SMTL ID : 5miv.1

G307E variant of murine Apoptosis Inducing Factor in complex with NAD+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 19 residues within 4Å: Chain A: R.187, L.189, E.230, G.231, F.232, L.233, E.236, P.257, E.258, K.264, A.319, V.320, G.321, L.322, E.375, H.376, W.405, S.406 Ligands: FAD.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.232 Hydrogen bonds: A:E.230, A:F.232, A:L.233, A:G.234, A:K.264, A:G.321, A:E.375, A:W.405 Water bridges: A:R.207 NAD.3: 18 residues within 4Å: Chain B: R.187, L.189, E.230, G.231, F.232, L.233, E.236, P.257, E.258, K.264, A.319, V.320, G.321, L.322, E.375, H.376, W.405 Ligands: FAD.4 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:F.232, B:L.233 Hydrogen bonds: B:R.187, B:F.232, B:L.233, B:G.234, B:A.319, B:G.321, B:E.375, B:E.375, B:H.376, B:W.405 Water bridges: B:E.230, B:G.231, B:D.407

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

FAD.2: 35 residues within 4Å: Chain A: I.59, G.60, G.61, G.62, T.63, A.64, V.84, S.85, E.86, D.87, R.94, P.95, S.98, K.153, K.154, V.155, A.181, T.182, G.183, F.206, R.207, L.233, E.236, N.325, L.328, A.358, G.359, D.360, E.375, H.376, H.377, A.380, F.404, W.405 Ligands: NAD.1 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:R.94, A:F.206, A:L.233 Hydrogen bonds: A:G.61, A:T.63, A:A.64, A:A.65, A:E.86, A:E.86, A:V.155, A:V.155, A:G.183, A:G.184, A:D.360, A:E.375, A:H.377, A:D.378, A:W.405 Water bridges: A:G.62, A:R.94, A:K.154, A:R.207 Salt bridges: A:R.94, A:R.207 FAD.4: 33 residues within 4Å: Chain B: I.59, G.60, G.61, G.62, T.63, A.64, V.84, S.85, E.86, D.87, R.94, P.95, L.97, S.98, K.153, K.154, V.155, A.181, T.182, G.183, R.207, L.233, E.236, N.325, G.359, D.360, E.375, H.376, H.377, A.380, F.404, W.405 Ligands: NAD.3 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:R.94, B:L.97, B:R.207, B:L.233 Hydrogen bonds: B:G.61, B:T.63, B:T.63, B:A.64, B:A.65, B:E.86, B:D.87, B:V.155, B:V.155, B:G.183, B:R.207, B:N.325, B:D.360, B:E.375, B:H.376, B:H.377, B:W.405 Water bridges: B:G.62, B:D.87, B:R.94 Salt bridges: B:R.94, B:R.207

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sorrentino, L. et al., Structural bases of the altered catalytic properties of a pathogenic variant of apoptosis inducing factor. Biochem. Biophys. Res. Commun. (2017)

Release Date

2017-07-12

Peptides

Apoptosis-inducing factor 1, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Apoptosis-inducing factor 1, mitochondrial

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