SMTL ID : 8d3i.1

Crystal structure of human Apoptosis-Inducing Factor (AIF) W196A mutant complexed with quinolin-4-amine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-dimer

Ligands

2 x 1LM: quinolin-4-amine(Non-covalent)

1LM.1: 12 residues within 4Å: Chain A: S.100, K.101, F.234, L.235, E.238, E.377, H.378, F.406, W.407, S.408 Ligands: FAD.3, SO4.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.234, A:F.234, A:L.235, A:L.235 Hydrogen bonds: A:E.238, A:S.408 1LM.6: 12 residues within 4Å: Chain B: S.100, K.101, F.234, L.235, E.238, E.377, H.378, F.406, W.407, S.408 Ligands: FAD.7, SO4.8 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.234, B:L.235 Hydrogen bonds: B:E.238, B:S.408 pi-Stacking: B:F.234

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 12 residues within 4Å: Chain A: E.337, R.346, V.347, N.348, Q.352, A.353, R.373 Chain B: E.337, R.346, V.347, N.348, R.373 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.352, B:V.347, B:R.373

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

FAD.3: 38 residues within 4Å: Chain A: I.61, G.62, G.63, G.64, T.65, A.66, A.67, V.86, S.87, E.88, D.89, R.96, P.97, L.99, S.100, K.101, K.155, K.156, V.157, A.183, T.184, G.185, G.186, F.208, R.209, L.235, N.327, L.330, G.361, D.362, E.377, H.378, H.379, D.380, A.382, F.406, W.407 Ligands: 1LM.1 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:R.96, A:L.99, A:F.208, A:L.235 Hydrogen bonds: A:G.63, A:T.65, A:A.66, A:E.88, A:E.88, A:E.88, A:D.89, A:R.96, A:K.101, A:V.157, A:V.157, A:D.362, A:D.362, A:H.379, A:W.407 Salt bridges: A:R.96 FAD.7: 39 residues within 4Å: Chain B: I.61, G.62, G.63, G.64, T.65, A.66, A.67, V.86, S.87, E.88, D.89, R.96, P.97, L.99, S.100, K.101, K.155, K.156, V.157, A.183, T.184, G.185, G.186, F.208, R.209, L.235, N.327, L.330, G.361, D.362, E.377, H.378, H.379, D.380, A.382, F.406, W.407, S.408 Ligands: 1LM.6 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:R.96, B:L.99, B:F.208, B:L.235 Hydrogen bonds: B:G.63, B:T.65, B:A.66, B:E.88, B:E.88, B:D.89, B:R.96, B:K.101, B:V.157, B:V.157, B:D.362, B:H.378, B:H.379, B:W.407 Water bridges: B:S.87 Salt bridges: B:R.96

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 7 residues within 4Å: Chain A: G.233, F.234, L.235, G.236, A.321, G.323 Ligands: 1LM.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.233, A:F.234, A:L.235 SO4.5: 5 residues within 4Å: Chain A: H.402, M.405, M.509, P.510, R.513 2 PLIP interactions: 2 interactions with chain A Water bridges: A:M.509 Salt bridges: A:R.513 SO4.8: 7 residues within 4Å: Chain B: G.233, F.234, L.235, G.236, A.321, G.323 Ligands: 1LM.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.233, B:F.234, B:L.235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brosey, C.A. et al., Chemical screening by time-resolved X-ray scattering to discover allosteric probes. Nat.Chem.Biol. (2024)

Release Date

2023-11-08

Peptides

Apoptosis-inducing factor 1, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Apoptosis-inducing factor 1, mitochondrial

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