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(-) Description

Title :  STRUCTURE OF HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 VPR(34-51) PEPTIDE IN DPC MICELLE CONTAINING AQUEOUS SOLUTION
 
Authors :  A. Engler, T. Stangler, D. Willbold
Date :  08 Feb 02  (Deposition) - 28 Aug 02  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Hiv-1, Vpr, Peptide, Solution Structure, Dodecylphosphocholine, Micelles, Nmr, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Engler, T. Stangler, D. Willbold
Structure Of Human Immunodeficiency Virus Type 1 Vpr(34-51) Peptide In Micelle Containing Aqueous Solution.
Eur. J. Biochem. V. 269 3264 2002
PubMed-ID: 12084067  |  Reference-DOI: 10.1046/J.1432-1033.2002.03005.X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VPR PROTEIN
    Chains: A
    Engineered: YES
    Fragment: RESIDUES 34-51
    Other Details: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED. IT IS NATURALLY FOUND IN HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 (NEW YORK-5 ISOLATE) (HIV-1).
    Synthetic: YES

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (2, 2)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC2SOFTWAREGLY A:51BINDING SITE FOR RESIDUE NH2 A 52

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1KZT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KZT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1KZT)

(-) Exons   (0, 0)

(no "Exon" information available for 1KZT)

(-) 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
 aligned with VPR_HV1N5 | P12520 from UniProtKB/Swiss-Prot  Length:96

    Alignment length:20
                                    42        52
             VPR_HV1N5   33 HFPRIWLHNLGQHIYETYGD 52
               SCOP domains d1kzta_ A:           SCOP domains
               CATH domains -------------------- CATH domains
               Pfam domains -VPR-1kztA01       - Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------- SAPs(SNPs)
                    PROSITE -------------------- PROSITE
                 Transcript -------------------- Transcript
                  1kzt A 33 xFPRIWLHNLGQHIYETYGx 52
                            |       42        52
                            |                 52-NH2
                           33-ACE
   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  (1, 1)

NMR Structure
(-)
Class: Peptides (792)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: no clan defined [family: VPR] (6)

(-) Gene Ontology  (15, 15)

NMR Structure(hide GO term definitions)
Chain A   (VPR_HV1N5 | P12520)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0060153    modulation by virus of host cell cycle    Any viral process that modulates the rate or extent of progression through the cell cycle.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0039592    suppression by virus of G2/M transition of host mitotic cell cycle    Any viral process that decreases the rate or extent of progression from G2 phase to M phase of the host mitotic cell cycle.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
    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:0019058    viral life cycle    A set of processes which all viruses follow to ensure survival; includes attachment and entry of the virus particle, decoding of genome information, translation of viral mRNA by host ribosomes, genome replication, and assembly and release of viral particles containing the genome.
    GO:0075732    viral penetration into host nucleus    The crossing by the virus of the host nuclear membrane, either as naked viral genome or for small viruses as an intact capsid.
    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.
cellular component
    GO:0043655    extracellular space of host    The space within a host but external to the plasma membrane of host cells, e.g. within host bloodstream.
    GO:0042025    host cell nucleus    A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.

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 Related Entries

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

UniProtKB/Swiss-Prot
        VPR_HV1N5 | P12520: 1bde 1dsj 1dsk 1kzs 1kzv 5jk7

(-) Related Entries Specified in the PDB File

1kzs 1KZS IS THE STRUCTURE OF HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 VPR(34-51) PEPTIDE IN AQUEOUS TFE SOLUTION.
1kzv 1KZV IS THE STRUCTURE OF HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 VPR(34-51) PEPTIDE IN CHLOROFORM METHANOL.