7F7B

Crystal structure of Non-specific class-C acid phosphatase from Sphingobium sp. RSMS bound to BIS-TRIS at pH 5.5

• PDB DOI: https://doi.org/10.2210/pdb7F7B/pdb

• Classification: HYDROLASE
• Organism(s): Sphingobium sp. 20006FA
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-06-28 Released: 2022-07-06 
• Deposition Author(s): Gaur, N.K., Kumar, A., Sunder, S., Mukhopadhyaya, R., Makde, R.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free: 0.214 
• R-Value Work: 0.182 
• R-Value Observed: 0.184 

Literature

Non-Specific Class-c acidphosphatase from Sphingobium sp. RSMS

Gaur, N.K., Kumar, A., Sunder, S., Mukhopadhyaya, R., Makde, R.D.

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 Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 31.54 kDa 
• Atom Count: 1,977 
• Modelled Residue Count: 253 
• Deposited Residue Count: 296 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acid phosphatase	A	296	Sphingobium sp. 20006FA	Mutation(s): 0  Gene Names: A8O16_10785

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BTB (Subject of Investigation/LOI)	B [auth A]	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C8 H19 N O5 OWMVSZAMULFTJU-UHFFFAOYSA-N
PO4 (Subject of Investigation/LOI)	D [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free: 0.214 
• R-Value Work: 0.182 
• R-Value Observed: 0.184 
• Space Group: I 4₁ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 168.38	α = 90
b = 168.38	β = 90
c = 168.38	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
Aimless	data scaling
MR-Rosetta	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2022-07-06 
Deposition Author(s): Gaur, N.K., Kumar, A., Sunder, S., Mukhopadhyaya, R., Makde, R.D.

Revision History  

• Version 1.0: 2022-07-06
  Type: Initial release
  
• Version 1.1: 2024-10-16
  Changes: Data collection, Structure summary