4U68

Crystal structure of Rhino chromodomain in complex with H3K9me3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.184 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural insights into Rhino-mediated germline piRNA cluster formation

Yu, B.W.Cassani, M.Wang, M.Liu, M.Ma, J.Li, G.Zhang, Z.Huang, Y.

(2015) Cell Res. 25: 525-528


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Rhino
A, B, C
75Drosophila melanogasterMutation(s): 0 
Gene Names: rhi (Dmel\CG10683, HP1, HP1D, HP1d, RHI, Rhi, Rhino, rhino, rno)
Find proteins for Q7JXA8 (Drosophila melanogaster)
Go to UniProtKB:  Q7JXA8
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
peptide from Histone H3.1
D, E, F
11Homo sapiensMutation(s): 0 
Gene Names: HIST1H3A, HIST1H3B, HIST1H3C, HIST1H3D, HIST1H3E, HIST1H3F, HIST1H3G, HIST1H3H, HIST1H3I, HIST1H3J (H3FA, H3FL, H3FC, H3FB, H3FD, H3FI, H3FH, H3FK, H3FF, H3FJ)
Find proteins for P68431 (Homo sapiens)
Go to UniProtKB:  P68431
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
M3L
Query on M3L
D, E, F
L-PEPTIDE LINKINGC9 H21 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.184 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 50.946α = 90.00
b = 67.679β = 106.46
c = 79.750γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data collection
PHENIXrefinement
Cootmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2014-07-28 
  • Released Date: 2015-08-05 
  • Deposition Author(s): Yu, B.W., Huang, Y.

Funding OrganizationLocationGrant Number
Ministry of Science and Technology of ChinaChina2012CB910502
National Natural Science Foundation of ChinaChina31270774
Strategic Priority Research ProgramChinaXDB08010202

Revision History 

  • Version 1.0: 2015-08-05
    Type: Initial release
  • Version 1.1: 2016-05-25
    Type: Database references