4C5I Transcription date Sep 12, 2013
title Crystal Structure Of Mbtd1 Yy1 Complex
authors C.Alfieri, S.Glatt, C.W.Mueller
compound source
Molecule: Mbt Domain-Containing Protein 1
Chain: A, B
Fragment: 4mbt, Residues 130-566
Synonym: Mbtd1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Gold

Molecule: Transcriptional Repressor Protein Yy1
Chain: C
Fragment: Spacer, Residues 199-228
Synonym: Delta Transcription Factor, Ino80 Complex Subunit Nf-E1, Yin And Yang 1, Yy-1, Yy1

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 21
R_factor 0.2129 R_Free 0.2332
length a length b length c angle alpha angle beta angle gamma
70.360 104.710 135.520 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.49 Å
A, B

Primary referenceStructural basis for targeting the chromatin repressor Sfmbt to Polycomb response elements., Alfieri C, Gambetta MC, Matos R, Glatt S, Sehr P, Fraterman S, Wilm M, Muller J, Muller CW, Genes Dev. 2013 Nov 1;27(21):2367-79. doi: 10.1101/gad.226621.113. PMID:24186981
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (145 Kb) [Save to disk]
  • Biological Unit Coordinates (4c5i.pdb1.gz) 74 Kb
  • Biological Unit Coordinates (4c5i.pdb2.gz) 69 Kb
  • CSU: Contacts of Structural Units for 4C5I
  • Structure Factors (285 Kb)
  • Retrieve 4C5I in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4C5I from S2C, [Save to disk]
  • Re-refined 4c5i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4C5I 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 4C5I
  • 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 4C5I, from MSDmotif at EBI
  • Fold representative 4c5i from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4c5i_C] [4c5i_B] [4c5i_A] [4c5i]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4C5I: [MBT ] by SMART
  • Other resources with information on 4C5I
  • Community annotation for 4C5I at PDBWiki (http://pdbwiki.org)

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