4MN3 Transcription Regulator date Sep 09, 2013
title Chromodomain Antagonists That Target The Polycomb-Group Meth Reader Protein Chromobox Homolog 7 (Cbx7)
authors S.Chakravarthi, K.Daze, S.Douglas, T.Quon, A.Dev, F.Peng, M.Heller M.J.Boulanger, J.Wulff, F.Hof
compound source
Molecule: Chromobox Protein Homolog 7
Chain: A
Fragment: Protein
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cbx7
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Peptide
Chain: B
Fragment: Peptide
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Peptide
Organism_taxid: 32630
symmetry Space Group: C 1 2 1
R_factor 0.172 R_Free 0.213
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.290 31.860 38.390 90.00 119.02 90.00
method X-Ray Diffractionresolution 1.54 Å
ligand ACE, EDO, M3L, MG, NH2, P33 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceChromodomain Antagonists That Target the Polycomb-Group Methyllysine Reader Protein Chromobox Homolog 7 (CBX7)., Simhadri C, Daze KD, Douglas SF, Quon TT, Dev A, Gignac MC, Peng F, Heller M, Boulanger MJ, Wulff JE, Hof F, J Med Chem. 2014 Mar 26. PMID:24625057
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (17 Kb) [Save to disk]
  • Biological Unit Coordinates (4mn3.pdb1.gz) 13 Kb
  • LPC: Ligand-Protein Contacts for 4MN3
  • CSU: Contacts of Structural Units for 4MN3
  • Structure Factors (181 Kb)
  • Retrieve 4MN3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4MN3 from S2C, [Save to disk]
  • Re-refined 4mn3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4MN3 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 4MN3
  • 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 4MN3, from MSDmotif at EBI
  • Fold representative 4mn3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4mn3] [4mn3_A] [4mn3_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4MN3: [CHROMO ] by SMART
  • Other resources with information on 4MN3
  • Community annotation for 4MN3 at PDBWiki (http://pdbwiki.org)

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