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(-) Description

Title :  DISCOVERY AND OPTIMIZATION OF A NATURAL HIV-1 ENTRY INHIBITOR TARGETING THE GP41 FUSION PEPTIDE
 
Authors :  J. Munch, L. Standker, K. Adermann, A. Schulz, S. Pohlmann, C. Chaipan, T. Biet, T. Peters, B. Meyer, D. Wilhelm, H. Lu, W. Jing, S. Jiang, W. Forssmann, F. Kirchhoff
Date :  01 Feb 07  (Deposition) - 08 May 07  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B
Keywords :  Peptide Complex, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Munch, L. Standker, K. Adermann, A. Schulz, M. Schindler, R. Chinnadurai, S. Pohlmann, C. Chaipan, T. Biet, T. Peters, B. Meyer, D. Wilhelm, H. Lu, W. Jing, S. Jiang, W. G. Forssmann, F. Kirchhoff
Discovery And Optimization Of A Natural Hiv-1 Entry Inhibitor Targeting The Gp41 Fusion Peptide.
Cell(Cambridge, Mass. ) V. 129 263 2007
PubMed-ID: 17448989  |  Reference-DOI: 10.1016/J.CELL.2007.02.042
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VIR165
    Chains: A
    Engineered: YES
    Other Details: VIR-165 IS A MODIFIED FORM OF THE VIRUS- INHIBITORY PEPTIDE (VIRIP) WHICH NATURALLY OCCURS IN HUMAN PLASMA.
    Synthetic: YES
 
Molecule 2 - ENV POLYPROTEIN
    Chains: B
    Engineered: YES
    Synonym: FP1-23
    Synthetic: YES

 Structural Features

(-) Chains, Units

  
NMR Structure : 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2JNR)

(-) Sites  (0, 0)

(no "Site" information available for 2JNR)

(-) SS Bonds  (1, 1)

NMR Structure
No.Residues
1A:6 -A:11

(-) Cis Peptide Bonds  (2, 2)

NMR Structure
No.Residues
1Phe A:18 -Val A:19
2Gly B:113 -Ala B:114

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2JNR)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2JNR)

(-) Exons   (0, 0)

(no "Exon" information available for 2JNR)

(-) Sequences/Alignments

NMR Structure
   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:20
                                                    
               SCOP domains -------------------- SCOP domains
               CATH domains -------------------- CATH domains
               Pfam domains -------------------- Pfam domains
         Sec.struct. author .................... Sec.struct. author
                 SAPs(SNPs) -------------------- SAPs(SNPs)
                    PROSITE -------------------- PROSITE
                 Transcript -------------------- Transcript
                 2jnr A   1 LEAIPCSIPPCFAFNKPFVF  20
                                    10        20


Chain B from PDB  Type:PROTEIN  Length:23
 aligned with Q72502_9HIV1 | Q72502 from UniProtKB/TrEMBL  Length:854

    Alignment length:23
                                   519       529   
         Q72502_9HIV1   510 AVGIGALFLGFLGAAGSTMGAAS 532
               SCOP domains ----------------------- SCOP domains
               CATH domains ----------------------- CATH domains
               Pfam domains ----------------------- Pfam domains
         Sec.struct. author ....................... Sec.struct. author
                 SAPs(SNPs) ----------------------- SAPs(SNPs)
                    PROSITE ----------------------- PROSITE
                 Transcript ----------------------- Transcript
                 2jnr B 101 AVGIGALFLGFLGAAGSTMGARS 123
                                   110       120
   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 2JNR)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2JNR)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2JNR)

(-) Gene Ontology  (14, 14)

NMR Structure(hide GO term definitions)
Chain B   (Q72502_9HIV1 | Q72502)
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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  Cis Peptide Bonds
    Gly B:113 - Ala B:114   [ RasMol ]  
    Phe A:18 - Val A:19   [ RasMol ]  
 

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 Related Entries

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        Q72502_9HIV1 | Q72502: 3aha

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