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(-) Description

Title :  CRYSTAL STRUCTURE OF PREFUSION-STABILIZED RSV F VARIANT DS-CAV1-TRIC AT PH 9.5
 
Authors :  G. B. E. Stewart-Jones, J. S. Mclellan, M. G. Joyce, M. Sastry, Y. Yang, B. S. Graham, P. D. Kwong
Date :  09 Sep 13  (Deposition) - 20 Nov 13  (Release) - 20 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.81
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Keywords :  Fusion, Membrane, Viral Protein, Structure-Based Vaccine Design (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. S. Mclellan, M. Chen, M. G. Joyce, M. Sastry, G. B. Stewart-Jones, Y. Yang, B. Zhang, L. Chen, S. Srivatsan, A. Zheng, T. Zhou, K. W. Graepel, A. Kumar, S. Moin, J. C. Boyington, G. Y. Chuang, C. Soto, U. Baxa, A. Q. Bakker, H. Spits, T. Beaumont, Z. Zheng, N. Xia, S. Y. Ko, J. P. Todd, S. Rao, B. S. Graham, P. D. Kwong
Structure-Based Design Of A Fusion Glycoprotein Vaccine For Respiratory Syncytial Virus.
Science V. 342 592 2013
PubMed-ID: 24179220  |  Reference-DOI: 10.1126/SCIENCE.1243283

(-) Compounds

Molecule 1 - FUSION GLYCOPROTEIN F2
    Chains: A
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Plasmid: P(ALPHA)H
    Expression System Strain: FREESTYLE(TM) 293-F
    Expression System Taxid: 9606
    Gene: F
    Mutation: YES
    Organism Scientific: HUMAN RESPIRATORY SYNCYTIAL VIRUS A2
    Organism Taxid: 11259
 
Molecule 2 - FUSION GLYCOPROTEIN F1 FUSED WITH FIBRITIN TRIMERIZATION DOMAIN
    Chains: B
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Plasmid: P(ALPHA)H
    Expression System Strain: FREESTYLE(TM) 293-F
    Expression System Taxid: 9606
    Gene: F
    Mutation: YES
    Organism Scientific: HUMAN RESPIRATORY SYNCYTIAL VIRUS A2, ENTEROBACTERIA PHAGE T4
    Organism Taxid: 11259, 10665

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4MMV)

(-) Sites  (0, 0)

(no "Site" information available for 4MMV)

(-) SS Bonds  (8, 8)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Gly A:71 -Thr A:72
2Gln B:210 -Ser B:211
3Ser B:211 -Cys B:212
4Thr B:245 -Pro B:246

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MMV)

(-) 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:78
                                                                                                              
               SCOP domains ------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee....eeeeeeeeeeee.eeeeeeeeee...............hhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------ Transcript
                 4mmv A  26 QNITEEFYQSTCSAVSKGYLSALRTGWYTSVITIELSNIKENKCNGTDAKVKLIKQELDKYKNAVTELQLLMQSTPAT 103
                                    35        45        55        65        75        85        95        


Chain B from PDB  Type:PROTEIN  Length:408
                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhh.....hhhhhhhhhhh..hhhhhhhhh........eee.....eeeeeeeeehhhhhh.................hhhhhhhhhhhhhhhhhhhhhhh..ee........hhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.eeeeeee...eeeeeeeeee..eeeeeeeeeee..ee..........eeee...eeeeee..eeeee.....eeee..eeeee.hhheeehhhhhhhhh.........eeeee.....eeee...eeeeee.....eeeee...eeeee...eeeeee.....eeee..eeee......eeeee...hhhhhhhhhhh...eeeeehhhhhhhhhhhhhhhhhhhhh................................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mmv B 137 FLGFLLGVGSAIASGVAVCKVLHLEGEVNKIKSALLSTNKAVVSLSNGVSVLTFKVLDLKNYIDKQLLPILNKQSCSISNIETVIEFQQKNNRLLEITREFSVNAGVTTPVSTYMLTNSELLSLINDMPITNDQKKLMSNNVQIVRQQSYSIMCIIKEEVLAYVVQLPLYGVIDTPCWKLHTSPLCTTNTKEGSNICLTRTDRGWYCDNAGSVSFFPQAETCKVQSNRVFCDTMNSLTLPSEVNLCNVDIFNPKYDCKIMTSKTDVSSSVITSLGAIVSCYGKTKCTASNKNRGIIKTFSNGCDYVSNKGVDTVSVGNTLYYVNKQEGKSLYVKGEPIINFYDPLVFPSHQWHASISQVNEKINQSLAFIRKSDELLSAIGGYIPEAPRDGQAYVRKDGEWVLLSTFL 544
                                   146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 4MMV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 13)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gln B:210 - Ser B:211   [ RasMol ]  
    Gly A:71 - Thr A:72   [ RasMol ]  
    Ser B:211 - Cys B:212   [ RasMol ]  
    Thr B:245 - Pro B:246   [ RasMol ]  
 
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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 4zyp 5c69 5c6b 5ea3 5ea4 5ea5 5ea6 5ea7 5ea8 5j3d 5k6b 5k6c 5k6f 5k6g 5k6h 5k6i 5toj 5tok 5tpn 5u68 5udc
        WAC_BPT4 | P10104: 1aa0 1avy 1ox3 1rfo 1v1h 1v1i 2bsg 2ibl 2kbl 3a1m 3j2o 4mmq 4mmr 4mms 4mmt 4mmu 4ncu 4ncv 4ncw

(-) Related Entries Specified in the PDB File

4jhw 4mmq 4mmr 4mms 4mmt 4mmu