SMTL ID : 6i6c.1

SEPIAPTERIN REDUCTASE IN COMPLEX WITH COMPOUND 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.72 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.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, Y.185, K.189, P.213, G.214, P.215, L.216, T.218, D.219, M.220, Q.221 Ligands: H4H.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:D.84, A:L.85, A:N.115, A:G.117, A:Y.185, A:K.189, A:L.216, A:L.216, A:D.219, A:M.220, A:Q.221, A:Q.221 Water bridges: 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, Y.185, K.189, P.213, G.214, P.215, L.216, T.218, D.219, M.220, Q.221 Ligands: H4H.7, EDO.8 35 PLIP interactions: 35 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:D.84, B:L.85, B:G.86, B:N.115, B:G.117, B:Y.185, B:K.189, B:L.216, B:L.216, B:D.219, B:M.220, B:Q.221, B:Q.221 Water bridges: B:R.32, B:G.35, B:R.57, B:R.57, B:R.57, B:R.57, B:N.58, B:D.219, B:D.219 Salt bridges: B:R.32, B:R.32, B:R.57

2 x H4H: (1~{R},2~{S},4~{S})-~{N}-(3-chloranyl-4-cyano-phenyl)sulfonylbicyclo[2.2.1]heptane-2-carboxamide(Non-covalent)

H4H.2: 15 residues within 4Å: Chain A: L.119, S.172, L.173, C.174, F.179, W.182, Y.185, G.214, P.215, M.220, Q.221, A.224, L.237, L.240 Ligands: NAP.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.119, A:W.182, A:Y.185, A:P.215, A:A.224, A:L.237, A:L.237, A:L.240 Hydrogen bonds: A:L.173, A:C.174 H4H.7: 16 residues within 4Å: Chain B: L.119, S.172, L.173, C.174, F.179, W.182, Y.185, G.214, P.215, M.220, Q.221, A.224, M.233, L.237, L.240 Ligands: NAP.6 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.119, B:F.179, B:W.182, B:W.182, B:W.182, B:Y.185, B:A.224, B:L.237 Hydrogen bonds: B:L.173, B:C.174

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

EDO.3: 6 residues within 4Å: Chain A: R.32, D.219, M.220, L.223 Ligands: NAP.1, EDO.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.32, A:R.32 EDO.4: 5 residues within 4Å: Chain A: S.118, L.119, G.120, L.223 Ligands: EDO.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.119, A:G.120 Water bridges: A:S.118, A:S.118 EDO.5: 5 residues within 4Å: Chain A: E.9, G.21, R.22, S.47, Q.108 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.9, A:R.22, A:R.22, A:S.47, A:S.47, A:Q.108 Water bridges: A:R.22 EDO.8: 5 residues within 4Å: Chain B: R.32, D.219, M.220 Ligands: NAP.6, EDO.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.32, B:R.32 EDO.9: 5 residues within 4Å: Chain B: S.118, L.119, G.120, L.223 Ligands: EDO.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.119, B:G.120, B:G.120 EDO.10: 4 residues within 4Å: Chain B: D.84, G.86, A.87, N.137 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.84, B:N.137 EDO.11: 7 residues within 4Å: Chain A: E.88, L.91, Q.92, L.95 Chain B: S.130, D.131, S.132 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:E.88, A:Q.92, B:S.130, B:S.132, B:S.132

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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