5BO3

Bianthranilate-like inhibitor with 5 atom "line" and phosphonate "hook" fishing for hydrogen bond donors in Mycobacterium tuberculosis anthranilate phosphoribosyltransferase (AnPRT; trpD)

• PDB DOI: https://doi.org/10.2210/pdb5BO3/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Mycobacterium tuberculosis H37Ra
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2015-05-27 Released: 2016-06-01 
• Deposition Author(s): Evans, G.L., Baker, E.N., Lott, J.S., TB Structural Genomics Consortium (TBSGC)
• Funding Organization(s): Health Research Council (HRC), FRST (Foundation for Research, Science and Technology)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.240 
• R-Value Work: 0.206 
• R-Value Observed: 0.207 

Starting Model: experimental

Literature

Binding and mimicking of the phosphate-rich substrate, PRPP.

Evans, G.L., Baker, E.N., Lott, J.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)

Macromolecule Content

• Total Structure Weight: 78.85 kDa 
• Atom Count: 5,214 
• Modelled Residue Count: 653 
• Deposited Residue Count: 758 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Anthranilate phosphoribosyltransferase	A, B	379	Mycobacterium tuberculosis H37Ra	Mutation(s): 0  Gene Names: trpD, MRA_2208 EC: 2.4.2.18
UniProt
Find proteins for A5U4M0 (Mycobacterium tuberculosis (strain ATCC 25177 / H37Ra)) Explore A5U4M0  Go to UniProtKB:  A5U4M0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
7P2	C [auth A], E [auth B]	2-[(2-carboxyphenyl)amino]-5-(4-phosphonobutoxy)benzoic acid C18 H20 N O8 P VJUHVFNGPLDDFZ-UHFFFAOYSA-N
IMD	D [auth A], F [auth B]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.240 
• R-Value Work: 0.206 
• R-Value Observed: 0.207 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.038	α = 90
b = 78.136	β = 111.08
c = 102.643	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Blu-Ice	data collection
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-06-01 
Deposition Author(s): Evans, G.L., Baker, E.N., Lott, J.S., TB Structural Genomics Consortium (TBSGC)

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Funding Organization	Location	Grant Number
Health Research Council (HRC)	New Zealand	HRC12/1111
FRST (Foundation for Research, Science and Technology)	New Zealand	UOAX1005

Revision History  

• Version 1.0: 2016-06-01
  Type: Initial release
  
• Version 1.1: 2020-01-01
  Changes: Author supporting evidence, Data collection, Derived calculations
• Version 1.2: 2023-09-27
  Changes: Data collection, Database references, Refinement description