6AK7 | pdb_00006ak7

Crystal structure of PPM1K-N94K

• PDB DOI: https://doi.org/10.2210/pdb6AK7/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2018-08-30 Released: 2019-09-11 
• Deposition Author(s): Meisam, R.D., Guo, L.L., Xiao, P.
• Funding Organization(s): National Natural Science Foundation of China

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.224 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Starting Model: experimental

Literature

Structure of PPM1K-N94K mutant at 2.61 Angstroms resolution

Meisam, R.D., Guo, L.L., Xiao, P.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 28.45 kDa 
• Atom Count: 2,089 
• Modeled Residue Count: 257 
• Deposited Residue Count: 257 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein phosphatase 1K, mitochondrial	A	257	Homo sapiens	Mutation(s): 1  Gene Names: PPM1K, PP2CM EC: 3.1.3.16 (PDB Primary Data), 3.1.3.52 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q8N3J5 (Homo sapiens) Explore Q8N3J5  Go to UniProtKB:  Q8N3J5
PHAROS:  Q8N3J5 GTEx:  ENSG00000163644

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BME	B [auth A], C [auth A], D [auth A]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N
MG (Subject of Investigation/LOI)	E [auth A], F [auth A], G [auth A], H [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.224 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.784	α = 90
b = 122.784	β = 90
c = 61.58	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-09-11 
Deposition Author(s): Meisam, R.D., Guo, L.L., Xiao, P.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China	China	31470789
National Natural Science Foundation of China	China	31611540337
National Natural Science Foundation of China	China	81773704

Revision History  

• Version 1.0: 2019-09-11
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Derived calculations, Refinement description