SMTL ID : 4d8a.3 (2 other biounits)

Crystal structure of B. anthracis DHPS with compound 21

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

homo-tetramer

Ligands

16 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: S.241, R.254 Ligand excluded by PLIP SO4.2: 1 residues within 4Å: Chain A: R.239 Ligand excluded by PLIP SO4.3: 2 residues within 4Å: Chain A: R.221, N.222 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: K.70, R.73, E.113 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: R.283 Chain B: L.249 Ligand excluded by PLIP SO4.7: 2 residues within 4Å: Chain B: S.241, R.254 Ligand excluded by PLIP SO4.8: 1 residues within 4Å: Chain B: R.239 Ligand excluded by PLIP SO4.9: 2 residues within 4Å: Chain B: R.221, N.222 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain B: K.70, R.73, E.113 Ligand excluded by PLIP SO4.11: 2 residues within 4Å: Chain A: L.249 Chain B: R.283 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain C: K.70, R.73, E.113 Ligand excluded by PLIP SO4.15: 2 residues within 4Å: Chain C: S.241, R.254 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain C: N.47, R.239 Ligand excluded by PLIP SO4.19: 3 residues within 4Å: Chain D: K.70, R.73, E.113 Ligand excluded by PLIP SO4.20: 2 residues within 4Å: Chain D: S.241, R.254 Ligand excluded by PLIP SO4.21: 2 residues within 4Å: Chain D: N.47, R.239 Ligand excluded by PLIP

4 x 0HY: methyl (3R)-3-(7-amino-4,5-dioxo-1,4,5,6-tetrahydropyrimido[4,5-c]pyridazin-3-yl)butanoate(Non-covalent)

0HY.6: 10 residues within 4Å: Chain A: D.121, N.140, I.142, I.163, M.165, D.204, F.209, G.236, K.240, R.274 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:D.121, A:N.140, A:N.140, A:K.240, A:R.274 Salt bridges: A:D.204, A:R.274 pi-Cation interactions: A:R.274 0HY.12: 10 residues within 4Å: Chain B: D.121, N.140, I.142, I.163, M.165, D.204, F.209, G.236, K.240, R.274 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:D.121, B:N.140, B:N.140, B:K.240, B:R.274 Salt bridges: B:D.204, B:R.274 pi-Cation interactions: B:R.274 0HY.17: 13 residues within 4Å: Chain C: I.45, D.121, N.140, I.142, I.163, M.165, D.204, F.209, L.234, G.236, K.240, R.274, H.276 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:D.121, C:N.140, C:N.140, C:K.240, C:R.274 Water bridges: C:G.206 Salt bridges: C:D.204, C:R.274 pi-Cation interactions: C:R.274, C:R.274 0HY.22: 13 residues within 4Å: Chain D: I.45, D.121, N.140, I.142, I.163, M.165, D.204, F.209, L.234, G.236, K.240, R.274, H.276 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:D.121, D:N.140, D:N.140, D:K.240, D:R.274 Water bridges: D:G.206 Salt bridges: D:D.204, D:R.274 pi-Cation interactions: D:R.274, D:R.274

2 x LYS: LYSINE(Non-covalent)

LYS.13: 8 residues within 4Å: Chain C: N.37, E.38, K.39, T.40, C.270, D.289, I.292, G.293 5 PLIP interactions: 5 interactions with chain C, Hydrogen bonds: C:G.293 Water bridges: C:L.36, C:C.270, C:E.271, C:E.271 LYS.18: 8 residues within 4Å: Chain D: N.37, E.38, K.39, T.40, C.270, D.289, I.292, G.293 5 PLIP interactions: 5 interactions with chain D, Hydrogen bonds: D:G.293 Water bridges: D:L.36, D:C.270, D:E.271, D:E.271

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, Y. et al., Structure-Based Design of Novel Pyrimido[4,5-c]pyridazine Derivatives as Dihydropteroate Synthase Inhibitors with Increased Affinity. Chemmedchem (2012)

Release Date

2012-04-04

Peptides

Dihydropteroate synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
A

D
A

Dihydropteroate synthase

Related Entries With Identical Sequence