SMTL ID : 8qmt.1 (1 other biounit)

Succinic semialdehyde dehydrogenase from E. coli with Q262R substitution and bound NAD+, succinic semialdehyde

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 27 residues within 4Å: Chain A: I.133, M.134, P.135, W.136, N.137, Q.142, K.160, H.161, A.162, P.163, N.193, V.196, T.211, G.212, S.213, A.216, A.219, I.220, E.234, L.235, G.236, C.268, R.312, L.315, E.365, F.367 Ligands: SSN.2 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:P.135 Hydrogen bonds: A:M.134, A:N.137, A:Q.142, A:K.160, A:N.193, A:G.212, A:S.213, A:S.213, A:E.234, A:E.365 Water bridges: A:Q.223, A:R.312, A:R.312, A:E.318, A:E.365 Salt bridges: A:R.312 pi-Stacking: A:F.367 NAD.3: 28 residues within 4Å: Chain B: I.133, M.134, P.135, W.136, N.137, Q.142, K.160, H.161, A.162, P.163, N.193, V.196, T.211, G.212, S.213, R.215, A.216, A.219, I.220, E.234, L.235, G.236, C.268, R.312, L.315, E.365, F.367 Ligands: SSN.4 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:P.135 Hydrogen bonds: B:M.134, B:M.134, B:N.137, B:Q.142, B:K.160, B:G.212, B:S.213, B:S.213, B:E.234 Water bridges: B:Q.223, B:Q.223, B:Q.223, B:R.312, B:R.312, B:E.318, B:E.365 Salt bridges: B:R.215, B:R.312 pi-Stacking: B:F.367

2 x SSN: 4-oxobutanoic acid(Covalent)

SSN.2: 10 residues within 4Å: Chain A: N.137, W.141, Q.142, R.145, E.234, V.267, C.268, S.425, F.431 Ligands: NAD.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.431 Hydrogen bonds: A:N.137, A:Q.142, A:C.268, A:S.425 Water bridges: A:R.262, A:R.262, A:R.262 Salt bridges: A:K.92, A:R.145 SSN.4: 10 residues within 4Å: Chain B: N.137, W.141, Q.142, R.145, E.234, V.267, C.268, S.425, F.431 Ligands: NAD.3 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.431 Hydrogen bonds: B:N.137, B:Q.142, B:C.268, B:S.425 Water bridges: B:K.92, B:S.425, B:S.425, B:S.425 Salt bridges: B:K.92, B:R.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, H. et al., Adaptive laboratory evolution recruits the promiscuity of succinate semialdehyde dehydrogenase to repair different metabolic deficiencies. Nat Commun (2024)

Release Date

2024-10-02

Peptides

Succinate semialdehyde dehydrogenase [NAD(P)+] Sad: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Succinate semialdehyde dehydrogenase [NAD(P)+] Sad

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