SMTL ID : 6wxv.1

CryoEM structure of mouse DUOX1-DUOXA1 complex in the presence of NADPH

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.1: 9 residues within 4Å: Chain B: S.74, N.109, E.122, T.123, N.125, Y.126, N.127, E.128, A.129 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.122, B:T.123, B:T.123

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

FAD.2: 17 residues within 4Å: Chain A: V.1112, D.1113, R.1116, W.1290, Y.1303, H.1304, P.1305, F.1306, T.1307, H.1320, R.1322, A.1324, G.1325, P.1326, W.1327, T.1328 Ligands: HEB.6 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.1306, A:F.1306, A:R.1322 Hydrogen bonds: A:D.1113, A:D.1113, A:R.1116, A:Y.1303, A:P.1305, A:T.1307, A:T.1307, A:W.1327, A:T.1328, A:T.1328 Salt bridges: A:H.1304

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 4 residues within 4Å: Chain A: N.79, I.377, W.544, A.546 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.79 NAG.4: 3 residues within 4Å: Chain A: N.327, S.329, H.331 No protein-ligand interaction detected (PLIP) NAG.5: 1 residues within 4Å: Chain A: N.519 No protein-ligand interaction detected (PLIP) NAG.11: 2 residues within 4Å: Chain B: N.84, T.240 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:T.240 Hydrogen bonds: B:N.84

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

HEB.6: 15 residues within 4Å: Chain A: I.1085, M.1089, R.1091, H.1115, R.1116, A.1119, M.1190, Y.1191, A.1194, R.1199, F.1206, H.1210, Y.1217, K.1249 Ligands: FAD.2 14 PLIP interactions: 14 interactions with chain A, Hydrophobic interactions: A:I.1085, A:M.1089, A:R.1116, A:A.1119, A:Y.1191 Salt bridges: A:R.1091, A:R.1091, A:K.1249 pi-Stacking: A:H.1115, A:H.1115, A:F.1206, A:H.1210, A:H.1210 Metal complexes: A:H.1210 HEB.7: 22 residues within 4Å: Chain A: R.1072, A.1075, I.1078, F.1082, T.1126, H.1129, S.1130, H.1133, P.1176, G.1177, G.1180, L.1183, L.1184, L.1220, H.1223, G.1224, F.1226, L.1228, Q.1230, P.1232, R.1233, F.1234 24 PLIP interactions: 24 interactions with chain A, Hydrophobic interactions: A:A.1075, A:I.1078, A:I.1078, A:F.1082, A:T.1126, A:P.1176, A:L.1183, A:L.1183, A:L.1184, A:L.1220, A:L.1228 Hydrogen bonds: A:F.1226, A:Q.1230, A:R.1233, A:F.1234 Salt bridges: A:R.1072 pi-Stacking: A:H.1129, A:H.1129, A:H.1133, A:H.1133, A:H.1223, A:H.1223 pi-Cation interactions: A:H.1129 Metal complexes: A:H.1129

1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.8: 12 residues within 4Å: Chain A: G.1374, I.1375, G.1376, T.1408, R.1409, T.1440, R.1480, G.1506, P.1507, G.1509, M.1510 Ligands: PLC.9 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:I.1375, A:G.1376, A:T.1440, A:N.1513 Salt bridges: A:R.1409, A:R.1409, A:R.1480

1 x PLC: DIUNDECYL PHOSPHATIDYL CHOLINE(Non-covalent)

PLC.9: 15 residues within 4Å: Chain A: F.1022, Y.1026, H.1029, I.1030, C.1032, V.1033, L.1087, I.1094, P.1107, A.1110, A.1111, D.1113, F.1114, L.1117 Ligands: NDP.8 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.1022, A:I.1030, A:I.1030, A:I.1094, A:A.1110, A:A.1111, A:F.1114 Hydrogen bonds: A:D.1113 Salt bridges: A:H.1029

1 x CA: CALCIUM ION(Non-covalent)

CA.10: 5 residues within 4Å: Chain A: D.94, T.155, W.157, D.159, S.161 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.94, A:D.94, A:T.155, A:W.157, A:S.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, J., Structures of mouse DUOX1-DUOXA1 provide mechanistic insights into enzyme activation and regulation. Nat.Struct.Mol.Biol. (2020)

Release Date

2020-09-02

Peptides

Dual oxidase 1: A
Dual oxidase maturation factor 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Dual oxidase 1

Dual oxidase maturation factor 1

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