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(-) Description

Title :  NMR STRUCTURE OF THE COMPLEX BETWEEN THE ZINC FINGER PROTEIN NCP10 OF MOLONEY MURINE LEUKEMIA VIRUS AND A SEQUENCE OF THE PSI-PACKAGING DOMAIN OF HIV-1, 20 STRUCTURES
 
Authors :  W. Schueler, C. -Z. Dong, K. Wecker, B. P. Roques
Date :  23 Feb 98  (Deposition) - 23 Aug 99  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (20x)
Keywords :  Nucleocapsid Protein, Intercalation, Nucleic Acid, Retrovirus, Zinc Finger, Viral Protein/Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  W. Schuler, C. Dong, K. Wecker, B. P. Roques
Nmr Structure Of The Complex Between The Zinc Finger Protein Ncp10 Of Moloney Murine Leukemia Virus And The Single-Stranded Pentanucleotide D(Acgcc): Comparison With Hiv-Ncp7 Complexes.
Biochemistry V. 38 12984 1999
PubMed-ID: 10529168  |  Reference-DOI: 10.1021/BI990378D
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA (5'-D(*AP*CP*GP*CP*C)-3')
    ChainsA
    EngineeredYES
    SyntheticYES
 
Molecule 2 - ZINC FINGER PROTEIN NCP10
    ChainsB
    EngineeredYES
    FragmentCENTRAL DOMAIN RESIDUES 14-53
    Other DetailsONE ZINC ION BOUND IN CCHC BOX
    SynonymMOMULV

 Structural Features

(-) Chains, Units

  
NMR Structure (20x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

NMR Structure (1, 1)
No.NameCountTypeFull Name
1ZN1Ligand/IonZINC ION

(-) Sites  (2, 2)

NMR Structure (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS B:26 , CYS B:29 , HIS B:34 , CYS B:39BINDING SITE FOR RESIDUE ZN B 55
2ZNBUNKNOWNCYS B:26 , CYS B:29 , HIS B:34 , CYS B:39ZINC BINDING SITE.

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1A6B)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1A6B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1A6B)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_CCHCPS50158 Zinc finger CCHC-type profile.GAG_MLVMS504-519  1B:26-41

(-) Exons   (0, 0)

(no "Exon" information available for 1A6B)

(-) 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:DNA  Length:5
                                     
                 1a6b A   1 ACGCC   5

Chain B from PDB  Type:PROTEIN  Length:40
 aligned with GAG_MLVMS | P03332 from UniProtKB/Swiss-Prot  Length:538

    Alignment length:40
                                   501       511       521       531
            GAG_MLVMS   492 GERRRSQLDRDQCAYCKEKGHWAKDCPKKPRGPRGPRPQT 531
               SCOP domains d1a6bb_ B: Zinc finger protein ncp10     SCOP domains
               CATH domains 1a6bB00 B:14-53                          CATH domains
               Pfam domains ---------------------------------------- Pfam domains
         Sec.struct. author ........................................ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------- SAPs(SNPs)
                    PROSITE ------------ZF_CCHC         ------------ PROSITE
                 Transcript ---------------------------------------- Transcript
                 1a6b B  14 GERRRSQLDRDQCAYCKEKGHWAKDCPKKPRGPRGPRPQT  53
                                    23        33        43        53

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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  (1, 1)

NMR Structure

(-) CATH Domains  (1, 1)

NMR Structure

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1A6B)

(-) Gene Ontology  (21, 21)

NMR Structure(hide GO term definitions)
Chain B   (GAG_MLVMS | P03332)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
    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).
    GO:0039660    structural constituent of virion    The action of a molecule that contributes to the structural integrity of a virion.
    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.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0046755    viral budding    A viral process by which enveloped viruses acquire a host-derived membrane enriched in viral proteins to form their external envelope. The process starts when nucleocapsids, assembled or in the process of being built, induce formation of a membrane curvature in the host plasma or organelle membrane and wrap up in the forming bud. The process ends when the bud is eventually pinched off by membrane scission to release the enveloped particle into the lumenal or extracellular space.
    GO:0039702    viral budding via host ESCRT complex    Viral budding which uses a host ESCRT protein complex, or complexes, to mediate the budding process.
    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:0019076    viral release from host cell    The dissemination of mature viral particles from the host cell, e.g. by cell lysis or the budding of virus particles from the cell membrane.
    GO:0019068    virion assembly    A late phase of the viral life cycle during which all the components necessary for the formation of a mature virion collect at a particular site in the cell and the basic structure of the virus particle is formed.
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:0044185    host cell late endosome membrane    The lipid bilayer surrounding a host cell late 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:0072494    host multivesicular body    A late endosome in which regions of the limiting host cell endosomal membrane invaginate to form internal vesicles; host membrane proteins that enter the internal vesicles are sequestered from the host cytoplasm.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0019028    viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles. It comprises numerous regularly arranged subunits, or capsomeres.
    GO:0019013    viral nucleocapsid    The complete protein-nucleic acid complex that is the packaged form of the genome in a virus particle.
    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
        GAG_MLVMS | P033321bm4 1mn8 1u6p 1wwd 1wwe 1wwf 1wwg

(-) Related Entries Specified in the PDB File

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