5GV4 | pdb_00005gv4

Y74COX MUTANT OF PLASMODIUM FALCIPARUM TRIOSEPHOSPHATE ISOMERASE

• PDB DOI: https://doi.org/10.2210/pdb5GV4/pdb

• Classification: ISOMERASE
• Organism(s): Plasmodium falciparum
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2016-09-01 Released: 2017-09-06 
• Deposition Author(s): Pareek, V., Balaram, P., Murthy, M.R.N.
• Funding Organization(s): Department of Science and Technology, Ministry of Science and Technology, India

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 
  0.236 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Starting Model: experimental

Literature

Y74COX MUTANT OF PLASMODIUM FALCIPARUM TRIOSEPHOSPHATE ISOMERASE

Pareek, V., Balaram, P., Murthy, M.R.N.

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)

Macromolecule Content 

• Total Structure Weight: 28.4 kDa 
• Atom Count: 2,069 
• Modeled Residue Count: 246 
• Deposited Residue Count: 248 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Triosephosphate isomerase	A	248	Plasmodium falciparum	Mutation(s): 2  Gene Names: TPI EC: 5.3.1.1
UniProt
Find proteins for Q07412 (Plasmodium falciparum) Explore Q07412  Go to UniProtKB:  Q07412

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PGA	B [auth A]	2-PHOSPHOGLYCOLIC ACID C2 H5 O6 P ASCFNMCAHFUBCO-UHFFFAOYSA-N
EDO	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free:  0.236 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.62	α = 90
b = 65.62	β = 90
c = 141.71	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
iMOSFLM	data processing
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-09-06 
Deposition Author(s): Pareek, V., Balaram, P., Murthy, M.R.N.

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Funding Organization	Location	Grant Number
Department of Science and Technology, Ministry of Science and Technology, India	India	--

Revision History  

• Version 1.0: 2017-09-06
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-20
  Changes: Structure summary