5WYI

The Yaf9 YEATS domain Recognizing H3K122suc Peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.203 

wwPDB Validation   3D Report Full Report



Literature

The Yaf9 YEATS domain Recognizing H3K122suc Peptide

Wang, Y.Hao, Q.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Yaf9A165Saccharomyces cerevisiae RM11-1aMutation(s): 3 
Gene Names: SCRG_03242YAF9
Find proteins for B3LNW5 (Saccharomyces cerevisiae (strain RM11-1a))
Explore B3LNW5 
Go to UniProtKB:  B3LNW5
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Yaf9BC164Saccharomyces cerevisiae RM11-1aMutation(s): 3 
Gene Names: SCRG_03242YAF9
Find proteins for B3LNW5 (Saccharomyces cerevisiae (strain RM11-1a))
Explore B3LNW5 
Go to UniProtKB:  B3LNW5
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
ILE-MET-PRO-LYS-ASP-ILE-GLN-LEUE8Homo sapiensMutation(s): 0 
Gene Names: 
Find proteins for P68431 (Homo sapiens)
Explore P68431 
Go to UniProtKB:  P68431
NIH Common Fund Data Resources
PHAROS  P68431
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SLL
Query on SLL

Download Ideal Coordinates CCD File 
C
(2S)-2-azanyl-6-[(4-hydroxy-4-oxo-butanoyl)amino]hexanoic acid
C10 H18 N2 O5
ZAFOVBXOMIXMTH-ZETCQYMHSA-N
 Ligand Interaction
SIN
Query on SIN

Download Ideal Coordinates CCD File 
E
SUCCINIC ACID
C4 H6 O4
KDYFGRWQOYBRFD-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.203 
  • Space Group: P 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 136.932α = 90
b = 136.932β = 90
c = 26.168γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2017-01-13 
  • Released Date: 2018-01-17 
  • Deposition Author(s): Wang, Y., Hao, Q.

Funding OrganizationLocationGrant Number
HK-RGCHong KongC7037-14G

Revision History 

  • Version 1.0: 2018-01-17
    Type: Initial release