4ACF

CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS GLUTAMINE SYNTHETASE IN COMPLEX WITH IMIDAZOPYRIDINE INHIBITOR ((4-(6-BROMO-3-(BUTYLAMINO)IMIDAZO(1,2-A)PYRIDIN-2-YL)PHENOXY) ACETIC ACID) AND L-METHIONINE-S-SULFOXIMINE PHOSPHATE.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.167 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Synthesis, Biological Evaluation and X-Ray Crystallographic Studies of Imidazo(1,2-A)Pyridine-Based Mycobacterium Tuberculosis Glutamine Synthetase Inhibitors

Nordqvist, A.Nilsson, M.T.Lagerlund, O.Muthas, D.Gising, J.Yahiaoui, S.Odell, L.R.Srinivasa, B.R.Larhed, M.Mowbray, S.L.Karlen, A.

(2012) Medchemcomm 3: 620


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
GLUTAMINE SYNTHETASE 1
A, B, C, D, E, F
A, B, C, D, E, F
486Mycobacterium tuberculosis H37RvMutation(s): 0 
Gene Names: glnA1glnARv2220MTCY190.31MTCY427.01
EC: 6.3.1.2
UniProt
Find proteins for P9WN39 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WN39 
Go to UniProtKB:  P9WN39
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP9WN39
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
46B
Query on 46B

Download Ideal Coordinates CCD File 
EA [auth D],
G [auth A],
MA [auth E],
O [auth B],
UA [auth F],
EA [auth D],
G [auth A],
MA [auth E],
O [auth B],
UA [auth F],
W [auth C]
{4-[6-BROMO-3-(BUTYLAMINO)IMIDAZO[1,2-A]PYRIDIN-2-YL]PHENOXY}ACETIC ACID
C19 H20 Br N3 O3
OZIYUZINTQIIAN-UHFFFAOYSA-N
 Ligand Interaction
P3S
Query on P3S

Download Ideal Coordinates CCD File 
AA [auth C],
IA [auth D],
K [auth A],
QA [auth E],
S [auth B],
AA [auth C],
IA [auth D],
K [auth A],
QA [auth E],
S [auth B],
YA [auth F]
L-METHIONINE-S-SULFOXIMINE PHOSPHATE
C5 H13 N2 O6 P S
QQFOFBSCSWFFPB-NMAPHRJESA-N
 Ligand Interaction
PO4
Query on PO4

Download Ideal Coordinates CCD File 
BA [auth C],
JA [auth D],
L [auth A],
RA [auth E],
T [auth B],
BA [auth C],
JA [auth D],
L [auth A],
RA [auth E],
T [auth B],
ZA [auth F]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
CL
Query on CL

Download Ideal Coordinates CCD File 
AB [auth F],
CA [auth C],
KA [auth D],
M [auth A],
SA [auth E],
AB [auth F],
CA [auth C],
KA [auth D],
M [auth A],
SA [auth E],
U [auth B]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
BB [auth F],
DA [auth C],
FA [auth D],
GA [auth D],
H [auth A],
BB [auth F],
DA [auth C],
FA [auth D],
GA [auth D],
H [auth A],
HA [auth D],
I [auth A],
J [auth A],
LA [auth D],
N [auth A],
NA [auth E],
OA [auth E],
P [auth B],
PA [auth E],
Q [auth B],
R [auth B],
TA [auth E],
V [auth B],
VA [auth F],
WA [auth F],
X [auth C],
XA [auth F],
Y [auth C],
Z [auth C]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
46B PDBBind:  4ACF IC50: 1600 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.167 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 132.59α = 90
b = 227.39β = 90
c = 202.35γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
REFMACphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-10-24
    Type: Initial release
  • Version 1.1: 2019-05-08
    Changes: Data collection, Experimental preparation, Other
  • Version 1.2: 2019-05-15
    Changes: Data collection, Experimental preparation