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(-) Description

Title :  CRYSTAL STRUCTURE OF PREFUSION RSV F GLYCOPROTEIN FUSION INHIBITOR RESISTANCE MUTANT D489Y
 
Authors :  M. B. Battles, J. S. Mclellan, E. Arnoult, D. Roymans, J. P. Langedijk
Date :  15 Oct 15  (Deposition) - 09 Dec 15  (Release) - 03 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  F
Biol. Unit 1:  F  (3x)
Keywords :  Class I Viral Fusion Protein, Fusion, Respiratory Syncytial Virus, Prefusion, Viral Protein, Fusion Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. B. Battles, J. P. Langedijk, P. Furmanova-Hollenstein, S. Chaiwatpongsakorn, H. M. Costello, L. Kwanten, L. Vranckx, P. Vink S. Jaensch, T. H. Jonckers, A. Koul, E. Arnoult, M. E. Peeples, D. Roymans, J. S. Mclellan
Molecular Mechanism Of Respiratory Syncytial Virus Fusion Inhibitors.
Nat. Chem. Biol. V. 12 87 2016
PubMed-ID: 26641933  |  Reference-DOI: 10.1038/NCHEMBIO.1982

(-) Compounds

Molecule 1 - FUSION GLYCOPROTEIN F0
    Chains: F
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293 FREESTYLE
    Expression System Common: HUMAN
    Expression System Plasmid: P(ALPHA)H
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Fragment: RSV F ECTODOMAIN (UNP RESIDUES 1-513)
    Mutation: YES
    Organism Scientific: HUMAN RESPIRATORY SYNCYTIAL VIRUS A (STRAIN A2)
    Organism Taxid: 11259
    Strain: A2
    Synonym: PROTEIN F

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : F
Biological Unit 1 (3x): F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1NHE1Ligand/Ion2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
2SO45Ligand/IonSULFATE ION
3TAR1Ligand/IonD(-)-TARTARIC ACID
Biological Unit 1 (3, 21)
No.NameCountTypeFull Name
1NHE3Ligand/Ion2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
2SO415Ligand/IonSULFATE ION
3TAR3Ligand/IonD(-)-TARTARIC ACID

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG F:106 , ALA F:107 , PHE F:137 , ARG F:339binding site for residue SO4 F 601
2AC2SOFTWARESER F:186 , ASN F:426 , ARG F:429binding site for residue SO4 F 602
3AC3SOFTWAREPHE F:137 , GLY F:139 , GLN F:354 , HOH F:720binding site for residue SO4 F 603
4AC4SOFTWARESER F:443 , LYS F:445 , GLY F:464 , SER F:466 , HOH F:705 , HOH F:733binding site for residue SO4 F 604
5AC5SOFTWARELYS F:293 , GLU F:294binding site for residue SO4 F 605
6AC6SOFTWAREPHE F:387 , PHE F:477 , TYR F:478 , ASP F:479 , ILE F:499 , LEU F:503binding site for residue NHE F 606
7AC7SOFTWARETHR F:174 , ASN F:175 , LYS F:176binding site for residue TAR F 607

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1F:37 -F:439
2F:69 -F:212
3F:155 -F:290
4F:313 -F:343
5F:322 -F:333
6F:358 -F:367
7F:382 -F:393
8F:416 -F:422

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Thr F:245 -Pro F:246

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5EA8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5EA8)

(-) Exons   (0, 0)

(no "Exon" information available for 5EA8)

(-) 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 F from PDB  Type:PROTEIN  Length:448
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....eeeeeeeeeeeeeeeeeeeeeee............hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhh.....hhhhhhhhhhhh..hhhhhhhhhh....eeeee.....eeeeeeeeehhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh...ee........hhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.eeeeeee...eeeeeeeeeeeeeeeeeeeeeee..ee..........eeee...eeeeee..eeeee.hhhhheee..eeeee.hhheeehhhhhhhhhh........eee.......eeee...eeeeee.....eeeee...eeeee...eeeeee.....eeee..eeee......eeeee...hhhhhh...........eehhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ea8 F  27 NITEEFYQSTCSAVSKGYLSALRTGWYTSVITIELSNIKENKCNGTDAKVKLIKQELDKYKNAVTELQLLMQSTPNRAFLGFLLGVGSAIASGVAVCKVLHLEGEVNKIKSALLSTNKAVVSLSNGVSVLTFKVLDLKNYIDKQLLPILNKQSCSISNIETVIEFQQKNNRLLEITREFSVNAGVTTPVSTYMLTNSELLSLINDMPITNDQKKLMSNNVQIVRQQSYSIMCIIKEEVLAYVVQLPLYGVIDTPCWKLHTSPLCTTNTKEGSNICLTRTDRGWYCDNAGSVSFFPQAETCKVQSNRVFCDTMNSLTLPSEVNLCNVDIFNPKYDCKIMTSKTDVSSSVITSLGAIVSCYGKTKCTASNKNRGIIKTFSNGCDYVSNKGVDTVSVGNTLYYVNKQEGKSLYVKGEPIINFYDPLVFPSDEFYASISQVNEKINQSLAFI 506
                                    36        46        56        66        76        86        96    || 138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498        
                                                                                                    101| ||                                                                                                                                                                                                                                                                                                                                                                                 
                                                                                                     105 ||                                                                                                                                                                                                                                                                                                                                                                                 
                                                                                                       107|                                                                                                                                                                                                                                                                                                                                                                                 
                                                                                                        137
   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 5EA8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5EA8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5EA8)

(-) Gene Ontology  (12, 12)

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    Thr F:245 - Pro F:246   [ RasMol ]  
 
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  5ea8
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  FUS_HRSVA | P03420
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        FUS_HRSVA | P03420: 2mdp 3ixt 3kpe 3o41 3o45 3rki 3rrr 3rrt 4ccf 4jhw 4mmq 4mmr 4mms 4mmt 4mmu 4mmv 4zyp 5c69 5c6b 5ea3 5ea4 5ea5 5ea6 5ea7 5j3d 5k6b 5k6c 5k6f 5k6g 5k6h 5k6i 5toj 5tok 5tpn 5u68 5udc

(-) Related Entries Specified in the PDB File

4mmu PREFUSION-STABILIZED RSV F GLYCOPROTEIN WITHOUT BOUND INHIBITOR
5ea3
5ea4
5ea5
5ea6
5ea7