5ITI | pdb_00005iti

A cynobacterial PP2C (tPphA) structure

• PDB DOI: https://doi.org/10.2210/pdb5ITI/pdb

• Classification: HYDROLASE
• Organism(s): Thermosynechococcus vestitus BP-1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-03-16 Released: 2016-05-04 
• Deposition Author(s): Su, J.Y.
• Funding Organization(s): National Natural Science Foundation of China under grant, Drug Discovery Found of Jilin Province, Fundamental Research Funds for the Central Universities

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.270 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.221 (Depositor) 

Literature

Structural and Biochemical Characterization of a Cyanobacterial PP2C Phosphatase Reveals Insights into Catalytic Mechanism and Substrate Recognition

Si, Y., Yuan, Y., Wang, Y., Gao, J., Hu, Y., Feng, S., Su, J.Y.

(2016) Catalysts 6: 60-60

• DOI: https://doi.org/10.3390/catal6050060

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: 27.18 kDa 
• Atom Count: 1,856 
• Modelled Residue Count: 238 
• Deposited Residue Count: 243 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein serin-threonin phosphatase	A	243	Thermosynechococcus vestitus BP-1	Mutation(s): 0  Gene Names: tlr2243
UniProt
Find proteins for Q8DGS1 (Thermosynechococcus vestitus (strain NIES-2133 / IAM M-273 / BP-1)) Explore Q8DGS1  Go to UniProtKB:  Q8DGS1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	B [auth A], C [auth A], D [auth A], E [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free:  0.270 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.221 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 38.008	α = 90
b = 153.823	β = 90
c = 82.929	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-05-04 
Deposition Author(s): Su, J.Y.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China under grant	China	31500637
Drug Discovery Found of Jilin Province	China	20150311057YY
Fundamental Research Funds for the Central Universities	China	2412015KJ018

Revision History  

• Version 1.0: 2016-05-04
  Type: Initial release
  
• Version 1.1: 2016-05-11
  Changes: Database references
• Version 1.2: 2017-10-04
  Changes: Data collection, Derived calculations
• Version 1.3: 2024-03-20
  Changes: Data collection, Database references, Derived calculations