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(-) Description

Title :  NOVEL HIV FUSION INHIBITOR
 
Authors :  X. Yao, S. Waltersperger, M. Wang, S. Cui
Date :  02 Jun 12  (Deposition) - 26 Jun 13  (Release) - 26 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.53
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  6-Helix Bundle, Coiled-Coil, Membrane, Fusion Inhibitor, M-T Hook, Viral Protein-Antiviral Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Yao, S. Waltersperger, M. Wang, S. Cui
Crystal Structure Of A Novel Hiv Fusion Inhibitor
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ENVELOPE GLYCOPROTEIN GP160
    Chains: E, A, B
    Engineered: YES
    Fragment: GP41, UNP RESIDUES 554-589
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676
    Other Details: NHR 35-70 SEQUENCE OCCURS NATURALLY IN HIV-1 VIRUS
    Synthetic: YES
 
Molecule 2 - FUSION INHIBITOR MT-SIFUVIRTIDE
    Chains: D, C, F
    Engineered: YES
    Other Details: THE SEQUENCE HAS BEEN DESIGNED
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric/Biological Unit (2, 7)
No.NameCountTypeFull Name
1ACE6Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP

(-) Sites  (0, 0)

(no "Site" information available for 3VTQ)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3VTQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3VTQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3VTQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3VTQ)

(-) Exons   (0, 0)

(no "Exon" information available for 3VTQ)

(-) 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:37
 aligned with Q9YP39_9HIV1 | Q9YP39 from UniProtKB/TrEMBL  Length:864

    Alignment length:37
                                   562       572       582       
         Q9YP39_9HIV1   553 LSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARIL 589
               SCOP domains ------------------------------------- SCOP domains
               CATH domains ------------------------------------- CATH domains
               Pfam domains ------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------- PROSITE
                 Transcript ------------------------------------- Transcript
                 3vtq A  34 xSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARIL  70
                            |       43        53        63       
                            |                                    
                           34-ACE                                


Chain B from PDB  Type:PROTEIN  Length:37
 aligned with Q9YP39_9HIV1 | Q9YP39 from UniProtKB/TrEMBL  Length:864

    Alignment length:37
                                   562       572       582       
         Q9YP39_9HIV1   553 LSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARIL 589
               SCOP domains ------------------------------------- SCOP domains
               CATH domains ------------------------------------- CATH domains
               Pfam domains ------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------- PROSITE
                 Transcript ------------------------------------- Transcript
                 3vtq B  34 xSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARIL  70
                            |       43        53        63       
                           34-ACE                                


Chain C from PDB  Type:PROTEIN  Length:38
                                                                      
               SCOP domains -------------------------------------- SCOP domains
               CATH domains -------------------------------------- CATH domains
               Pfam domains -------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------- PROSITE
                 Transcript -------------------------------------- Transcript
                 3vtq C 114 xMTWETWEREIENYTKQIYKILEESQEQQDRNEKDLLE 151
                            |      123       133       143        
                          114-ACE                                 


Chain D from PDB  Type:PROTEIN  Length:38
                                                                      
               SCOP domains -------------------------------------- SCOP domains
               CATH domains -------------------------------------- CATH domains
               Pfam domains -------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------- PROSITE
                 Transcript -------------------------------------- Transcript
                 3vtq D 114 xMTWETWEREIENYTKQIYKILEESQEQQDRNEKDLLE 151
                            |      123       133       143        
                          114-ACE                                 


Chain E from PDB  Type:PROTEIN  Length:37
 aligned with Q9YP39_9HIV1 | Q9YP39 from UniProtKB/TrEMBL  Length:864

    Alignment length:37
                                   562       572       582       
         Q9YP39_9HIV1   553 LSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARIL 589
               SCOP domains ------------------------------------- SCOP domains
               CATH domains ------------------------------------- CATH domains
               Pfam domains ------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------- PROSITE
                 Transcript ------------------------------------- Transcript
                 3vtq E  34 xSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARIL  70
                            |       43        53        63       
                           34-ACE                                


Chain F from PDB  Type:PROTEIN  Length:39
                                                                       
               SCOP domains --------------------------------------- SCOP domains
               CATH domains --------------------------------------- CATH domains
               Pfam domains --------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------- PROSITE
                 Transcript --------------------------------------- Transcript
                 3vtq F 114 xMTWETWEREIENYTKQIYKILEESQEQQDRNEKDLLEx 152
                            |      123       133       143        |
                          114-ACE                               152-NH2
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 3VTQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3VTQ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3VTQ)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,E   (Q9YP39_9HIV1 | Q9YP39)
molecular function
    GO:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
biological process
    GO:0039663    membrane fusion involved in viral entry into host cell    Merging of the virion membrane and a host membrane (host plasma membrane or host organelle membrane) that is involved in the uptake of a virus into a host cell.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
    GO:0019062    virion attachment to host cell    The process by which a virion protein binds to molecules on the host cellular surface or host cell surface projection.
cellular component
    GO:0044174    host cell endosome    A membrane-bounded organelle that carries materials newly ingested by endocytosis. It passes many of the materials to host cell lysosomes for degradation.
    GO:0044175    host cell endosome membrane    The lipid bilayer surrounding a host cell endosome.
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0020002    host cell plasma membrane    The plasma membrane surrounding a host cell.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0019031    viral envelope    The lipid bilayer of a virion that surrounds the protein capsid. May also contain glycoproteins.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.
    GO:0055036    virion membrane    The lipid bilayer surrounding a virion.

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q9YP39_9HIV1 | Q9YP39: 3o3z 3vie

(-) Related Entries Specified in the PDB File

3vgx 3vie 3vtp