5F8V

Crystal structure of PLP bound phosphoserine aminotransferase (PSAT) from Trichomonas vaginalis

• PDB DOI: https://doi.org/10.2210/pdb5F8V/pdb

• Classification: TRANSFERASE
• Organism(s): Trichomonas vaginalis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2015-12-09 Released: 2016-10-19 
• Deposition Author(s): Singh, R.K., Gourinath, S.
• Funding Organization(s): Council of Scientific and Industrial Research (CSIR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.14 Å
• R-Value Free: 0.239 
• R-Value Work: 0.209 
• R-Value Observed: 0.210 

Literature

Structural investigation and inhibitory response of halide on phosphoserine aminotransferase from Trichomonas vaginalis.

Singh, R.K., Mazumder, M., Sharma, B., Gourinath, S.

(2016) Biochim Biophys Acta 1860: 1508-1518

• PubMed: 27102280 
• DOI: https://doi.org/10.1016/j.bbagen.2016.04.013
• Primary Citation of Related Structures:  
  5F8V


• PubMed Abstract: 
  

  Phosphoserine aminotransferase (PSAT) catalyses the second reversible step of the phosphoserine biosynthetic pathway in Trichomonas vaginalis, which is crucial for the synthesis of serine and cysteine.

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Organizational Affiliation: 

School of Life Sciences, Jawaharlal Nehru University, New Delhi, India.

Biological Assembly 1  

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

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 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content

• Total Structure Weight: 346.23 kDa 
• Atom Count: 23,601 
• Modelled Residue Count: 2,904 
• Deposited Residue Count: 3,032 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aminotransferase, class V family protein	A, B [auth E], C [auth B], D [auth C], E [auth D], F, G, H	379	Trichomonas vaginalis	Mutation(s): 0  Gene Names: TVAG_224040
UniProt
Find proteins for A2DW27 (Trichomonas vaginalis (strain ATCC PRA-98 / G3)) Explore A2DW27  Go to UniProtKB:  A2DW27

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
LLP	A, B [auth E], C [auth B], D [auth C], E [auth D], F, G, H	L-PEPTIDE LINKING	C14 H22 N3 O7 P		LYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.14 Å
• R-Value Free: 0.239 
• R-Value Work: 0.209 
• R-Value Observed: 0.210 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.967	α = 90
b = 235.434	β = 90.02
c = 134.52	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-10-19 
Deposition Author(s): Singh, R.K., Gourinath, S.

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Funding Organization	Location	Grant Number
Council of Scientific and Industrial Research (CSIR)	India	--

Revision History  

• Version 1.0: 2016-10-19
  Type: Initial release
  
• Version 1.1: 2017-08-16
  Changes: Database references, Derived calculations
• Version 1.2: 2017-10-04
  Changes: Data collection
• Version 1.3: 2023-11-08
  Changes: Data collection, Database references, Refinement description
• Version 1.4: 2023-11-15
  Changes: Data collection