6MHA

dHP1 Chromodomain Y24W variant bound to histone H3 peptide containing trimethyllysine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.497 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Thermodynamic Consequences of Tyr to Trp Mutations in the Cation-pi-Mediated Binding of Trimethyllysine by the HP1 Chromodomain

Krone, M.W.Albanese, K.I.Guseman, A.J.He, C.Q.Lee, G.Y.Houk, K.N.Brustad, E.M.Waters, M.L.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Heterochromatin protein 1
A
53Drosophila melanogasterMutation(s): 2 
Gene Names: Su(var)205 (HP1)
Find proteins for P05205 (Drosophila melanogaster)
Go to UniProtKB:  P05205
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
histone H3 peptide containing trimethyllysine, H3K9me3
B
6Drosophila melanogasterMutation(s): 0 
Gene Names: His3, His3:CG31613, His3:CG33803, His3:CG33806, His3:CG33809, His3:CG33812, His3:CG33815, His3:CG33818, His3:CG33821, His3:CG33824, His3:CG33827, His3:CG33830, His3:CG33833, His3:CG33836, His3:CG33839, His3:CG33842, His3:CG33845, His3:CG33848, His3:CG33851, His3:CG33854, His3:CG33857, His3:CG33860, His3:CG33863, His3:CG33866
Find proteins for P02299 (Drosophila melanogaster)
Go to UniProtKB:  P02299
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
M3L
Query on M3L
B
L-PEPTIDE LINKINGC9 H21 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.497 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.194 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 34.007α = 90.00
b = 76.695β = 90.00
c = 76.508γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
KYLINdata reduction
PHENIXrefinement
XSCALEdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)United StatesGM118499

Revision History 

  • Version 1.0: 2019-09-25
    Type: Initial release
  • Version 1.1: 2019-12-18
    Type: Author supporting evidence