SMTL ID : 6i6v.1

SEPIAPTERIN REDUCTASE IN COMPLEX WITH COMPOUND 6

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.43 Å

Oligo State

homo-dimer

Ligands

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

NAP.1: 31 residues within 4Å: Chain A: G.29, A.30, S.31, R.32, G.33, F.34, A.56, R.57, N.58, A.83, D.84, L.85, N.115, A.116, G.117, L.141, I.170, S.171, S.172, Y.185, K.189, P.213, G.214, P.215, L.216, T.218, D.219, M.220, Q.221 Ligands: H6E.2, EDO.3 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:P.213 Hydrogen bonds: A:S.31, A:S.31, A:S.31, A:R.32, A:R.32, A:F.34, A:R.57, A:N.58, A:D.84, A:L.85, A:N.115, A:G.117, A:K.189, A:L.216, A:L.216, A:T.218, A:D.219, A:M.220, A:Q.221, A:Q.221 Water bridges: A:R.32, A:R.32, A:G.35, A:R.57, A:R.57, A:R.57, A:N.115 Salt bridges: A:R.32, A:R.32, A:R.57 NAP.6: 31 residues within 4Å: Chain B: G.29, A.30, S.31, R.32, G.33, F.34, A.56, R.57, N.58, A.83, D.84, L.85, G.86, N.115, A.116, G.117, L.141, I.170, S.171, S.172, Y.185, K.189, P.213, G.214, P.215, L.216, T.218, D.219, M.220, Q.221 Ligands: H6E.7 32 PLIP interactions: 32 interactions with chain B Hydrophobic interactions: B:P.213 Hydrogen bonds: B:S.31, B:S.31, B:S.31, B:R.32, B:R.32, B:F.34, B:R.57, B:N.58, B:D.84, B:L.85, B:G.86, B:N.115, B:G.117, B:K.189, B:L.216, B:L.216, B:T.218, B:D.219, B:M.220, B:Q.221, B:Q.221 Water bridges: B:R.32, B:R.32, B:G.35, B:R.57, B:R.57, B:N.58, B:N.115 Salt bridges: B:R.32, B:R.32, B:R.57

2 x H6E: 2-[[(3~{R})-oxan-3-yl]methylsulfonyl]-2-azaspiro[4.5]decane(Non-covalent)

H6E.2: 12 residues within 4Å: Chain A: L.119, S.172, F.179, W.182, Y.185, P.215, M.220, Q.221, M.233, L.237, L.240 Ligands: NAP.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.179, A:F.179, A:W.182, A:L.240 Hydrogen bonds: A:Y.185, A:Q.221 H6E.7: 12 residues within 4Å: Chain B: L.119, S.172, L.173, F.179, W.182, Y.185, P.215, M.220, Q.221, L.237, L.240 Ligands: NAP.6 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.173, B:F.179, B:F.179, B:W.182, B:L.240 Hydrogen bonds: B:Q.221

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

EDO.3: 4 residues within 4Å: Chain A: R.32, D.219, L.223 Ligands: NAP.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.32, A:R.32 Water bridges: A:D.219, A:L.223 EDO.4: 3 residues within 4Å: Chain A: R.77, V.78, V.79 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.77, A:R.77, A:V.78 Water bridges: A:V.78 EDO.5: 2 residues within 4Å: Chain A: H.8, E.9 No protein-ligand interaction detected (PLIP) EDO.8: 9 residues within 4Å: Chain A: N.136 Chain B: L.85, G.86, A.87, E.88, L.91, A.140, T.144, S.145 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Water bridges: B:G.86, B:E.88 Hydrogen bonds: A:N.136 EDO.9: 6 residues within 4Å: Chain B: K.124, D.128, L.129, S.130, D.131, Q.134 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.130, B:D.131 EDO.10: 3 residues within 4Å: Chain B: R.57, A.83, D.84 2 PLIP interactions: 2 interactions with chain B Water bridges: B:D.84, B:D.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alen, J. et al., Fragment-Based Discovery of Novel Potent Sepiapterin Reductase Inhibitors. J.Med.Chem. (2019)

Release Date

2019-07-10

Peptides

Sepiapterin reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Sepiapterin reductase

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