3S4E | pdb_00003s4e

Crystal Structrue of a Novel Mitogen-activated Protein Kinase Phosphatase, SKRP1

• PDB DOI: https://doi.org/10.2210/pdb3S4E/pdb

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


• Deposited: 2011-05-19 Released: 2012-04-04 
• Deposition Author(s): Wei, C.H., Ryu, S.Y., Jeon, Y.H., Jeong, D.G., Kim, S.J., Ryu, S.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.26 Å
• R-Value Free: 
  0.181 (Depositor), 0.179 (DCC) 
• R-Value Work: 
  0.150 (Depositor), 0.164 (DCC) 
• R-Value Observed: 
  0.152 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a novel mitogen-activated protein kinase phosphatase, SKRP1.

Wei, C.H., Ryu, S.Y., Jeon, Y.H., Yoon, M.Y., Jeong, D.G., Kim, S.J., Ryu, S.E.

(2011) Proteins 79: 3242-3246

• PubMed: 21989941 
• DOI: https://doi.org/10.1002/prot.23156
• Primary Citation Related Structures: 
  3S4E

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Organizational Affiliation: 
• Department of Bioengineering, Hanyang University, 17 Haengdang-dong, Seongdong-gu, Seoul, Korea.

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: 16.18 kDa 
• Atom Count: 1,343 
• Modeled Residue Count: 144 
• Deposited Residue Count: 144 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dual specificity protein phosphatase 19	A	144	Homo sapiens	Mutation(s): 1  Gene Names: DUSP19, DUSP17, LMWDSP3, SKRP1 EC: 3.1.3.16 (PDB Primary Data), 3.1.3.48 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WTR2 (Homo sapiens) Explore Q8WTR2  Go to UniProtKB:  Q8WTR2
PHAROS:  Q8WTR2 GTEx:  ENSG00000162999

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
PO4	B [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.26 Å
• R-Value Free:  0.181 (Depositor), 0.179 (DCC) 
• R-Value Work:  0.150 (Depositor), 0.164 (DCC) 
• R-Value Observed: 0.152 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.852	α = 90
b = 50.313	β = 90
c = 57.872	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-04-04 
Deposition Author(s): Wei, C.H., Ryu, S.Y., Jeon, Y.H., Jeong, D.G., Kim, S.J., Ryu, S.E.

Revision History  

• Version 1.0: 2012-04-04
  Type: Initial release
  
• Version 1.1: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description