SMTL ID : 3zll.1

Pseudomonas aeruginosa RmlA in complex with allosteric inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x 4WF: 5-azanyl-6-oxidanyl-1-(phenylmethyl)pyrimidine-2,4-dione(Non-covalent)

4WF.1: 7 residues within 4Å: Chain A: L.55, V.260, A.261, E.265, I.266, R.269 Ligands: GOL.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.55, A:R.269 Hydrogen bonds: A:A.261 Water bridges: A:K.259, A:C.262 4WF.6: 8 residues within 4Å: Chain B: L.55, V.260, A.261, E.265, I.266, R.269, Q.270 Ligands: GOL.8 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.55, B:R.269 Hydrogen bonds: B:A.261 Water bridges: B:F.128, B:C.262 4WF.10: 7 residues within 4Å: Chain C: L.55, H.129, A.261, E.265, I.266, R.269, Q.270 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.55, C:I.266, C:Q.270 Hydrogen bonds: C:A.261 Water bridges: C:G.125, C:K.259, C:C.262 4WF.13: 6 residues within 4Å: Chain D: L.55, A.261, E.265, I.266, R.269, Q.270 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:L.55, D:Q.270 Hydrogen bonds: D:A.261 Water bridges: D:C.262, D:C.262

3 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 7 residues within 4Å: Chain C: F.160, G.164, K.165, A.166, S.223, V.224, I.226 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:A.166, C:V.224 MES.7: 7 residues within 4Å: Chain B: F.160, G.164, K.165, A.166, S.223, V.224, I.226 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.166, B:V.224 Water bridges: B:I.226 MES.11: 8 residues within 4Å: Chain A: F.160, G.164, K.165, A.166, L.222, S.223, V.224, I.226 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.166, A:V.224, A:V.224 Water bridges: A:I.226

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: R.59, E.60, G.84, D.86 Chain C: P.67 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.86 GOL.4: 10 residues within 4Å: Chain A: Y.48, S.51, T.52, L.55, L.122, Y.123, F.128, V.260, A.261 Ligands: 4WF.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.123 GOL.8: 9 residues within 4Å: Chain B: Y.48, S.51, T.52, L.55, L.122, Y.123, F.128, A.261 Ligands: 4WF.6 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.52, B:Y.123

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 2 residues within 4Å: Chain A: H.126, D.127 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain B: H.126, D.127 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain C: H.126 Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain D: H.126, D.127 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alphey, M.S. et al., Allosteric competitive inhibitors of the glucose-1-phosphate thymidylyltransferase (RmlA) from Pseudomonas aeruginosa. ACS Chem. Biol. (2013)

Release Date

2013-02-20

Peptides

GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE

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