SMTL ID : 9gr0.1

Interaction with AK2A links AIFM1 to cellular energy metabolism. The cryo-EM structure of dimeric AIFM1 bound by AK2A.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

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

FAD.1: 31 residues within 4Å: Chain C: 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.148, V.149, A.175, T.176, G.177, F.200, R.201, L.227, N.319, G.353, D.354, E.369, H.370, H.371, A.374, W.399 Ligands: NAD.2 22 PLIP interactions: 22 interactions with chain C Hydrophobic interactions: C:R.88, C:F.200, C:R.201, C:L.227 Hydrogen bonds: C:G.55, C:G.55, C:T.57, C:T.57, C:A.58, C:E.80, C:D.81, C:K.93, C:V.149, C:V.149, C:D.354, C:E.369, C:H.371 Water bridges: C:T.57, C:R.201, C:R.201 Salt bridges: C:R.88, C:R.201 FAD.3: 30 residues within 4Å: Chain D: I.53, G.54, G.55, G.56, T.57, A.58, V.78, S.79, E.80, R.88, P.89, S.92, K.93, K.148, V.149, A.175, T.176, G.177, F.200, R.201, L.227, N.319, G.353, D.354, E.369, H.370, H.371, A.374, W.399 Ligands: NAD.4 23 PLIP interactions: 23 interactions with chain D Hydrophobic interactions: D:R.88, D:F.200, D:L.227 Hydrogen bonds: D:G.55, D:G.55, D:T.57, D:T.57, D:A.58, D:E.80, D:K.93, D:V.149, D:V.149, D:G.177, D:D.354, D:E.369, D:H.371, D:W.399 Water bridges: D:T.57, D:A.59, D:R.201, D:D.372 Salt bridges: D:R.88, D:R.201

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

NAD.2: 20 residues within 4Å: Chain C: L.183, I.222, G.224, G.225, F.226, L.227, G.228, E.230, P.251, E.252, K.258, A.313, V.314, G.315, L.316, E.369, H.370, W.399, S.400 Ligands: FAD.1 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:F.226, C:L.227 Hydrogen bonds: C:G.224, C:G.224, C:F.226, C:L.227, C:G.228, C:E.252, C:A.313, C:G.315, C:E.369, C:W.399 Water bridges: C:R.201, C:G.225, C:G.225 Salt bridges: C:K.258 NAD.4: 19 residues within 4Å: Chain D: L.183, G.223, 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, S.400 Ligands: FAD.3 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:F.226, D:L.227 Hydrogen bonds: D:G.224, D:G.224, D:F.226, D:L.227, D:G.228, D:E.252, D:A.313, D:G.315, D:E.369, D:W.399 Water bridges: D:R.201, D:G.225 Salt bridges: D: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

Adenylate kinase 2, mitochondrial: AB
Apoptosis-inducing factor 1, mitochondrial: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
F

C
B

D
C

Adenylate kinase 2, mitochondrial

Apoptosis-inducing factor 1, mitochondrial

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