SMTL ID : 8u86.1

Structural Basis of Human NOX5 Activation

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x HEB: HEME B/C(Non-covalent)

HEB.1: 21 residues within 4Å: Chain A: K.225, G.228, Q.229, L.231, N.232, C.235, S.279, H.282, T.283, H.286, F.290, A.321, G.325, V.326, L.328, L.329, L.332, L.366, H.369, G.370, P.371 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:L.231, A:L.231, A:T.283, A:F.290, A:A.321, A:V.326, A:L.329, A:L.332 Hydrogen bonds: A:N.232, A:H.369 Salt bridges: A:K.225, A:K.225 pi-Stacking: A:H.369, A:H.369 pi-Cation interactions: A:H.369 Metal complexes: A:H.369 HEB.2: 14 residues within 4Å: Chain A: I.238, M.242, H.268, Q.269, G.272, M.335, F.336, S.339, F.352, H.356, Y.359, V.362, F.384, K.388 17 PLIP interactions: 17 interactions with chain A, Hydrophobic interactions: A:I.238, A:I.238, A:M.242, A:F.336, A:F.352, A:F.352, A:Y.359, A:Y.359, A:V.362, A:F.384 Hydrogen bonds: A:Y.359 Salt bridges: A:K.388, A:H.444 pi-Stacking: A:H.268, A:H.356 Metal complexes: A:H.268, A:H.356 HEB.8: 21 residues within 4Å: Chain B: K.225, G.228, Q.229, L.231, N.232, C.235, S.279, H.282, T.283, H.286, F.290, A.321, G.325, V.326, L.328, L.329, L.332, L.366, H.369, G.370, P.371 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:L.231, B:L.231, B:T.283, B:F.290, B:A.321, B:V.326, B:L.329, B:L.332 Hydrogen bonds: B:N.232, B:H.369 Salt bridges: B:K.225, B:K.225 pi-Stacking: B:H.369, B:H.369 pi-Cation interactions: B:H.369 Metal complexes: B:H.369 HEB.9: 14 residues within 4Å: Chain B: I.238, M.242, H.268, Q.269, G.272, M.335, F.336, S.339, F.352, H.356, Y.359, V.362, F.384, K.388 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:I.238, B:I.238, B:M.242, B:F.336, B:F.352, B:F.352, B:Y.359, B:Y.359, B:V.362, B:F.384 Hydrogen bonds: B:Y.359 Salt bridges: B:K.388, B:H.444 pi-Stacking: B:H.268, B:H.356 Metal complexes: B:H.268, B:H.356

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Covalent)

NDP.3: 14 residues within 4Å: Chain A: N.188, H.189, Q.192, A.543, G.544, I.593, N.594, R.595, T.631, R.671, P.672, W.674, S.696, L.699 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:H.189, A:R.595, A:T.631, A:R.671, A:S.696, A:S.696 Salt bridges: A:R.595, A:R.595, A:R.671 pi-Cation interactions: A:R.671 NDP.10: 14 residues within 4Å: Chain B: N.188, H.189, Q.192, A.543, G.544, I.593, N.594, R.595, T.631, R.671, P.672, W.674, S.696, L.699 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:H.189, B:R.595, B:T.631, B:R.671, B:S.696, B:S.696 Salt bridges: B:R.595, B:R.595, B:R.671 pi-Cation interactions: B:R.671

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Covalent)

FAD.4: 17 residues within 4Å: Chain A: D.262, I.265, R.344, Y.430, W.443, H.444, P.445, F.446, T.447, H.461, I.462, R.463, Q.465, G.466, Q.467, W.468, T.469 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.430 Hydrogen bonds: A:R.344, A:W.443, A:T.447, A:T.447, A:H.461, A:R.463, A:Q.467, A:W.468, A:T.469, A:T.469 Salt bridges: A:R.344, A:H.444 pi-Stacking: A:H.444, A:F.446 FAD.11: 17 residues within 4Å: Chain B: D.262, I.265, R.344, Y.430, W.443, H.444, P.445, F.446, T.447, H.461, I.462, R.463, Q.465, G.466, Q.467, W.468, T.469 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.430 Hydrogen bonds: B:R.344, B:W.443, B:T.447, B:T.447, B:H.461, B:R.463, B:Q.467, B:W.468, B:T.469, B:T.469 Salt bridges: B:R.344, B:H.444 pi-Stacking: B:H.444, B:F.446

2 x D12: DODECANE(Non-covalent)

D12.5: 8 residues within 4Å: Chain A: C.195, L.196, L.241, P.260, L.261, Q.263, Q.266, F.267 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.196, A:L.241, A:P.260, A:L.261, A:Q.263, A:F.267 D12.12: 8 residues within 4Å: Chain B: C.195, L.196, L.241, P.260, L.261, Q.263, Q.266, F.267 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.196, B:L.241, B:P.260, B:L.261, B:Q.263, B:F.267

2 x D10: DECANE(Covalent)

D10.6: 3 residues within 4Å: Chain A: L.196, H.203, L.270 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.196, A:H.203, A:L.270 D10.13: 3 residues within 4Å: Chain B: L.196, H.203, L.270 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.196, B:H.203, B:L.270

1 x ZN: ZINC ION(Non-covalent)

ZN.7: 6 residues within 4Å: Chain A: C.568, S.570, C.571 Chain B: C.568, S.570, C.571 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.568, B:C.571, A:C.568, A:C.571

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cui, C. et al., Structural basis of human NOX5 activation. Nat Commun (2024)

Release Date

2024-05-01

Peptides

NADPH oxidase 5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Membrane

We predict this structure to be a membrane protein.
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NADPH oxidase 5

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