5J5S

Src kinase in complex with a sulfonamide inhibitor

• PDB DOI: https://doi.org/10.2210/pdb5J5S/pdb

• Classification: Transferase/Transferase Inhibitor
• Organism(s): Gallus gallus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-04-03 Released: 2016-06-01 
• Deposition Author(s): Lebedev, I., Feldman, H.C., Georghiou, G., Maly, D.J., Seeliger, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.216 
• R-Value Work: 0.167 
• R-Value Observed: 0.170 

Starting Model: experimental

Literature

Structural and Functional Analysis of the Allosteric Modulation of IRE1a with ATP-Competitive Kinase Inhibitors

Feldman, H.C., Tong, M., Wang, L., Meza-Acevedo, R., Gobillot, T.A., Gliedt, M.J., Hari, S.B., Mitra, A.K., Backes, B.J., Papa, F.R., Seeliger, M.A., Maly, D.J.

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)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 66.46 kDa 
• Atom Count: 4,499 
• Modelled Residue Count: 516 
• Deposited Residue Count: 572 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proto-oncogene tyrosine-protein kinase Src	A, B	286	Gallus gallus	Mutation(s): 0  Gene Names: SRC EC: 2.7.10.2
UniProt
Find proteins for P00523 (Gallus gallus) Explore P00523  Go to UniProtKB:  P00523

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
6G3	C [auth A], D [auth B]	N-{4-[8-amino-3-(propan-2-yl)imidazo[1,5-a]pyrazin-1-yl]naphthalen-1-yl}-N'-[3-(trifluoromethyl)phenyl]urea C27 H23 F3 N6 O MEJKZYOOTMLMBA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.216 
• R-Value Work: 0.167 
• R-Value Observed: 0.170 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.21	α = 100.6
b = 63.551	β = 90.61
c = 73.664	γ = 90.96

Software Package:

Software Name	Purpose
HKL-2000	data scaling
PHASER	phasing
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-06-01 
Deposition Author(s): Lebedev, I., Feldman, H.C., Georghiou, G., Maly, D.J., Seeliger, M.

Revision History  

• Version 1.0: 2016-06-01
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Derived calculations, Refinement description
• Version 1.2: 2023-09-27
  Changes: Data collection, Database references, Refinement description