Download MendeleyThe Yaf9 YEATS domain Recognizing H3K122suc Peptide
Wang, Y., Hao, Q.To be published.
5WYI
The Yaf9 YEATS domain Recognizing H3K122suc Peptide
- DOI: 10.2210/pdb5WYI/pdb
- Classification: TRANSCRIPTION
- Organism(s): Saccharomyces cerevisiae RM11-1a, Homo sapiens
- Expression System: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
- Mutation(s): Yes
- Deposited: 2017-01-13 Released: 2018-01-17
- Funding Organization(s): HK-RGC
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
Macromolecules
Find similar proteins by:
(by identity cutoff) | Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Yaf9 | A | 165 | Saccharomyces cerevisiae RM11-1a | Mutation(s): 3 Gene Names: SCRG_03242, YAF9 |  |
Find proteins for B3LNW5 (Saccharomyces cerevisiae (strain RM11-1a)) Explore B3LNW5 Go to UniProtKB: B3LNW5 | |||||
Protein Feature ViewExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Yaf9 | B, C | 164 | Saccharomyces cerevisiae RM11-1a | Mutation(s): 3 Gene Names: SCRG_03242, YAF9 |  |
Find proteins for B3LNW5 (Saccharomyces cerevisiae (strain RM11-1a)) Explore B3LNW5 Go to UniProtKB: B3LNW5 | |||||
Protein Feature ViewExpand | |||||
| |||||
- Find similar proteins by: Sequence | Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| ILE-MET-PRO-LYS-ASP-ILE-GLN-LEU | E | 8 | Homo sapiens | Mutation(s): 0 Gene Names: |  |
Find proteins for P68431 (Homo sapiens) Explore P68431 Go to UniProtKB: P68431 | |||||
NIH Common Fund Data Resources | |||||
GTEx ENSG00000197409 | |||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SLL Query on SLL | 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 | 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 = 136.932 | α = 90 |
| b = 136.932 | β = 90 |
| c = 26.168 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| PHASER | phasing |
