- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.50 Å
- Oligo State
- hetero-2-2-2-2-2-2-2-2-2-2-2-2-2-mer
- Ligands
- 2 x CU: COPPER (II) ION(Non-covalent)
CU.1: 5 residues within 4Å:- Chain A: H.240, H.290, H.291
- Ligands: O.10, OH.11
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Ligand interactions- Metal complexes: A:H.240, A:H.290, A:H.291, OH.11
CU.30: 5 residues within 4Å:- Chain N: H.240, H.290, H.291
- Ligands: O.39, OH.40
3 PLIP interactions:3 interactions with chain N- Metal complexes: N:H.240, N:H.290, N:H.291
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.2: 4 residues within 4Å:- Chain A: H.368, D.369
- Chain B: S.197, E.198
5 PLIP interactions:1 interactions with chain A, 1 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: A:H.368, B:E.198, H2O.7, H2O.8, H2O.8
MG.31: 4 residues within 4Å:- Chain N: H.368, D.369
- Chain O: S.197, E.198
5 PLIP interactions:2 interactions with chain N, 1 interactions with chain O, 2 Ligand-Water interactions- Metal complexes: N:H.368, N:D.369, O:E.198, H2O.23, H2O.23
- 2 x NA: SODIUM ION(Non-functional Binders)
NA.3: 4 residues within 4Å:- Chain A: E.40, G.45, S.441, D.442
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.40
NA.32: 5 residues within 4Å:- Chain N: E.40, Q.43, G.45, S.441, D.442
2 PLIP interactions:2 interactions with chain N- Hydrogen bonds: N:E.40, N:E.40
- 4 x HEA: HEME-A(Non-covalent)
HEA.4: 32 residues within 4Å:- Chain A: A.24, G.27, M.28, T.31, S.34, I.37, R.38, Y.54, V.58, H.61, A.62, M.65, I.66, V.70, I.73, G.125, W.126, Y.371, F.377, H.378, L.381, S.382, V.386, F.393, T.424, F.425, Q.428, R.438, R.439, Y.440, S.458, M.468
31 PLIP interactions:31 interactions with chain A,- Hydrophobic interactions: A:A.24, A:I.37, A:A.62, A:M.65, A:I.66, A:V.70, A:I.73, A:L.381, A:L.381, A:V.386, A:V.386, A:F.393, A:T.424
- Hydrogen bonds: A:R.38, A:Y.54, A:W.126, A:S.382, A:Q.428, A:R.439, A:Y.440
- Water bridges: A:R.438, A:R.438, A:S.461, A:S.461
- Salt bridges: A:R.438, A:R.439
- pi-Stacking: A:H.61, A:F.377, A:F.425
- Metal complexes: A:H.61, A:H.378
HEA.5: 35 residues within 4Å:- Chain A: W.126, W.236, V.243, Y.244, I.247, H.290, H.291, T.309, I.312, A.313, T.316, G.317, V.320, F.348, T.349, G.352, L.353, G.355, I.356, L.358, A.359, D.364, H.368, V.373, H.376, F.377, V.380, L.381, R.438
- Chain B: I.34, P.69, I.72, L.73
- Ligands: O.10, OH.11
36 PLIP interactions:31 interactions with chain A, 4 interactions with chain B, 1 Ligand-Ligand interactions- Hydrophobic interactions: A:W.236, A:V.243, A:V.243, A:I.247, A:I.247, A:T.309, A:A.313, A:V.320, A:F.348, A:L.353, A:I.356, A:I.356, A:L.358, A:V.373, A:F.377, A:F.377, A:V.380, A:L.381, B:I.34, B:P.69, B:I.72, B:L.73
- Hydrogen bonds: A:W.126, A:Y.244, A:Y.244
- Water bridges: A:H.291, A:D.369, A:D.369, A:R.438, A:R.438, A:R.438
- Salt bridges: A:H.368, A:R.438
- pi-Cation interactions: A:H.240
- Metal complexes: A:H.376, O.10
HEA.33: 31 residues within 4Å:- Chain N: T.31, S.34, I.37, R.38, Y.54, V.58, H.61, A.62, M.65, I.66, M.69, V.70, G.125, W.126, Y.371, V.374, F.377, H.378, L.381, S.382, V.386, F.393, T.424, F.425, Q.428, R.438, R.439, Y.440, S.458, V.465, M.468
33 PLIP interactions:33 interactions with chain N,- Hydrophobic interactions: N:I.37, N:V.58, N:V.58, N:A.62, N:M.65, N:I.66, N:V.70, N:V.374, N:F.377, N:L.381, N:V.386, N:V.386, N:F.393, N:T.424, N:F.425, N:F.425, N:V.465
- Hydrogen bonds: N:R.38, N:W.126, N:Y.371, N:S.382, N:Q.428, N:R.439, N:Y.440
- Water bridges: N:R.438, N:R.438, N:S.461
- Salt bridges: N:R.438, N:R.439
- pi-Stacking: N:F.377, N:F.425
- Metal complexes: N:H.61, N:H.378
HEA.34: 34 residues within 4Å:- Chain N: W.126, W.236, V.243, Y.244, I.247, H.290, H.291, T.309, I.312, A.313, T.316, G.317, F.348, T.349, G.352, L.353, G.355, I.356, L.358, A.359, D.364, H.368, V.373, H.376, F.377, V.380, L.381, R.438
- Chain O: I.34, P.69, I.72, L.73
- Ligands: O.39, OH.40
