7YFJ

Crystal structure of human WTAP

• PDB DOI: https://doi.org/10.2210/pdb7YFJ/pdb

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


• Deposited: 2022-07-08 Released: 2023-01-25 
• Deposition Author(s): Yan, X.H., Guan, Z.Y., Tang, C., Yin, P.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.240 
• R-Value Work: 0.220 
• R-Value Observed: 0.221 

Starting Model: experimental

Literature

AI-empowered integrative structural characterization of m 6 A methyltransferase complex.

Yan, X., Pei, K., Guan, Z., Liu, F., Yan, J., Jin, X., Wang, Q., Hou, M., Tang, C., Yin, P.

(2022) Cell Res 32: 1124-1127

• PubMed: 36357785 
• DOI: https://doi.org/10.1038/s41422-022-00741-8
• Primary Citation of Related Structures:  
  7YFJ, 7YG4

---

Organizational Affiliation: 

National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, Hubei, China.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 28.93 kDa 
• Atom Count: 1,652 
• Modelled Residue Count: 189 
• Deposited Residue Count: 244 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pre-mRNA-splicing regulator WTAP	A, B	122	Homo sapiens	Mutation(s): 0  Gene Names: WTAP
UniProt & NIH Common Fund Data Resources
Find proteins for Q15007 (Homo sapiens) Explore Q15007  Go to UniProtKB:  Q15007
PHAROS:  Q15007 GTEx:  ENSG00000146457

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	D [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO	C [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.240 
• R-Value Work: 0.220 
• R-Value Observed: 0.221 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.754	α = 90
b = 62.754	β = 90
c = 336.345	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
SHELXDE	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-01-25 
Deposition Author(s): Yan, X.H., Guan, Z.Y., Tang, C., Yin, P.

---

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2023-01-25
  Type: Initial release
  
• Version 1.1: 2024-05-08
  Changes: Data collection, Database references