SMTL ID : 6o4e.2 (1 other biounit)

Structure of ALDH7A1 mutant N167S complexed with NAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 26 residues within 4Å: Chain A: I.165, T.166, A.167, F.168, S.169, K.192, G.193, A.194, P.195, A.229, G.232, T.233, F.246, T.247, G.248, S.249, V.252, V.256, E.270, L.271, G.272, G.273, C.304, E.401, F.403, F.470 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:T.247 Hydrogen bonds: A:T.166, A:F.168, A:K.192, A:T.233, A:T.233, A:S.249, A:E.270, A:L.271, A:G.273, A:E.401 Water bridges: A:A.229, A:T.250 NAD.3: 27 residues within 4Å: Chain B: I.165, T.166, A.167, F.168, S.169, K.192, G.193, A.194, P.195, A.229, G.232, T.233, F.246, T.247, G.248, S.249, V.252, V.256, E.270, L.271, G.272, G.273, C.304, E.401, F.403, F.470 Ligands: MG.5 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:T.247 Hydrogen bonds: B:T.166, B:F.168, B:K.192, B:T.233, B:S.249, B:L.271, B:G.273, B:E.401 Water bridges: B:A.229, B:T.250 NAD.6: 26 residues within 4Å: Chain C: I.165, T.166, A.167, F.168, S.169, K.192, G.193, A.194, P.195, A.229, G.232, T.233, F.246, T.247, G.248, S.249, V.252, V.256, E.270, L.271, G.272, C.304, E.401, F.403, F.470 Ligands: MG.8 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:T.247 Hydrogen bonds: C:T.166, C:F.168, C:K.192, C:T.233, C:T.233, C:S.249, C:L.271, C:G.273, C:E.401 Water bridges: C:A.229, C:T.250 NAD.9: 28 residues within 4Å: Chain D: I.165, T.166, A.167, F.168, S.169, 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, E.270, L.271, G.272, G.273, C.304, E.401, F.403, F.470 Ligands: MG.11 14 PLIP interactions: 14 interactions with chain D Hydrophobic interactions: D:T.247 Hydrogen bonds: D:T.166, D:F.168, D:K.192, D:T.233, D:S.249, D:E.270, D:L.271, D:G.273, D:E.401 Water bridges: D:A.229, D:S.249, D:S.249, D:T.250

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.2: 6 residues within 4Å: Chain A: R.70, W.73, V.159, G.160, E.239, N.242 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.70, A:R.70, A:E.239, A:N.242 Water bridges: A:E.71, A:E.71

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.4: 8 residues within 4Å: Chain B: K.67, R.70, W.73, V.159, G.160, E.239, R.240, N.242 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.70, B:R.70, B:R.240, B:N.242

3 x MG: MAGNESIUM ION(Non-functional Binders)

MG.5: 1 residues within 4Å: Ligands: NAD.3 No protein-ligand interaction detected (PLIP) MG.8: 1 residues within 4Å: Ligands: NAD.6 No protein-ligand interaction detected (PLIP) MG.11: 1 residues within 4Å: Ligands: NAD.9 No protein-ligand interaction detected (PLIP)

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.7: 5 residues within 4Å: Chain C: R.70, W.73, V.159, E.239, N.242 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.70, C:R.70, C:E.239, C:N.242 Water bridges: C:R.70 1PE.10: 7 residues within 4Å: Chain D: R.70, E.71, W.73, V.159, G.160, E.239, N.242 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.70, D:N.242

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Laciak, A.R. et al., Structural and biochemical consequences of pyridoxine-dependent epilepsy mutations that target the aldehyde binding site of aldehyde dehydrogenase ALDH7A1. Febs J. (2020)

Release Date

2019-07-24

Peptides

Alpha-aminoadipic semialdehyde dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

Alpha-aminoadipic semialdehyde dehydrogenase

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