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(-) Description

Title :  CRYSTAL STRUCTURE OF RESTON EBOLA VP35 INTERFERON INHIBITORY DOMAIN
 
Authors :  D. W. Leung, M. Farahbakhsh, D. M. Borek, K. C. Prins, C. F. Basler, G. K. Amarasinghe
Date :  14 Dec 09  (Deposition) - 12 May 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.71
Chains :  Asym./Biol. Unit :  A
Keywords :  Rna Binding Domain, Interferon Antiviral Evasion, Rna Replication, Rna Binding Protein, Transcription, Host Cytoplasm, Interferon Antiviral System Evasion, Rna-Binding, Virion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. W. Leung, R. S. Shabman, M. Farahbakhsh, K. C. Prins, D. M. Borek, T. Wang, E. Muhlberger, C. F. Basler, G. K. Amarasinghe
Structural And Functional Characterization Of Reston Ebola Virus Vp35 Interferon Inhibitory Domain.
J. Mol. Biol. V. 399 347 2010
PubMed-ID: 20399790  |  Reference-DOI: 10.1016/J.JMB.2010.04.022

(-) Compounds

Molecule 1 - POLYMERASE COFACTOR VP35
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: MODIFIED PET15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESTON EBOLA VP35 INTERFERON INHIBITORY DOMAIN
    Gene: REBOVGP2, VP35
    Organism Common: REBOV
    Organism Scientific: RESTON EBOLAVIRUS
    Organism Taxid: 386032
    Strain: RESTON-89

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1ACY2Ligand/IonACETIC ACID
2GOL1Ligand/IonGLYCEROL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:58 , GLY A:204 , LEU A:256 , GLY A:259BINDING SITE FOR RESIDUE ACY A 1
2AC2SOFTWAREILE A:216 , HIS A:249 , PHE A:252 , GLN A:253BINDING SITE FOR RESIDUE ACY A 2
3AC3SOFTWAREHOH A:15 , GLN A:230 , GLN A:233 , VAL A:234 , LYS A:237 , PRO A:282BINDING SITE FOR RESIDUE GOL A 3

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3L2A)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3L2A)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3L2A)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1VP35_IIDPS51735 Filoviruses VP35 interferon inhibitory domain profile.VP35_EBORR204-329  1A:204-329

(-) Exons   (0, 0)

(no "Exon" information available for 3L2A)

(-) 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:126
 aligned with VP35_EBORR | Q8JPY0 from UniProtKB/Swiss-Prot  Length:329

    Alignment length:126
                                   213       223       233       243       253       263       273       283       293       303       313       323      
           VP35_EBORR   204 GKPYISAKDLKEIMYDHLPGFGTAFHQLVQVICKIGKDNNLLDTIHAEFQASLADGDSPQCALIQITKRVPIFQDVPPPIIHIRSRGDIPRACQKSLRPAPPSPKIDRGWVCLFKMQDGKTLGLKI 329
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains Filo_VP35-3l2aA01 A:204-329                                                                                                    Pfam domains
         Sec.struct. author .....hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh...eee.......hhhhh..eee.....hhhh.eeeeee...eeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE VP35_IID  PDB: A:204-329 UniProt: 204-329                                                                                      PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3l2a A 204 GKPYISAKDLKEIMYDHLPGFGTAFHQLVQVICKIGKDNNLLDTIHAEFQASLADGDSPQCALIQITKRVPIFQDVPPPIIHIRSRGDIPRACQKSLRPAPPSPKIDRGWVCLFKMQDGKTLGLKI 329
                                   213       223       233       243       253       263       273       283       293       303       313       323
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (0, 0)

(no "SCOP Domain" information available for 3L2A)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3L2A)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Filo_VP35] (7)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (VP35_EBORR | Q8JPY0)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
    GO:0030683    evasion or tolerance by virus of host immune response    Any process, either active or passive, by which a virus avoids the effects of the host organism's immune response. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0039724    suppression by virus of host IKBKE activity    Any process in which a virus stops, prevents, or reduces the activity of the host I-kappa-B kinase epsilon (IKBKE/IKK-epsilon/IKK-E).
    GO:0039557    suppression by virus of host IRF7 activity    Any process in which a virus stops, prevents, or reduces the activity of host IRF7 (interferon regulatory factor-7), a transcription factor in the RIG-I/MDA-5 signaling pathway. Viral infection triggers phosphorylation of cytoplasmic IRF7, which allows IRF7 to form a homodimer, migrate to the nucleus, and activate transcription of IFN-alpha and IFN-beta genes.
    GO:0039723    suppression by virus of host TBK1 activity    Any process in which a virus stops, prevents, or reduces the activity of the host serine/threonine kinase TBK1.
    GO:0039503    suppression by virus of host innate immune response    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of the innate immune response of the host organism, the host's first line of defense.
    GO:0039722    suppression by virus of host toll-like receptor signaling pathway    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of toll-like receptor (TLR) signaling in the host organism.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
    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:0030430    host cell cytoplasm    The cytoplasm of a host cell.
    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
        VP35_EBORR | Q8JPY0: 3ks4 3ks8 4lg2

(-) Related Entries Specified in the PDB File

3fke WILDTYPE ZAIRE EBOLA VP35 INTERFERON INHIBITORY DOMAIN
3l25
3l26
3l27
3l28
3l29