SMTL ID : 6oic.1

Crystal structure of human Sulfide Quinone Oxidoreductase in complex with coenzyme Q (sulfite soaked)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 35 residues within 4Å: Chain A: G.10, G.11, G.12, S.13, G.14, V.34, E.35, P.36, Q.43, P.44, T.47, R.77, V.78, A.104, L.105, G.106, N.129, Y.130, K.160, C.161, A.164, K.167, V.263, G.295, D.296, K.304, T.305, A.306, A.307, V.309, S.338, P.340, K.378 Ligands: UQ1.3, H2S.5 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:Q.43, A:Y.130, A:A.164 Hydrogen bonds: A:S.13, A:S.13, A:G.14, A:G.15, A:Q.43, A:Q.43, A:R.77, A:V.78, A:V.78, A:G.106, A:I.294, A:D.296, A:K.304, A:A.306, A:A.307, A:K.378 Water bridges: A:G.12, A:S.13, A:H.40, A:Q.43, A:I.107, A:K.160, A:C.297 Salt bridges: A:K.160 FAD.6: 37 residues within 4Å: Chain B: G.10, G.11, G.12, S.13, G.14, V.34, E.35, P.36, Q.43, P.44, W.46, T.47, A.76, R.77, V.78, A.104, L.105, G.106, N.129, Y.130, K.160, C.161, A.164, K.167, V.263, G.295, D.296, K.304, T.305, A.306, A.307, V.309, S.338, P.340, K.378 Ligands: UQ1.7, H2S.8 27 PLIP interactions: 27 interactions with chain B Hydrophobic interactions: B:Q.43, B:W.46, B:Y.130, B:A.164 Hydrogen bonds: B:G.11, B:S.13, B:S.13, B:G.14, B:G.15, B:Q.43, B:Q.43, B:R.77, B:V.78, B:V.78, B:G.106, B:K.167, B:D.296, B:K.304, B:A.306, B:A.307, B:K.378 Water bridges: B:G.12, B:I.107, B:K.160, B:C.297 Salt bridges: B:K.160 pi-Cation interactions: B:R.77

4 x UQ1: UBIQUINONE-1(Non-covalent)

UQ1.2: 6 residues within 4Å: Chain A: Q.207, Q.211, L.215, T.216, V.217, Y.219 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.207, A:V.217 UQ1.3: 16 residues within 4Å: Chain A: Y.42, A.306, A.307, A.310, Y.336, S.338, P.340, L.350, E.352, T.362, M.377, M.382, M.390, W.395, P.398 Ligands: FAD.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.307, A:L.350, A:W.395, A:P.398 UQ1.4: 6 residues within 4Å: Chain A: K.331, Y.394, W.395, G.396, G.397, F.400 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.400 Hydrogen bonds: A:G.396 UQ1.7: 15 residues within 4Å: Chain B: Y.42, A.306, A.307, A.310, Y.336, S.338, P.340, L.350, E.352, T.362, M.382, M.390, W.395, P.398 Ligands: FAD.6 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:A.307, B:L.350, B:W.395, B:P.398 Hydrogen bonds: B:Y.42

2 x H2S: HYDROSULFURIC ACID(Non-covalent)

H2S.5: 5 residues within 4Å: Chain A: C.161, K.167, T.305, C.339 Ligands: FAD.1 No protein-ligand interaction detected (PLIP) H2S.8: 5 residues within 4Å: Chain B: C.161, K.167, T.305, C.339 Ligands: FAD.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Landry, A.P. et al., A Catalytic Trisulfide in Human Sulfide Quinone Oxidoreductase Catalyzes Coenzyme A Persulfide Synthesis and Inhibits Butyrate Oxidation. Cell Chem Biol (2019)

Release Date

2020-01-15

Peptides

Sulfide:quinone oxidoreductase, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Sulfide:quinone oxidoreductase, mitochondrial

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