb 5kel 5kem 5ken

(-) Related Entries Specified in the PDB File

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