6GE8 | pdb_00006ge8

Crystal structure of Mycobacterium tuberculosis BioA

• PDB DOI: https://doi.org/10.2210/pdb6GE8/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Mycobacterium tuberculosis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-04-25 Released: 2019-05-08 
• Deposition Author(s): Ekstrom, A., Campopiano, D.J., Marles-Wright, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.87 Å
• R-Value Free: 
  0.206 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.164 (Depositor), 0.160 (DCC) 
• R-Value Observed: 
  0.166 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Mycobacterium tuberculosis BioA

Marles-Wright, J.

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: 98.02 kDa 
• Atom Count: 6,815 
• Modeled Residue Count: 842 
• Deposited Residue Count: 914 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adenosylmethionine-8-amino-7-oxononanoate aminotransferase	A, B	457	Mycobacterium tuberculosis	Mutation(s): 0  Gene Names: bioA, RN08_1757 EC: 2.6.1.62

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EWE	C [auth A], E [auth B]	[(2~{S})-3-(1~{H}-indol-3-yl)-1-[(2~{E})-2-[[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylidene]hydrazinyl]-1-oxidanylidene-propan-2-yl]azanium C19 H23 N5 O6 P NHNIWQSLLUSOSI-ZLAIJAOWSA-O
MG	D [auth A], F [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.87 Å
• R-Value Free:  0.206 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.164 (Depositor), 0.160 (DCC) 
• R-Value Observed: 0.166 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.748	α = 90
b = 66.559	β = 90
c = 202.504	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-05-08 
Deposition Author(s): Ekstrom, A., Campopiano, D.J., Marles-Wright, J.

Revision History  

• Version 1.0: 2019-05-08
  Type: Initial release
  
• Version 1.1: 2019-06-26
  Changes: Data collection, Refinement description, Source and taxonomy
• Version 1.2: 2019-08-21
  Changes: Data collection
• Version 1.3: 2024-01-17
  Changes: Data collection, Database references, Derived calculations, Refinement description