SMTL ID : 1e92.1

Pteridine reductase 1 from Leishmania major complexed with NADP+ and dihydrobiopterin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 28 residues within 4Å: Chain A: G.13, K.16, R.17, L.18, H.36, Y.37, H.38, R.39, S.40, A.64, D.65, L.66, S.67, N.109, A.110, S.111, S.112, D.142, M.179, V.180, D.181, Y.194, K.198, P.224, G.225, L.226, S.227 Ligands: HBI.2 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:P.224 Hydrogen bonds: A:R.17, A:L.18, A:H.38, A:R.39, A:S.40, A:D.65, A:L.66, A:S.67, A:N.109, A:S.111, A:S.111, A:S.111, A:Y.194, A:K.198, A:S.227, A:S.227 Water bridges: A:G.13, A:K.16, A:K.16, A:G.19, A:H.38, A:H.38, A:N.109 Salt bridges: A:R.17, A:R.17 pi-Stacking: A:H.38 NAP.3: 29 residues within 4Å: Chain B: G.13, K.16, R.17, L.18, H.36, Y.37, H.38, R.39, S.40, A.64, D.65, L.66, S.67, N.109, A.110, S.111, S.112, D.142, S.146, M.179, V.180, D.181, Y.194, K.198, P.224, G.225, L.226, S.227 Ligands: HBI.4 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:P.224 Hydrogen bonds: B:R.17, B:L.18, B:H.38, B:R.39, B:S.40, B:D.65, B:D.65, B:L.66, B:S.67, B:N.109, B:S.111, B:S.111, B:S.111, B:K.198, B:S.227, B:S.227 Water bridges: B:G.13, B:A.15, B:N.109, B:N.109 Salt bridges: B:R.17, B:R.17 pi-Stacking: B:H.38 NAP.8: 27 residues within 4Å: Chain C: G.13, R.17, L.18, H.36, Y.37, H.38, R.39, S.40, A.64, D.65, L.66, S.67, N.109, A.110, S.111, S.112, D.142, M.179, V.180, D.181, Y.194, K.198, P.224, G.225, L.226, S.227 Ligands: HBI.9 28 PLIP interactions: 28 interactions with chain C Hydrophobic interactions: C:P.224 Hydrogen bonds: C:R.17, C:L.18, C:H.38, C:R.39, C:S.40, C:D.65, C:L.66, C:S.67, C:N.109, C:S.111, C:S.111, C:S.111, C:Y.194, C:K.198, C:S.227, C:S.227 Water bridges: C:G.13, C:K.16, C:K.16, C:R.17, C:G.19, C:H.38, C:H.38, C:N.109 Salt bridges: C:R.17, C:R.17 pi-Stacking: C:H.38 NAP.10: 27 residues within 4Å: Chain D: G.13, R.17, L.18, H.36, Y.37, H.38, R.39, S.40, A.64, D.65, L.66, S.67, N.109, A.110, S.111, S.112, D.142, M.179, V.180, D.181, Y.194, K.198, P.224, G.225, L.226, S.227 Ligands: HBI.11 23 PLIP interactions: 23 interactions with chain D Hydrophobic interactions: D:P.224 Hydrogen bonds: D:R.17, D:L.18, D:H.38, D:R.39, D:S.40, D:D.65, D:D.65, D:L.66, D:S.67, D:N.109, D:S.111, D:S.111, D:S.111, D:K.198, D:S.227, D:S.227 Water bridges: D:K.16, D:G.19, D:N.109 Salt bridges: D:R.17, D:R.17 pi-Stacking: D:H.38

4 x HBI: 7,8-DIHYDROBIOPTERIN(Non-covalent)

HBI.2: 9 residues within 4Å: Chain A: R.17, S.111, F.113, D.181, Y.194, G.225, L.226, L.229 Ligands: NAP.1 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:L.229 Hydrogen bonds: A:R.17, A:S.111, A:S.111, A:Y.194, A:G.225 pi-Stacking: A:F.113, A:F.113 Water bridges: D:R.287, D:R.287 HBI.4: 9 residues within 4Å: Chain B: R.17, S.111, F.113, D.181, Y.194, G.225, L.226, L.229 Ligands: NAP.3 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:L.229 Hydrogen bonds: B:R.17, B:S.111, B:S.111, B:G.225, C:R.287 pi-Stacking: B:F.113, B:F.113 HBI.9: 9 residues within 4Å: Chain C: R.17, S.111, F.113, D.181, Y.194, G.225, L.226, L.229 Ligands: NAP.8 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:F.113 Hydrogen bonds: C:R.17, C:S.111, C:S.111, C:Y.194, C:G.225, B:R.287 pi-Stacking: C:F.113, C:F.113 HBI.11: 9 residues within 4Å: Chain D: R.17, S.111, F.113, D.181, Y.194, G.225, L.226, L.229 Ligands: NAP.10 9 PLIP interactions: 7 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:R.17, D:S.111, D:S.111, D:G.225 Water bridges: D:R.17, A:R.287, A:R.287 pi-Stacking: D:F.113, D:F.113

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 6 residues within 4Å: Chain A: G.199, E.202, R.206 Chain B: G.199, E.202, R.206 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:R.206, B:R.206, A:E.202, A:R.206, A:R.206 EDO.6: 3 residues within 4Å: Chain B: R.20, A.46, T.50 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.20, B:T.50 EDO.7: 3 residues within 4Å: Chain A: N.68 Chain B: N.68, A.141 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.68, B:N.68 EDO.12: 6 residues within 4Å: Chain C: G.199, E.202, R.206 Chain D: G.199, E.202, R.206 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:R.206, D:R.206, C:E.202, C:R.206, C:R.206

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gourley, D.G. et al., Pteridine Reductase Mechanism Correlates Pterin Metabolism with Drug Resistance in Trypanosomatid Parasites. Nat.Struct.Biol. (2001)

Release Date

2001-10-05

Peptides

PTERIDINE REDUCTASE 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

PTERIDINE REDUCTASE 1

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