7P5L

Crystal structure of Mycobacterium hassiacum glucosyl-3-phosphoglycerate synthase at pH 7.1 - apo form

• PDB DOI: https://doi.org/10.2210/pdb7P5L/pdb

• Classification: TRANSFERASE
• Organism(s): Mycolicibacterium hassiacum DSM 44199
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-07-14 Released: 2023-01-18 
• Deposition Author(s): Silva, A., Nunes-Costa, D., Barbosa Pereira, P.J., Macedo-Ribeiro, S.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.22 Å
• R-Value Free: 0.164 
• R-Value Work: 0.143 
• R-Value Observed: 0.144 

Starting Model: experimental

Literature

Crystal structure of Mycobacterium hassiacum glucosyl-3-phosphoglycerate synthase at pH 7.1 - apo form

Silva, A., Nunes-Costa, D., Empadinhas, N., Barbosa Pereira, P.J., Macedo-Ribeiro, S.

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: 70.57 kDa 
• Atom Count: 5,238 
• Modelled Residue Count: 581 
• Deposited Residue Count: 654 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glucosyl-3-phosphoglycerate synthase	A, B	327	Mycolicibacterium hassiacum DSM 44199	Mutation(s): 0  Gene Names: gpgS, C731_3243, MHAS_02845 EC: 2.4.1.266
UniProt
Find proteins for K5B7Z4 (Mycolicibacterium hassiacum (strain DSM 44199 / CIP 105218 / JCM 12690 / 3849)) Explore K5B7Z4  Go to UniProtKB:  K5B7Z4

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
LMR	C [auth A]	(2S)-2-hydroxybutanedioic acid C4 H6 O5 BJEPYKJPYRNKOW-REOHCLBHSA-N
MLT	D [auth B]	D-MALATE C4 H6 O5 BJEPYKJPYRNKOW-UWTATZPHSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.22 Å
• R-Value Free: 0.164 
• R-Value Work: 0.143 
• R-Value Observed: 0.144 
• Space Group: P 2₁ 2₁ 2₁
• Diffraction Data: https://doi.org/10.15785/SBGRID/995

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.098	α = 90
b = 90.605	β = 90
c = 95.264	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2023-01-18 
Deposition Author(s): Silva, A., Nunes-Costa, D., Barbosa Pereira, P.J., Macedo-Ribeiro, S.

Revision History  

• Version 1.0: 2023-01-18
  Type: Initial release
  
• Version 1.1: 2023-03-01
  Changes: Structure summary
• Version 1.2: 2024-02-07
  Changes: Data collection, Refinement description