6V2H

Crystal structure of CDYL2 in complex with H3tK27me3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.217 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of CDYL2 in complex with H3tK27me3

Dong, C.Tempel, W.Walker, J.R.Bountra, C.Arrowsmith, C.H.Edwards, A.M.Min, J.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Chromodomain Y-like protein 2
A, C, E, G, I, K
62Homo sapiensMutation(s): 0 
Gene Names: CDYL2
Find proteins for Q8N8U2 (Homo sapiens)
Go to Gene View: CDYL2
Go to UniProtKB:  Q8N8U2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
H3tK27me3
B, D, F, H, J, L
14N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
UNX
Query on UNX

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Download CCD File 
A, B, C, E, G, H, I, J, K
UNKNOWN ATOM OR ION
X
*
 Ligand Interaction
NI
Query on NI

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Download CCD File 
A, C, E, G, I, K
NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
M3L
Query on M3L
B, D, F, H, J, L
L-PEPTIDE LINKINGC9 H21 N2 O2LYS
NH2
Query on NH2
B, D, F, H, J, L
NON-POLYMERH2 N

--

ACE
Query on ACE
B, D, F, H, J, L
NON-POLYMERC2 H4 O

--

Experimental Data & Validation

Experimental Data

Unit Cell:
Length (Å)Angle (°)
a = 210.750α = 90.00
b = 210.750β = 90.00
c = 67.200γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
Aimlessdata scaling
xia2data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-12-25
    Type: Initial release