6HVD | pdb_00006hvd

Human SLK bound to a maleimide inhibitor

• PDB DOI: https://doi.org/10.2210/pdb6HVD/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-10-10 Released: 2018-10-17 
• Deposition Author(s): Sorrell, F.J., Berger, B.T., Salah, E., Serafim, R.A.M., Savitsky, P.A., Krojer, T., Bailey, H.J., Pinkas, D., Burgess-Brown, N.A., von Delft, F., Knapp, S., Arrowsmith, C., Bountra, C., Edwards, A.M., Elkins, J.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.63 Å
• R-Value Free: 
  0.207 (Depositor), 0.211 (DCC) 
• R-Value Work: 
  0.186 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.187 (Depositor) 

Starting Model: experimental

Literature

Human SLK bound to a maleimide inhibitor

Sorrell, F.J., Berger, B.T., Salah, E., Serafim, R.A.M., Elkins, J.M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 35.42 kDa 
• Atom Count: 2,524 
• Modeled Residue Count: 286 
• Deposited Residue Count: 304 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
STE20-like serine/threonine-protein kinase	A	304	Homo sapiens	Mutation(s): 0  Gene Names: SLK, KIAA0204, STK2 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H2G2 (Homo sapiens) Explore Q9H2G2  Go to UniProtKB:  Q9H2G2
PHAROS:  Q9H2G2 GTEx:  ENSG00000065613

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GUQ (Subject of Investigation/LOI)	E [auth A]	3-(1,3-benzothiazol-2-ylamino)-4-(2-methoxyphenyl)pyrrole-2,5-dione C18 H13 N3 O3 S DKODQPUAYQCESR-UHFFFAOYSA-N
SO4	F [auth A], G [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	B [auth A], C [auth A], D [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
GUQ	BindingDB:  6HVD	Ki: 1100 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.63 Å
• R-Value Free:  0.207 (Depositor), 0.211 (DCC) 
• R-Value Work:  0.186 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.187 (Depositor) 

Space Group: P 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.871	α = 90
b = 69.871	β = 90
c = 164.301	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-10-17 
Deposition Author(s): Sorrell, F.J., Berger, B.T., Salah, E., Serafim, R.A.M., Savitsky, P.A., Krojer, T., Bailey, H.J., Pinkas, D., Burgess-Brown, N.A., von Delft, F., Knapp, S., Arrowsmith, C., Bountra, C., Edwards, A.M., Elkins, J.M.

Revision History  

• Version 1.0: 2018-10-17
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Data collection, Database references, Refinement description