6LSD

Crystal Structure of YEATS domain of human YEATS2 in complex with H3K27bz peptide

  • Classification: TRANSCRIPTION
  • Organism(s): Homo sapiens
  • Expression System: Escherichia coli BL21(DE3)
  • Mutation(s): No 

  • Deposited: 2020-01-17 Released: 2020-11-18 
  • Deposition Author(s): Li, H.T., Ren, X.L.
  • Funding Organization(s): National Natural Science Foundation of China (NSFC), National Basic Research Program of China (973 Program)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.194 

wwPDB Validation   3D Report Full Report



Literature

Histone Benzoylation Serves as an Epigenetic Mark for DPF and YEATS Family Proteins.

Ren, X.L.Zhou, Y.Xue, Z.Y.Hao, N.Li, Y.Y.Guo, X.H.Wang, D.L.Shi, X.B.Li, H.T.

(2020) Nucleic Acids Res 


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
YEATS domain-containing protein 2AB135Homo sapiensMutation(s): 0 
Gene Names: YEATS2KIAA1197
Find proteins for Q9ULM3 (Homo sapiens)
Explore Q9ULM3 
Go to UniProtKB:  Q9ULM3
NIH Common Fund Data Resources
PHAROS  Q9ULM3
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
2CD9Homo sapiensMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download CCD File 
A, B, C, D
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

Download CCD File 
A
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
LBZ
Query on LBZ
C,DL-PEPTIDE LINKINGC13 H18 N2 O3LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.194 
  • Space Group: P 4 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 89.674α = 90
b = 89.674β = 90
c = 86.943γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data scaling
PDB_EXTRACTdata extraction
HKL-3000data reduction
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2020-01-17 
  • Released Date: 2020-11-18 
  • Deposition Author(s): Li, H.T., Ren, X.L.

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31725014, 31871283, 31922016
National Basic Research Program of China (973 Program)China2016YFA0500700

Revision History 

  • Version 1.0: 2020-11-18
    Type: Initial release