SMTL ID : 6wh6.1

Crystal structure of human sulfide quinone oxidoreductase in complex with coenzyme Q (cyanide soaked)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 32 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, K.167, V.263, G.295, D.296, K.304, T.305, A.306, A.307, V.309, P.340, K.378 Ligands: UQ1.3 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:Q.43, A:Y.130 Hydrogen bonds: A:S.13, A:S.13, A:G.14, A:Q.43, A:Q.43, A:R.77, A:V.78, A:V.78, A:G.106, A:K.167, A:D.296, A:K.304, A:A.306, A:A.307, A:K.378 Water bridges: A:G.12, A:S.13, A:G.15, A:E.35, A:S.37, A:H.40, A:Q.43, A:I.107, A:K.160, A:C.297 Salt bridges: A:K.160 FAD.5: 34 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, R.77, V.78, A.104, L.105, G.106, N.129, Y.130, K.160, C.161, 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 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:Q.43, B:W.46, B:Y.130 Hydrogen bonds: B:S.13, B:S.13, B:G.14, B:Q.43, B:R.77, B:V.78, B:V.78, B:G.106, B:D.296, B:K.304, B:A.306, B:A.307, B:K.378 Water bridges: B:G.12, B:S.13, B:G.15, B:E.35, B:S.37, B:I.107, B:K.160 Salt bridges: B:K.160

2 x CYN: CYANIDE ION(Non-covalent)

CYN.2: 6 residues within 4Å: Chain A: C.161, A.162, G.163, T.305, S.338, C.339 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.163 CYN.6: 5 residues within 4Å: Chain B: C.161, G.163, T.305, S.338, C.339 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.163

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

UQ1.3: 16 residues within 4Å: Chain A: Y.42, A.306, A.307, Y.336, S.338, P.340, L.350, E.352, T.362, M.377, M.382, L.385, 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: 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 UQ1.7: 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.5 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:A.307, B:L.350, B:W.395, B:P.398

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Landry, A.P. et al., Dismantling and Rebuilding the Trisulfide Cofactor Demonstrates Its Essential Role in Human Sulfide Quinone Oxidoreductase. J.Am.Chem.Soc. (2020)

Release Date

2021-04-21

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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