SMTL ID : 6wxu.1

CryoEM structure of mouse DUOX1-DUOXA1 complex in the dimer-of-dimer state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

2 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]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-MAN-MAN-MAN-MAN-MAN-MAN.1: 30 residues within 4Å: Chain B: K.15, F.18, M.20, D.21, S.74, Y.87, N.109, E.122, T.123, I.124, N.125, Y.126, N.127, E.128, A.129, K.148 Chain C: D.46, Y.49, E.106, W.136, G.141, Q.142, Y.1049, F.1053, A.1054, A.1055, H.1056, H.1057, D.1062 Ligands: PLC.11 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:Y.49, C:E.106, C:E.106, C:D.1062, C:Y.1049, B:F.18 NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN-MAN.2: 30 residues within 4Å: Chain A: D.46, Y.49, E.106, W.136, G.141, Q.142, Y.1049, F.1053, A.1054, A.1055, H.1056, H.1057, D.1062 Chain D: K.15, F.18, M.20, D.21, S.74, Y.87, N.109, E.122, T.123, I.124, N.125, Y.126, N.127, E.128, A.129, K.148 Ligands: PLC.20 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:Y.49, A:E.106, A:E.106, D:K.15, D:F.18, A:Y.1049

10 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 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.79, A:A.546 NAG.4: 5 residues within 4Å: Chain A: N.327, A.328, S.329, H.331, I.335 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.328 Hydrogen bonds: A:S.329 NAG.5: 1 residues within 4Å: Chain A: N.519 No protein-ligand interaction detected (PLIP) NAG.9: 4 residues within 4Å: Chain B: N.82, A.83, N.84, T.240 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.84, B:T.240 NAG.10: 1 residues within 4Å: Chain B: N.121 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.121 NAG.12: 4 residues within 4Å: Chain C: N.79, I.377, W.544, A.546 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.79, C:A.546 NAG.13: 5 residues within 4Å: Chain C: N.327, A.328, S.329, H.331, I.335 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:A.328 Hydrogen bonds: C:S.329 NAG.14: 1 residues within 4Å: Chain C: N.519 No protein-ligand interaction detected (PLIP) NAG.18: 4 residues within 4Å: Chain D: N.82, A.83, N.84, T.240 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.84, D:T.240 NAG.19: 2 residues within 4Å: Chain A: Y.56 Chain D: N.121 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.121

4 x HEC: HEME C(Non-covalent)

HEC.6: 18 residues within 4Å: Chain A: I.1085, L.1086, M.1089, R.1091, H.1115, R.1116, A.1119, M.1190, Y.1191, A.1194, R.1199, F.1206, W.1207, H.1210, Y.1213, Y.1217, Y.1245, K.1249 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:I.1085, A:L.1086, A:R.1116, A:Y.1191, A:Y.1191, A:F.1206, A:Y.1213, A:Y.1213 Hydrogen bonds: A:Y.1245 Salt bridges: A:R.1091, A:R.1091, A:K.1249 pi-Stacking: A:H.1115, A:F.1206, A:H.1210 Metal complexes: A:H.1115 HEC.7: 24 residues within 4Å: Chain A: R.1072, I.1078, S.1079, F.1082, T.1126, H.1129, S.1130, H.1133, P.1176, G.1180, L.1183, L.1184, L.1187, L.1220, H.1223, G.1224, F.1226, A.1227, L.1228, I.1229, Q.1230, P.1232, R.1233, F.1234 20 PLIP interactions: 20 interactions with chain A, Hydrophobic interactions: A:I.1078, A:F.1082, A:T.1126, A:H.1133, A:P.1176, A:L.1183, A:L.1184, A:L.1187, A:L.1220 Hydrogen bonds: A:R.1072, A:L.1228, A:I.1229, A:Q.1230, A:R.1233, A:F.1234 pi-Stacking: A:H.1223, A:H.1223 pi-Cation interactions: A:H.1129, A:H.1129 Metal complexes: A:H.1223 HEC.15: 18 residues within 4Å: Chain C: I.1085, L.1086, M.1089, R.1091, H.1115, R.1116, A.1119, M.1190, Y.1191, A.1194, R.1199, F.1206, W.1207, H.1210, Y.1213, Y.1217, Y.1245, K.1249 16 PLIP interactions: 16 interactions with chain C, Hydrophobic interactions: C:I.1085, C:L.1086, C:R.1116, C:Y.1191, C:Y.1191, C:F.1206, C:Y.1213, C:Y.1213 Hydrogen bonds: C:Y.1245 Salt bridges: C:R.1091, C:R.1091, C:K.1249 pi-Stacking: C:H.1115, C:F.1206, C:H.1210 Metal complexes: C:H.1115 HEC.16: 24 residues within 4Å: Chain C: R.1072, I.1078, S.1079, F.1082, T.1126, H.1129, S.1130, H.1133, P.1176, G.1180, L.1183, L.1184, L.1187, L.1220, H.1223, G.1224, F.1226, A.1227, L.1228, I.1229, Q.1230, P.1232, R.1233, F.1234 20 PLIP interactions: 20 interactions with chain C, Hydrophobic interactions: C:I.1078, C:F.1082, C:T.1126, C:H.1133, C:P.1176, C:L.1183, C:L.1184, C:L.1187, C:L.1220 Hydrogen bonds: C:R.1072, C:L.1228, C:I.1229, C:Q.1230, C:R.1233, C:F.1234 pi-Stacking: C:H.1223, C:H.1223 pi-Cation interactions: C:H.1129, C:H.1129 Metal complexes: C:H.1223

2 x PX2: 1,2-DILAUROYL-SN-GLYCERO-3-PHOSPHATE(Non-covalent)

PX2.8: 12 residues within 4Å: Chain A: F.1022, Y.1026, H.1029, C.1032, V.1033, L.1087, I.1106, P.1107, A.1110, A.1111, D.1113, F.1114 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:H.1029, A:V.1033, A:I.1106, A:A.1110, A:A.1111, A:F.1114 Hydrogen bonds: A:D.1113 Salt bridges: A:H.1029 PX2.17: 12 residues within 4Å: Chain C: F.1022, Y.1026, H.1029, C.1032, V.1033, L.1087, I.1106, P.1107, A.1110, A.1111, D.1113, F.1114 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:H.1029, C:V.1033, C:I.1106, C:A.1110, C:A.1111, C:F.1114 Hydrogen bonds: C:D.1113 Salt bridges: C:H.1029

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

PLC.11: 13 residues within 4Å: Chain B: D.21, T.22, T.23, V.26, T.29, I.30, T.33, L.68 Chain C: A.1042, E.1046, Y.1049 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN-MAN.1, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN-MAN.1 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:V.26, B:V.26, B:I.30, B:L.68, C:A.1042 Hydrogen bonds: B:T.22 Salt bridges: B:D.21 PLC.20: 13 residues within 4Å: Chain A: A.1042, E.1046, Y.1049 Chain D: D.21, T.22, T.23, V.26, T.29, I.30, T.33, L.68 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN-MAN.2, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN-MAN-MAN.2 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain D Hydrophobic interactions: A:A.1042, D:V.26, D:V.26, D:I.30, D:L.68 Hydrogen bonds: D:T.22 Salt bridges: D:D.21

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: AC
Dual oxidase maturation factor 1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

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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