5JVT Transcription Dna date May 11, 2016
title Crystal Structure Of The Dna Binding Domain Of Transcription Fli1 In Complex With An 11-Mer Dna Gaccggaagtg
authors C.Hou, O.V.Tsodikov
compound source
Molecule: Friend Leukemia Integration 1 Transcription Facto
Chain: A, D, G
Synonym: Proto-Oncogene Fli-1,Transcription Factor Ergb
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fli1
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)-Ril

Molecule: Dna (5'-D(Gpapcpcpgpgpapapgptpg)-3')
Chain: B, E, H
Engineered: Yes

Synthetic: Yes
Organism_scientific: Endothia Gyrosa
Organism_taxid: 40263

Molecule: Dna (5'-D(Cpapcptptpcpcpgpgptpc)-3')
Chain: C, F, I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Endothia Gyrosa
Organism_taxid: 40263
symmetry Space Group: P 61 2 2
R_factor 0.194 R_Free 0.237
length a length b length c angle alpha angle beta angle gamma
191.845 191.845 87.556 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.10 Å
ligand GOL, PO4 enzyme
A, D, G

Primary referenceStructures of mithramycin analogues bound to DNA and implications for targeting transcription factor FLI1., Hou C, Weidenbach S, Cano KE, Wang Z, Mitra P, Ivanov DN, Rohr J, Tsodikov OV, Nucleic Acids Res. 2016 Sep 1. pii: gkw761. PMID:27587584
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (165 Kb) [Save to disk]
  • Biological Unit Coordinates (5jvt.pdb1.gz) 54 Kb
  • Biological Unit Coordinates (5jvt.pdb2.gz) 54 Kb
  • Biological Unit Coordinates (5jvt.pdb3.gz) 54 Kb
  • LPC: Ligand-Protein Contacts for 5JVT
  • CSU: Contacts of Structural Units for 5JVT
  • Structure Factors (295 Kb)
  • Retrieve 5JVT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5JVT from S2C, [Save to disk]
  • Re-refined 5jvt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5JVT 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 5JVT
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5jvt from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5jvt] [5jvt_D] [5jvt_H] [5jvt_G] [5jvt_I] [5jvt_C] [5jvt_B] [5jvt_E] [5jvt_F] [5jvt_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5JVT: [ETS ] by SMART
  • Other resources with information on 5JVT
  • Community annotation for 5JVT at PDBWiki (http://pdbwiki.org)

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