Biological Assembly 1  

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 29170.36 
• Atom Count: 1879 
• Residue Count: 280 
• Unique protein chains: 1

1EYE

1.7 ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF 6-HYDROXYMETHYL-7,8-DIHYDROPTEROATE SYNTHASE (DHPS) FROM MYCOBACTERIUM TUBERCULOSIS IN COMPLEX WITH 6-HYDROXYMETHYLPTERIN MONOPHOSPHATE

• DOI: 10.2210/pdb1EYE/pdb

• Classification: TRANSFERASE
• Organism(s): Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
• Expression System: Escherichia coli


• Deposited: 2000-05-05 Released: 2000-10-11 
• Deposition Author(s): Baca, A.M., Sirawaraporn, R., Turley, S., Sirawaraporn, W., Hol, W.G.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.7 Å
• R-Value Free: 0.243 
• R-Value Work: 0.185 

Literature

Crystal structure of Mycobacterium tuberculosis 7,8-dihydropteroate synthase in complex with pterin monophosphate: new insight into the enzymatic mechanism and sulfa-drug action.

Baca, A.M., Sirawaraporn, R., Turley, S., Sirawaraporn, W., Hol, W.G.

(2000) J.Mol.Biol. 302: 1193-1212

• PubMed: 11007651 
• DOI: 10.1006/jmbi.2000.4094
• Also Cited By: 2VP8


• PubMed Abstract: 
  

The enzyme 7,8-dihydropteroate synthase (DHPS) catalyzes the condensation of para-aminobenzoic acid (pABA) with 6-hydroxymethyl-7, 8-dihydropterin-pyrophosphate to form 7,8-dihydropteroate and pyrophosphate. DHPS is essential for the de novo synthesis of folate in prokaryotes, lower eukaryotes, and in plants, but is absent in mammals. Inhibition of this enzyme's activity by sulfonamide and sulfone drugs depletes the folate pool, resulting in growth inhibition and cell death. Here, we report the 1.7 A resolution crystal structure of the binary complex of 6-hydroxymethylpterin monophosphate (PtP) with DHPS from Mycobacterium tuberculosis (Mtb), a pathogen responsible for the death of millions of human beings each year. Comparison to other DHPS structures reveals that the M. tuberculosis DHPS structure is in a unique conformation in which loop 1 closes over the active site. The Mtb DHPS structure hints at a mechanism in which both loops 1 and 2 play important roles in catalysis by shielding the active site from bulk solvent and allowing pyrophosphoryl transfer to occur. A binding mode for pABA, sulfonamides and sulfones is suggested based on: (i) the new conformation of the closed loop 1; (ii) the distribution of dapsone and sulfonamide resistance mutations; (iii) the observed direction of the bond between the 6-methyl carbon atom and the bridging oxygen atom to the alpha-phosphate group in the Mtb DHPS:PtP binary complex; and (iv) the conformation of loop 2 in the Escherichia coli DHPS structure. Finally, the Mtb DHPS structure reveals a highly conserved pterin binding pocket that may be exploited for the design of novel antimycobacterial agents.

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Organizational Affiliation: 

Department of Bioengineering and Biomolecular Structure Center, University of Washington, Seattle, WA 98195, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
DIHYDROPTEROATE SYNTHASE I	A	280	Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)	Mutation(s): 0  Gene Names: folP1 EC: 2.5.1.15
Find proteins for P9WND1 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Go to UniProtKB:  P9WND1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
PMM	A	PTERIN-6-YL-METHYL-MONOPHOSPHATE C7 H8 N5 O5 P AJXFJEHKGGCFNM-UHFFFAOYSA-N
MG	A	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.7 Å
• R-Value Free: 0.243 
• R-Value Work: 0.185 
• Space Group: P 3₂ 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 62.900	α = 90.00
b = 62.900	β = 90.00
c = 121.400	γ = 120.00

Software Package:

Software Name	Purpose
AMoRE	phasing
TNT	refinement
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-05-05 
• Released Date: 2000-10-11 
• Deposition Author(s): Baca, A.M., Sirawaraporn, R., Turley, S., Sirawaraporn, W., Hol, W.G.J.

Revision History 

• Version 1.0: 2000-10-11
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Derived calculations, Version format compliance
• Version 1.3: 2017-10-04
  Type: Refinement description
• Version 1.4: 2018-02-07
  Type: Experimental preparation