5XFR Transcription Dna date Apr 11, 2017
title Ternary Complex Of Mtf2, Dna And Histone
authors Z.Wang, H.Li
compound source
Molecule: Metal-Response Element-Binding Transcription Fact
Chain: A, B
Fragment: Unp Residues 43-358
Synonym: Metal Regulatory Transcription Factor 2,Metal-Resp Element Dna-Binding Protein M96,Polycomb-Like Protein 2,Hpc
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mtf2, Pcl2
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Peptide From Histone H3.1
Chain: C, D
Synonym: Histone H3a,Histone H3b,Histone H3c,Histone H3 H3f,Histone H3h,Histone H3i,Histone H3j,Histone H3k,Hi H3l;
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Dna (5'-D(Gpgpgpcpgpgpcpcpgpcpcpcpt)
Chain: E, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 31 2 1
R_factor 0.203 R_Free 0.231
length a length b length c angle alpha angle beta angle gamma
137.743 137.743 101.226 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.25 Å
ligand M3L, ZN enzyme
Primary referencePolycomb-like proteins link the PRC2 complex to CpG islands., Li H, Liefke R, Jiang J, Kurland JV, Tian W, Deng P, Zhang W, He Q, Patel DJ, Bulyk ML, Shi Y, Wang Z, Nature. 2017 Sep 14;549(7671):287-291. doi: 10.1038/nature23881. Epub 2017 Sep 6. PMID:28869966
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (125 Kb) [Save to disk]
  • Biological Unit Coordinates (5xfr.pdb1.gz) 119 Kb
  • LPC: Ligand-Protein Contacts for 5XFR
  • CSU: Contacts of Structural Units for 5XFR
  • Structure Factors (708 Kb)
  • Retrieve 5XFR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5XFR from S2C, [Save to disk]
  • View 5XFR 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 5XFR
  • 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 5xfr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5xfr_D] [5xfr_F] [5xfr_C] [5xfr_A] [5xfr_B] [5xfr_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5XFR
  • Community annotation for 5XFR at PDBWiki (http://pdbwiki.org)

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