SMTL ID : 6o4l.1

Structure of ALDH7A1 mutant E399D complexed with NAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-tetramer

Ligands

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

EDO.1: 4 residues within 4Å: Chain A: W.15, Q.100, V.101, S.104 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.100, A:S.104 EDO.2: 4 residues within 4Å: Chain A: Q.12, Y.13, W.15, W.337 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.15 EDO.5: 3 residues within 4Å: Chain B: W.15, V.101, S.104 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.104 EDO.9: 4 residues within 4Å: Chain D: Q.12, Y.13, W.15, W.337 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Q.12, D:W.15, D:W.337

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: V.289, R.323 Chain C: F.512 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain B: V.289, R.323 Chain D: F.512, Q.513 Ligand excluded by PLIP

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.4: 26 residues within 4Å: Chain A: I.165, T.166, A.167, F.168, K.192, G.193, A.194, P.195, G.228, A.229, G.232, T.233, F.246, T.247, G.248, S.249, V.252, V.256, G.272, G.273, R.303, C.304, D.401, T.402, F.403, Q.427 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:T.166, A:K.192, A:T.233, A:T.233, A:S.249, A:S.249, A:G.273, A:D.401, A:F.403, A:Q.427 Water bridges: A:F.168, A:A.229, A:T.306, A:R.308 pi-Stacking: A:F.403 NAD.7: 24 residues within 4Å: Chain B: I.165, T.166, A.167, F.168, K.192, G.193, A.194, P.195, G.228, A.229, G.232, T.233, F.246, T.247, G.248, S.249, V.252, V.256, G.272, G.273, C.304, D.401, T.402, F.403 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:T.166, B:K.192, B:T.233, B:T.233, B:S.249, B:G.273, B:G.273, B:F.403 Water bridges: B:F.168, B:R.308, B:R.308 pi-Stacking: B:F.403 NAD.8: 24 residues within 4Å: Chain C: I.165, T.166, A.167, F.168, K.192, G.193, A.194, P.195, G.228, A.229, G.232, T.233, F.246, T.247, G.248, S.249, V.252, V.256, G.272, G.273, C.304, D.401, T.402, F.403 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:T.166, C:K.192, C:T.233, C:S.249, C:S.249, C:G.273, C:G.273, C:F.403 Water bridges: C:F.168, C:A.229, C:T.306, C:R.308 pi-Stacking: C:F.403 NAD.10: 25 residues within 4Å: Chain D: I.165, T.166, A.167, F.168, K.192, G.193, A.194, P.195, G.228, A.229, G.232, T.233, F.246, T.247, G.248, S.249, V.252, V.256, G.272, G.273, C.304, D.401, T.402, F.403, Q.427 14 PLIP interactions: 14 interactions with chain D Hydrogen bonds: D:T.166, D:K.192, D:T.233, D:S.249, D:S.249, D:G.273, D:G.273, D:F.403, D:Q.427 Water bridges: D:F.168, D:T.233, D:R.308, D:R.308 pi-Stacking: D:F.403

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Laciak, A.R. et al., Structural analysis of pathogenic mutations targeting Glu427 of ALDH7A1, the hot spot residue of pyridoxine-dependent epilepsy. J. Inherit. Metab. Dis. (2020)

Release Date

2019-11-06

Peptides

Alpha-aminoadipic semialdehyde dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Alpha-aminoadipic semialdehyde dehydrogenase

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