SMTL ID : 9gqy.1

Interaction with AK2A links AIFM1 to cellular energy metabolism. The cryo-EM structure of dimeric AIFM1 without any binding partner.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 31 residues within 4Å: Chain A: I.53, G.54, G.55, G.56, T.57, A.58, V.78, S.79, E.80, D.81, R.88, P.89, S.92, K.93, K.147, K.148, V.149, A.175, T.176, G.177, F.200, R.201, L.227, G.353, D.354, E.369, H.370, H.371, A.374, W.399 Ligands: NAD.2 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:R.88, A:F.200, A:L.227 Hydrogen bonds: A:G.55, A:T.57, A:T.57, A:A.58, A:E.80, A:D.81, A:V.149, A:V.149, A:D.354, A:E.369, A:H.371 Water bridges: A:T.57, A:R.88, A:R.201 Salt bridges: A:R.88, A:R.201 FAD.3: 29 residues within 4Å: Chain B: G.54, G.55, G.56, T.57, A.58, V.78, S.79, E.80, D.81, R.88, P.89, S.92, K.93, K.147, K.148, V.149, A.175, T.176, G.177, F.200, R.201, G.353, D.354, E.369, H.370, H.371, A.374, W.399 Ligands: NAD.4 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:R.88, B:F.200 Hydrogen bonds: B:G.55, B:G.55, B:T.57, B:T.57, B:A.58, B:E.80, B:D.81, B:K.93, B:V.149, B:V.149, B:G.178, B:D.354, B:E.369, B:H.370, B:H.371 Water bridges: B:A.59, B:R.201, B:A.355 Salt bridges: B:R.88, B:R.201

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

NAD.2: 17 residues within 4Å: Chain A: L.183, G.224, G.225, F.226, L.227, E.230, P.251, E.252, A.313, V.314, G.315, E.369, H.370, F.398, W.399, S.400 Ligands: FAD.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.226 Hydrogen bonds: A:G.224, A:G.224, A:F.226, A:L.227, A:G.228, A:E.252, A:A.313, A:G.315, A:E.369, A:W.399 Water bridges: A:L.316 NAD.4: 17 residues within 4Å: Chain B: L.183, G.224, G.225, F.226, L.227, G.228, E.230, P.251, E.252, K.258, A.313, V.314, G.315, E.369, H.370, W.399 Ligands: FAD.3 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:F.226, B:L.227 Hydrogen bonds: B:G.224, B:F.226, B:L.227, B:G.228, B:A.313, B:G.315, B:E.369, B:E.369, B:H.370, B:W.399 Water bridges: B:G.225 Salt bridges: B:K.258

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rothemann, R.A. et al., Interaction with AK2A links AIFM1 to cellular energy metabolism. Mol.Cell (2025)

Release Date

2025-07-09

Peptides

Apoptosis-inducing factor 1, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

Apoptosis-inducing factor 1, mitochondrial

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