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(-) Description

Title :  SOLUTION STRUCTURE OF THE ANTIBODY-BOUND HIV-1IIIB V3 PEPTIDE
 
Authors :  V. Tugarinov, A. Zvi, R. Levy, J. Anglister
Date :  17 Nov 98  (Deposition) - 25 Nov 98  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (35x)
Keywords :  P1053 Structure, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Tugarinov, A. Zvi, R. Levy, J. Anglister
A Cis Proline Turn Linking Two Beta-Hairpin Strands In The Solution Structure Of An Antibody-Bound Hiv-1Iiib V3 Peptide.
Nat. Struct. Biol. V. 6 331 1999
PubMed-ID: 10201400  |  Reference-DOI: 10.1038/7567
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (P1053 PEPTIDE)
    Chains: A
    Engineered: YES
    Other Details: P1053 PEPTIDE REPRESENTS THE FULL ANTIBODY RECOGNIZED EPITOPE OF THE HIV-1IIIB GP120 V3 LOOP.
    Other Details - Source: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED.
    Synthetic: YES

 Structural Features

(-) Chains, Units

  
NMR Structure (35x): 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1B03)

(-) Sites  (0, 0)

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(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1B03)

(-) Cis Peptide Bonds  (1, 35)

NMR Structure
No.ModelResidues
11, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35Gly A:12 -Pro A:13

 Sequence-Structure Mapping

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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:18
 aligned with Q79428_9HIV1 | Q79428 from UniProtKB/TrEMBL  Length:36

    Alignment length:18
                                    18        
          Q79428_9HIV1    9 RKSIRIQRGPGRAFVTIG 26
               SCOP domains d1b03a_ A:         SCOP domains
               CATH domains ------------------ CATH domains
               Pfam domains ------------------ Pfam domains
         Sec.struct. author .eeeee......eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------ SAPs(SNPs)
                    PROSITE ------------------ PROSITE
                 Transcript ------------------ Transcript
                  1b03 A  4 RKSIRIQRGPGRAFVTIG 21
                                    13
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure
(-)
Class: Peptides (792)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1B03)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1B03)

(-) Gene Ontology  (8, 8)

NMR Structure(hide GO term definitions)
Chain A   (Q79428_9HIV1 | Q79428)
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: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 A:12 - Pro A:13   [ RasMol ]  
 

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  1b03
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