8IHE | pdb_00008ihe

Rv1122(gnd2) in Mycobacterium tuberculosis

• PDB DOI: https://doi.org/10.2210/pdb8IHE/pdb

• Classification: HYDROLASE
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-02-22 Released: 2024-02-28 
• Deposition Author(s): Chen, Y.J., Su, D.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.74 Å
• R-Value Free: 
  0.307 (Depositor), 0.310 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.221 (Depositor) 

Starting Model: experimental

Literature

Rv1122(gnd2) in Mycobacterium tuberculosis

Chen, Y.J., Su, D.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 145.6 kDa 
• Atom Count: 9,862 
• Modeled Residue Count: 1,312 
• Deposited Residue Count: 1,360 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable 6-phosphogluconate dehydrogenase,decarboxylating Gnd2	A, B, C, D	340	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  Gene Names: gnd2, Rv1122
UniProt
Find proteins for O06574 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore O06574  Go to UniProtKB:  O06574

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.74 Å
• R-Value Free:  0.307 (Depositor), 0.310 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.221 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.991	α = 90
b = 107.246	β = 90
c = 137.023	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-02-28 
Deposition Author(s): Chen, Y.J., Su, D.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31670737

Revision History  

• Version 1.0: 2024-02-28
  Type: Initial release