5YEG Dna Binding Protein date Sep 17, 2017
title Crystal Structure Of Ctcf Zfs4-8-Hs5-1a Complex
authors M.Yin, J.Wang, M.Wang, X.Li
compound source
Molecule: Transcriptional Repressor Ctcf
Chain: A
Fragment: Unp Residues 349-490
Synonym: 11-Zinc Finger Protein,Ccctc-Binding Factor,Ctcfl
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ctcf
Expression_system: Escherichia Coli K-12
Expression_system_taxid: 83333

Molecule: Transcriptional Repressor Ctcf
Chain: B
Fragment: Unp Residues 349-489
Synonym: 11-Zinc Finger Protein,Ccctc-Binding Factor,Ctcfl
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ctcf
Expression_system: Escherichia Coli K-12
Expression_system_taxid: 83333

Molecule: Dna (5'- D(Tpcpgpcpcpcptpcptpgpcptpgpgptptpapapap
Chain: D, E
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'- D(Apcptptptpapapcpcpapgpcpapgpapgpgpgpcp
Chain: C, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 1
R_factor 0.186 R_Free 0.204
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.167 56.502 67.486 78.41 79.31 78.60
method X-Ray Diffractionresolution 2.00 Å
ligand ZN enzyme
Primary referenceMolecular mechanism of directional CTCF recognition of a diverse range of genomic sites., Yin M, Wang J, Wang M, Li X, Zhang M, Wu Q, Wang Y, Cell Res. 2017 Nov;27(11):1365-1377. doi: 10.1038/cr.2017.131. Epub 2017 Oct 27. PMID:29076501
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (175 Kb) [Save to disk]
  • Biological Unit Coordinates (5yeg.pdb1.gz) 83 Kb
  • Biological Unit Coordinates (5yeg.pdb2.gz) 85 Kb
  • LPC: Ligand-Protein Contacts for 5YEG
  • CSU: Contacts of Structural Units for 5YEG
  • Structure Factors (1097 Kb)
  • Retrieve 5YEG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5YEG from S2C, [Save to disk]
  • View 5YEG 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 5YEG
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5yeg_D] [5yeg_F] [5yeg_A] [5yeg_C] [5yeg_E] [5yeg_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5YEG
  • Community annotation for 5YEG at PDBWiki (http://pdbwiki.org)

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