3DCG Ligase Viral Protein date Jun 03, 2008
title Crystal Structure Of The Hiv Vif Bc-Box In Complex With Huma And Elonginc
authors B.J.Stanley, E.S.Ehrlich, L.Short, Y.Yu, Z.Xiao, X.F.Yu, Y.Xiong
compound source
Molecule: Transcription Elongation Factor B Polypeptide 2
Chain: A, C
Synonym: Elonginb, Rna Polymerase II Transcription Factor S Subunit B, Siii P18, Elongin-B, Elob, Elongin 18 Kda Subuni
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Elonginb
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pacycduet-1

Molecule: Transcription Elongation Factor B Polypeptide 1
Chain: B, D
Fragment: Unp Residues 17-112
Synonym: Elonginc, Rna Polymerase II Transcription Factor S Subunit C, Siii P15, Elongin-C, Eloc, Elongin 15 Kda Subuni
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Elonginc
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pacycduet-1

Molecule: Virion Infectivity Factor
Chain: E, F
Fragment: Unp Residues 139-176
Synonym: Vif, Sor Protein, Virion Infectivity Factor P17, V Infectivity Factor P7;
Engineered: Yes

Organism_scientific: Human Immunodeficiency Virus Type 1 (N Isolate);
Organism_common: Hiv-1
Organism_taxid: 11698
Strain: Hxb3
Gene: Virion Infectivity Factor
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Petduet-1
symmetry Space Group: P 21 21 21
R_factor 0.186 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.514 66.913 122.642 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


F, E


Primary referenceStructural Insight into the HIV Vif SOCS Box and Its Role in Human E3 Ubiquitin Ligase Assembly., Stanley BJ, Ehrlich ES, Short L, Yu Y, Xiao Z, Yu XF, Xiong Y, J Virol. 2008 Jun 18;. PMID:18562529
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (3dcg.pdb1.gz) 34 Kb
  • Biological Unit Coordinates (3dcg.pdb2.gz) 34 Kb
  • CSU: Contacts of Structural Units for 3DCG
  • Likely Quarternary Molecular Structure file(s) for 3DCG
  • Structure Factors (270 Kb)
  • Retrieve 3DCG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DCG from S2C, [Save to disk]
  • Re-refined 3dcg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DCG in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3DCG
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3DCG, from MSDmotif at EBI
  • Fold representative 3dcg from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3dcg_E] [3dcg_B] [3dcg_C] [3dcg_D] [3dcg_F] [3dcg_A] [3dcg]
  • SWISS-PROT database: [Q15370] [Q15369] [P12504]
  • Domain organization of [ELOB_HUMAN] [ELOC_HUMAN] [VIF_HV1N5] by SWISSPFAM
  • Domains found in 3DCG: [Skp1] [UBQ ] by SMART
  • Other resources with information on 3DCG
  • Community annotation for 3DCG at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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