1T71 | pdb_00001t71

Crystal structure of a novel phosphatase Mycoplasma pneumoniaefrom

• PDB DOI: https://doi.org/10.2210/pdb1T71/pdb

• Classification: HYDROLASE
• Organism(s): Mycoplasmoides pneumoniae M129
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2004-05-07 Released: 2004-12-07 
• Deposition Author(s): Shin, D.H., Jancarik, J., Kim, R., Yokota, H., Kim, S.-H., Berkeley Structural Genomics Center (BSGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.247 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.215 (Depositor) 

Literature

Crystal structure of a novel phosphatase from Mycoplasma pneumoniae

Shin, D.H., Jancarik, J., Kim, R., Yokota, H., Kim, S.-H.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 generated by PISA,PQS (software)

Macromolecule Content 

• Total Structure Weight: 31.58 kDa 
• Atom Count: 2,437 
• Modeled Residue Count: 281 
• Deposited Residue Count: 281 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
phosphatase	A	281	Mycoplasmoides pneumoniae M129	Mutation(s): 0  EC: 3.1
UniProt
Find proteins for P75429 (Mycoplasma pneumoniae (strain ATCC 29342 / M129 / Subtype 1)) Explore P75429  Go to UniProtKB:  P75429

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FE	B [auth A], C [auth A]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.247 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.215 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.896	α = 90
b = 84.896	β = 90
c = 162.726	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
EPMR	phasing
CNS	refinement
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-12-07 
Deposition Author(s): Shin, D.H., Jancarik, J., Kim, R., Yokota, H., Kim, S.-H., Berkeley Structural Genomics Center (BSGC)

Revision History  

• Version 1.0: 2004-12-07
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2024-02-14
  Changes: Data collection, Database references, Derived calculations