7RBQ

Co-crystal structure of human PRMT9 in complex with MT556 inhibitor

• PDB DOI: https://doi.org/10.2210/pdb7RBQ/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2021-07-06 Released: 2021-08-11 
• Deposition Author(s): Zeng, H., Dong, A., Hutchinson, A., Seitova, A., Li, Y., Gao, Y.D., Schneider, S., Siliphaivanh, P., Sloman, D., Nicholson, B., Fischer, C., Hicks, J., Brown, P.J., Arrowsmith, C.H., Edwards, A.M., Halabelian, L., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.271 
• R-Value Work: 0.212 
• R-Value Observed: 0.215 

Literature

Co-crystal structure of human PRMT9 in complex with MT556 inhibitor

Zeng, H., Dong, A., Hutchinson, A., Seitova, A., Li, Y., Gao, Y.D., Schneider, S., Siliphaivanh, P., Sloman, D., Nicholson, B., Fischer, C., Hicks, J., Brown, P.J., Arrowsmith, C.H., Edwards, A.M., Halabelian, L., Structural Genomics Consortium (SGC)

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 80.96 kDa 
• Atom Count: 4,758 
• Modelled Residue Count: 614 
• Deposited Residue Count: 719 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein arginine N-methyltransferase 9	A	719	Homo sapiens	Mutation(s): 0  Gene Names: PRMT9, PRMT10 EC: 2.1.1.320
UniProt & NIH Common Fund Data Resources
Find proteins for Q6P2P2 (Homo sapiens) Explore Q6P2P2  Go to UniProtKB:  Q6P2P2
PHAROS:  Q6P2P2 GTEx:  ENSG00000164169

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
44T (Subject of Investigation/LOI)	B [auth A]	7-[5-S-(4-{[(4-ethylpyridin-3-yl)methyl]amino}butyl)-5-thio-beta-D-ribofuranosyl]-7H-pyrrolo[2,3-d]pyrimidin-4-amine C23 H32 N6 O3 S BAIOUYWLRAHGMQ-GLHSZLCASA-N
EDO	C [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
UNX	D [auth A], E [auth A], F [auth A], G [auth A], H [auth A]	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.271 
• R-Value Work: 0.212 
• R-Value Observed: 0.215 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.044	α = 90
b = 82.061	β = 97.71
c = 65.767	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
HKL-3000	data processing
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-08-11 
Deposition Author(s): Zeng, H., Dong, A., Hutchinson, A., Seitova, A., Li, Y., Gao, Y.D., Schneider, S., Siliphaivanh, P., Sloman, D., Nicholson, B., Fischer, C., Hicks, J., Brown, P.J., Arrowsmith, C.H., Edwards, A.M., Halabelian, L., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2021-08-11
  Type: Initial release