SMTL ID : 4hwk.1 (1 other biounit)

Crystal structure of human sepiapterin reductase in complex with sulfapyridine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

NAP.1: 30 residues within 4Å: Chain A: G.41, A.42, S.43, R.44, G.45, F.46, A.68, R.69, N.70, A.95, D.96, L.97, G.98, N.127, A.128, G.129, L.153, I.182, S.183, Y.197, K.201, P.225, G.226, P.227, L.228, T.230, D.231, M.232, Q.233 Ligands: SFY.7 34 PLIP interactions: 34 interactions with chain A Hydrophobic interactions: A:P.225 Hydrogen bonds: A:S.43, A:S.43, A:S.43, A:R.44, A:R.44, A:F.46, A:R.69, A:N.70, A:D.96, A:D.96, A:L.97, A:G.98, A:N.127, A:G.129, A:K.201, A:L.228, A:L.228, A:D.231, A:M.232, A:Q.233, A:Q.233 Water bridges: A:R.44, A:R.44, A:R.44, A:G.45, A:G.47, A:R.69, A:R.69, A:N.127, A:D.231 Salt bridges: A:R.44, A:R.44, A:R.69 NAP.11: 30 residues within 4Å: Chain B: G.41, A.42, S.43, R.44, G.45, F.46, A.68, R.69, N.70, A.95, D.96, L.97, G.98, N.127, A.128, G.129, L.153, I.182, S.183, Y.197, K.201, P.225, G.226, P.227, L.228, T.230, D.231, M.232, Q.233 Ligands: SFY.14 34 PLIP interactions: 34 interactions with chain B Hydrophobic interactions: B:P.225 Hydrogen bonds: B:S.43, B:S.43, B:S.43, B:R.44, B:R.44, B:F.46, B:R.69, B:N.70, B:D.96, B:L.97, B:G.98, B:N.127, B:G.129, B:Y.197, B:K.201, B:L.228, B:L.228, B:T.230, B:D.231, B:M.232, B:Q.233, B:Q.233 Water bridges: B:R.44, B:R.44, B:G.45, B:G.47, B:R.69, B:R.69, B:N.70, B:D.231 Salt bridges: B:R.44, B:R.44, B:R.69

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

SO4.2: 1 residues within 4Å: Chain A: R.69 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.69, A:R.69 Salt bridges: A:R.69 SO4.5: 2 residues within 4Å: Chain A: R.75, R.92 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.75, A:R.92 SO4.8: 2 residues within 4Å: Chain A: Y.286 Ligands: GOL.4 No protein-ligand interaction detected (PLIP) SO4.12: 1 residues within 4Å: Chain B: R.69 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.69, B:R.69 Salt bridges: B:R.69

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 2 residues within 4Å: Chain A: K.117, G.118 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.118 Water bridges: A:L.119 GOL.4: 6 residues within 4Å: Chain A: G.226, P.227, D.284, Y.286 Ligands: SFY.7, SO4.8 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.226, A:D.284 Water bridges: A:L.185, A:A.224 GOL.6: 6 residues within 4Å: Chain A: D.229, K.253, G.256, K.257, L.258, D.260 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.229, A:D.229, A:K.253, A:G.256 GOL.9: 3 residues within 4Å: Chain A: R.44, G.45, D.231 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.45 Water bridges: A:G.45, A:D.231 GOL.13: 6 residues within 4Å: Chain B: L.185, G.226, D.284, Y.286 Ligands: SFY.14, PEG.15 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.226 Water bridges: B:L.185, B:D.284

2 x SFY: 4-amino-N-(pyridin-2-yl)benzenesulfonamide(Non-covalent)

SFY.7: 15 residues within 4Å: Chain A: S.184, L.185, C.186, F.191, W.194, Y.197, G.226, P.227, M.232, Q.233, A.236, M.245 Ligands: NAP.1, GOL.4, PEG.10 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.191, A:A.236 Hydrogen bonds: A:S.184, A:S.184, A:L.185, A:Y.197 Water bridges: A:G.226 pi-Stacking: A:W.194 SFY.14: 16 residues within 4Å: Chain B: L.131, S.184, L.185, C.186, F.191, W.194, Y.197, G.226, P.227, M.232, Q.233, A.236, M.245 Ligands: NAP.11, GOL.13, PEG.15 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.191, B:A.236 Hydrogen bonds: B:S.184, B:S.184, B:L.185 Water bridges: B:G.226 pi-Stacking: B:W.194

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.10: 3 residues within 4Å: Chain A: D.244, G.248 Ligands: SFY.7 No protein-ligand interaction detected (PLIP) PEG.15: 5 residues within 4Å: Chain B: D.244, M.245, G.248 Ligands: GOL.13, SFY.14 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Haruki, H. et al., Tetrahydrobiopterin biosynthesis as an off-target of sulfa drugs. Science (2013)

Release Date

2013-06-05

Peptides

Sepiapterin reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Sepiapterin reductase

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