4ZTV | pdb_00004ztv

Non-anthranilate-like inhibitor (TAMU-A7) complexed with anthranilate phosphoribosyltransferase (trpD) from Mycobacterium tuberculosis in absence of PRPP

• PDB DOI: https://doi.org/10.2210/pdb4ZTV/pdb

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


• Deposited: 2015-05-15 Released: 2016-05-25 
• Deposition Author(s): Evans, G.L., Eom, J., Baker, E.N., Lott, J.S., TB Structural Genomics Consortium (TBSGC)
• Funding Organization(s): Health Research Council (HRC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.01 Å
• R-Value Free: 
  0.222 (Depositor), 0.225 (DCC) 
• R-Value Work: 
  0.195 (Depositor), 0.199 (DCC) 
• R-Value Observed: 
  0.196 (Depositor) 

Starting Model: experimental

Literature

Bioactive non-anthranilate-like fragment-like inhibitor provides alternative starting point for inhibitor design against anthranilate phosphoribosyl transferase from Mycobacterium tuberculosis.

Evans, G.L., Bulloch, E.M.M., Eom, J., Castell, A., Short, F.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: 78.19 kDa 
• Atom Count: 5,300 
• Modeled Residue Count: 680 
• Deposited Residue Count: 756 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Anthranilate phosphoribosyltransferase	A, B	378	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 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TA7	C [auth A], D [auth B]	4,4,4-trifluoro-1-(4-methoxyphenyl)butane-1,3-dione C11 H9 F3 O3 NNEIYSHJFCLFES-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.01 Å
• R-Value Free:  0.222 (Depositor), 0.225 (DCC) 
• R-Value Work:  0.195 (Depositor), 0.199 (DCC) 
• R-Value Observed: 0.196 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.651	α = 90
b = 91.241	β = 90
c = 119.248	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2016-05-25 
Deposition Author(s): Evans, G.L., Eom, J., Baker, E.N., Lott, J.S., TB Structural Genomics Consortium (TBSGC)

---

Funding Organization	Location	Grant Number
Health Research Council (HRC)	New Zealand	12/110C

Revision History  

• Version 1.0: 2016-05-25
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Data collection, Derived calculations, Refinement description
• Version 1.2: 2020-01-01
  Changes: Author supporting evidence
• Version 1.3: 2023-09-27
  Changes: Data collection, Database references, Refinement description