4HKD | pdb_00004hkd

Crystal structure of human MST2 SARAH domain

• PDB DOI: https://doi.org/10.2210/pdb4HKD/pdb

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


• Deposited: 2012-10-15 Released: 2013-09-04 
• Deposition Author(s): Liu, G.G., Shi, Z.B., Zhou, Z.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.231 (Depositor), 0.232 (DCC) 
• R-Value Work: 
  0.195 (Depositor), 0.196 (DCC) 
• R-Value Observed: 
  0.197 (Depositor) 

Literature

Crystal structure of human MST2 SARAH domain

Liu, G.G., Shi, Z.B., Zhou, Z.C.

To be published.

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 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 26.24 kDa 
• Atom Count: 1,990 
• Modeled Residue Count: 209 
• Deposited Residue Count: 212 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase 3	A, B, C, D	53	Homo sapiens	Mutation(s): 0  Gene Names: STK3, KRS1, MST2 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q13188 (Homo sapiens) Explore Q13188  Go to UniProtKB:  Q13188
PHAROS:  Q13188 GTEx:  ENSG00000104375

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C, D	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.231 (Depositor), 0.232 (DCC) 
• R-Value Work:  0.195 (Depositor), 0.196 (DCC) 
• R-Value Observed: 0.197 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.205	α = 90
b = 44.615	β = 90
c = 209.155	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
AutoSol	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-09-04 
Deposition Author(s): Liu, G.G., Shi, Z.B., Zhou, Z.C.

Revision History  

• Version 1.0: 2013-09-04
  Type: Initial release
  
• Version 1.1: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary