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(-) Description

Title :  EBOLA VIRUS VP35 BOUND TO SMALL MOLECULE
 
Authors :  C. S. Brown, D. W. Leung, W. Xu, D. M. Borek, Z. Otwinowski, P. Ramanan, A. D. S. Peterson, J. M. Binning, G. K. Amarasinghe
Date :  08 Dec 12  (Deposition) - 19 Mar 14  (Release) - 14 May 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.47
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Interferon Inhibitor Domain, Transcription-Transcription Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. S. Brown, M. S. Lee, D. W. Leung, T. Wang, W. Xu, P. Luthra, M. Anantpadma, R. S. Shabman, L. M. Melito, K. S. Macmillan, D. M. Borek Z. Otwinowski, P. Ramanan, A. J. Stubbs, D. S. Peterson, J. M. Binning, M. Tonelli, M. A. Olson, R. A. Davey, J. M. Ready, C. F. Basler, G. K. Amarasinghe
In Silico Derived Small Molecules Bind The Filovirus Vp35 Protein And Inhibit Its Polymerase Cofactor Activity.
J. Mol. Biol. V. 426 2045 2014
PubMed-ID: 24495995  |  Reference-DOI: 10.1016/J.JMB.2014.01.010

(-) Compounds

Molecule 1 - POLYMERASE COFACTOR VP35
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 215-340
    Gene: VP35
    Organism Common: ZEBOV
    Organism Scientific: EBOLA VIRUS
    Organism Taxid: 128952
    Strain: MAYINGA-76

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
11D82Ligand/Ion3-{(2S)-2-(7-CHLORO-1,3-BENZODIOXOL-5-YL)-4-HYDROXY-5-OXO-3-[3-(TRIFLUOROMETHYL)BENZOYL]-2,5-DIHYDRO-1H-PYRROL-1-YL}BENZOIC ACID
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
11D81Ligand/Ion3-{(2S)-2-(7-CHLORO-1,3-BENZODIOXOL-5-YL)-4-HYDROXY-5-OXO-3-[3-(TRIFLUOROMETHYL)BENZOYL]-2,5-DIHYDRO-1H-PYRROL-1-YL}BENZOIC ACID
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
11D81Ligand/Ion3-{(2S)-2-(7-CHLORO-1,3-BENZODIOXOL-5-YL)-4-HYDROXY-5-OXO-3-[3-(TRIFLUOROMETHYL)BENZOYL]-2,5-DIHYDRO-1H-PYRROL-1-YL}BENZOIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:241 , GLN A:244 , LYS A:248 , LYS A:251 , PRO A:293 , ILE A:295 , ASP A:302 , PRO A:304 , ARG A:305 , PHE A:328 , HOH A:590 , GLN B:329BINDING SITE FOR RESIDUE 1D8 A 401
2AC2SOFTWAREGLN A:329 , GLN B:241 , GLN B:244 , LYS B:248 , LYS B:251 , PRO B:293 , ASP B:302 , PRO B:304 , PHE B:328 , HOH B:578BINDING SITE FOR RESIDUE 1D8 B 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4IBI)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Pro B:316 -Ser B:317

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4IBI)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4IBI)

(-) Exons   (0, 0)

(no "Exon" information available for 4IBI)

(-) Sequences/Alignments

Asymmetric 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:123
                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhh......hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.....eeee.hhhhhhhhhhh.ee......hhhh.eeeeeee....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ibi A 218 DISAKDLRNIMYDHLPGFGTAFHQLVQVICKLGKDSNSLDIIHAEFQASLAEGDSPQCALIQITKRVPIFQDAAPPVIHIRSRGDIPRACQKSLRPVPPSPKIDRGWVCVFQLQDGKTLGLKI 340
                                   227       237       247       257       267       277       287       297       307       317       327       337   


Chain B from PDB  Type:PROTEIN  Length:127
                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhh......hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.....eeee.hhhhhhhhhhh.ee......hhhh.eeeeeee....eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ibi B 214 MGKPDISAKDLRNIMYDHLPGFGTAFHQLVQVICKLGKDSNSLDIIHAEFQASLAEGDSPQCALIQITKRVPIFQDAAPPVIHIRSRGDIPRACQKSLRPVPPSPKIDRGWVCVFQLQDGKTLGLKI 340
                                   223       233       243       253       263       273       283       293       303       313       323       333
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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  (0, 0)

(no "SCOP Domain" information available for 4IBI)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4IBI)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4IBI)

(-) Gene Ontology  (21, 21)

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  VP35_EBOZM | Q05127
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 Related Entries

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

UniProtKB/Swiss-Prot
        VP35_EBOZM | Q05127: 3fke 3l25 3l26 3l27 3l28 3l29 4ibb 4ibc 4ibd 4ibe 4ibf 4ibg 4ibj 4ibk 4ije 4ijf 4ypi 4zta 4ztg 4zti

(-) Related Entries Specified in the PDB File

4ibb4ibc4ibd4ibe4ibf4ibh4ibj4ibk
4ibg