5TUV Transcription date Nov 07, 2016
title Crystal Structure Of The E2f5-Dp1-P107 Ternary Complex
authors T.J.Liban, S.M.Tripathi, S.M.Rubin
compound source
Molecule: Transcription Factor Dp1
Chain: A, D
Fragment: Unp Residues 199-350
Synonym: Drtf1-Polypeptide 1,Drtf1,E2f Dimerization Partner
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tfdp1, Dp1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Transcription Factor E2f5
Chain: B, E
Fragment: Unp Residues 124-232
Synonym: E2f-5
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: E2f5
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Retinoblastoma-Like Protein 1
Chain: C, F
Fragment: Unp Residues 994-1031
Synonym: 107 Kda Retinoblastoma-Associated Protein,P107,Prb
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rbl1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
symmetry Space Group: P 1 21 1
R_factor 0.212 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
60.980 57.340 99.198 90.00 96.64 90.00
method X-Ray Diffractionresolution 2.90 Å
Gene
Ontology
ChainFunctionProcessComponent
A, D


E, B


F, C


Primary referenceConservation and divergence of C-terminal domain structure in the retinoblastoma protein family., Liban TJ, Medina EM, Tripathi S, Sengupta S, Henry RW, Buchler NE, Rubin SM, Proc Natl Acad Sci U S A. 2017 Apr 24. pii: 201619170. doi:, 10.1073/pnas.1619170114. PMID:28439018
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (161 Kb) [Save to disk]
  • Biological Unit Coordinates (5tuv.pdb1.gz) 81 Kb
  • Biological Unit Coordinates (5tuv.pdb2.gz) 73 Kb
  • Biological Unit Coordinates (5tuv.pdb3.gz) 152 Kb
  • CSU: Contacts of Structural Units for 5TUV
  • Structure Factors (151 Kb)
  • Retrieve 5TUV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5TUV from S2C, [Save to disk]
  • Re-refined 5tuv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5TUV 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 5TUV
  • 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
  • Fold representative 5tuv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5tuv] [5tuv_F] [5tuv_B] [5tuv_C] [5tuv_A] [5tuv_D] [5tuv_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5TUV
  • Community annotation for 5TUV at PDBWiki (http://pdbwiki.org)

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