8OWQ

Crystal structure of Mycobacterium smegmatis CoaB in complex with CTP and 2-(1-(3,4-dihydroxyphenyl)-5-phenyl-1H-indol-3-yl)-2-oxoacetic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.11 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.211 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Development of new inhibitors against M. tuberculosis CoaBC using a fragment based approach.

Hess, J.Mendes, V.Evans, J.C.Trapero, A.Marchetti, C.Blaszczyk, M.Bryant, O.Spry, C.Coyne, A.G.Boshoff, H.I.M.Barry, C.E.Mizrahi, V.Blundell, T.L.Abell, C.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Coenzyme A biosynthesis bifunctional protein CoaBC
A, B, C, D
237Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: coaBCMSMEG_3054
EC: 4.1.1.36 (PDB Primary Data), 6.3.2.5 (PDB Primary Data)
UniProt
Find proteins for A0QWT2 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Explore A0QWT2 
Go to UniProtKB:  A0QWT2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0QWT2
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CTP
Query on CTP

Download Ideal Coordinates CCD File 
E [auth A],
J [auth B],
M [auth C],
Q [auth D]
CYTIDINE-5'-TRIPHOSPHATE
C9 H16 N3 O14 P3
PCDQPRRSZKQHHS-XVFCMESISA-N
W4X (Subject of Investigation/LOI)
Query on W4X

Download Ideal Coordinates CCD File 
G [auth A]
H [auth A]
I [auth A]
L [auth B]
O [auth C]
G [auth A],
H [auth A],
I [auth A],
L [auth B],
O [auth C],
P [auth C]
2-[1-[3,4-bis(oxidanyl)phenyl]-5-phenyl-indol-3-yl]-2-oxidanylidene-ethanoic acid
C22 H15 N O5
WKTMYKMXGIXMJJ-UHFFFAOYSA-N
CA
Query on CA

Download Ideal Coordinates CCD File 
F [auth A],
K [auth B],
N [auth C],
R [auth D]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.11 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.211 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.2α = 90
b = 78.472β = 90
c = 150.06γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
PHASERphasing
XDSdata reduction

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Bill & Melinda Gates FoundationUnited StatesOPP1158806
Bill & Melinda Gates FoundationUnited StatesOPP1024021

Revision History  (Full details and data files)

  • Version 1.0: 2024-05-08
    Type: Initial release