34 PLIP interactions:4 interactions with chain O, 29 interactions with chain N, 1 Ligand-Ligand interactions- Hydrophobic interactions: O:I.34, O:I.34, O:I.72, O:L.73, N:W.236, N:V.243, N:V.243, N:I.247, N:T.309, N:A.313, N:T.316, N:F.348, N:L.353, N:I.356, N:L.358, N:L.358, N:V.373, N:F.377, N:F.377, N:V.380, N:L.381
- Hydrogen bonds: N:W.126, N:Y.244
- Water bridges: N:Y.244, N:T.316, N:D.369, N:D.369, N:R.438, N:R.439
- Salt bridges: N:H.368, N:R.438
- pi-Cation interactions: N:H.240
- Metal complexes: N:H.376, O.39
- 8 x PGV: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE(Non-covalent)
PGV.6: 15 residues within 4Å:- Chain A: N.406, T.408, W.409, R.480
- Chain D: T.80, F.87
- Chain K: F.9, H.10, S.20
- Chain M: A.3, K.4, P.5, P.12, Q.15, A.16
16 PLIP interactions:5 interactions with chain M, 7 interactions with chain A, 2 interactions with chain D, 2 interactions with chain K- Hydrophobic interactions: M:P.12, M:P.12, M:A.16, A:T.408, A:W.409, A:W.409, D:T.80, D:F.87, K:F.9
- Hydrogen bonds: M:K.4, A:T.408
- Water bridges: M:A.6, A:T.404, A:D.407, A:R.480
- Salt bridges: K:H.10
PGV.7: 19 residues within 4Å:- Chain A: F.94, P.95, R.96, M.97, M.100, V.155
- Chain C: H.9, V.11, T.28, N.50, M.54, W.57, W.58, V.61, E.64, H.71, L.79, G.82
- Ligands: PEK.22
9 PLIP interactions:4 interactions with chain C, 5 interactions with chain A- Hydrophobic interactions: C:T.28, C:W.57, C:W.57, A:V.155
- Hydrogen bonds: C:H.9, A:R.96, A:R.96, A:M.97
- Salt bridges: A:R.96
PGV.8: 10 residues within 4Å:- Chain A: D.298
- Chain C: T.95, W.99, Y.102, H.103, L.106
- Chain H: N.22, N.24
- Ligands: CHD.16, PEK.51
5 PLIP interactions:2 interactions with chain H, 3 interactions with chain C- Hydrogen bonds: H:N.22, H:N.24
- Hydrophobic interactions: C:T.95, C:W.99, C:W.99
PGV.18: 22 residues within 4Å:- Chain C: M.51, M.54, W.58, V.61, S.65, T.66, H.71, L.79, F.86, E.90, H.207, I.210, T.213, F.214, R.221, H.226, F.227, T.228, H.231, H.232, F.233, G.234
21 PLIP interactions:20 interactions with chain C, 1 interactions with chain F- Hydrophobic interactions: C:W.58, C:W.58, C:W.58, C:W.58, C:W.58, C:I.210, C:I.210, C:F.214, C:F.214
- Hydrogen bonds: C:S.65, C:H.71, C:R.221, C:F.233, C:G.234
- Water bridges: C:R.221, C:H.231, C:H.231, F:E.17
- Salt bridges: C:R.221, C:R.221, C:H.231
PGV.36: 19 residues within 4Å:- Chain N: F.94, P.95, R.96, M.97, M.100, L.159
- Chain P: H.9, M.27, N.50, M.54, W.57, W.58, V.61, E.64, H.71, L.79, G.82
- Ligands: PEK.44, PGV.46
9 PLIP interactions:5 interactions with chain P, 4 interactions with chain N- Hydrophobic interactions: P:W.57, P:W.57, N:L.159
- Hydrogen bonds: P:H.9, P:W.57, P:E.64, N:R.96, N:M.97
- Salt bridges: N:R.96
PGV.38: 12 residues within 4Å:- Chain N: N.406, T.408, W.409
- Chain Q: T.80, A.84, F.87
- Chain X: F.9, H.10
- Chain Z: A.3, K.4, P.12, Q.15
9 PLIP interactions:1 interactions with chain N, 2 interactions with chain X, 3 interactions with chain Z, 3 interactions with chain Q- Hydrophobic interactions: N:W.409, X:F.9, Z:P.12, Z:P.12, Q:A.84, Q:F.87, Q:F.87
- Salt bridges: X:H.10
- Hydrogen bonds: Z:K.4
PGV.46: 22 residues within 4Å:- Chain P: M.54, W.58, V.61, S.65, T.66, L.79, F.86, L.206, H.207, I.210, T.213, F.214, R.221, H.226, F.227, T.228, H.231, H.232, F.233, G.234
- Ligands: PGV.36, CDL.47
19 PLIP interactions:19 interactions with chain P- Hydrophobic interactions: P:W.58, P:W.58, P:W.58, P:F.86, P:F.86, P:L.206, P:I.210, P:F.214, P:F.214, P:F.214
- Hydrogen bonds: P:S.65, P:R.221, P:F.233, P:G.234
- Water bridges: P:R.221, P:H.231
- Salt bridges: P:R.221, P:R.221, P:H.231
PGV.53: 9 residues within 4Å:- Chain G: A.1
- Chain N: F.237, D.298
- Chain P: W.99, Y.102, H.103, A.107
- Chain U: N.24
- Ligands: CHD.43
5 PLIP interactions:1 interactions with chain P, 2 interactions with chain U, 1 interactions with chain N, 1 interactions with chain G- Hydrophobic interactions: P:W.99, N:F.237, G:A.1
- Hydrogen bonds: U:N.24, U:N.24
- 6 x TGL: TRISTEAROYLGLYCEROL(Non-covalent)
TGL.9: 13 residues within 4Å:- Chain A: W.334, M.339, F.346, K.411, F.414, A.415
- Chain B: L.39, I.42, S.43, L.46
- Chain D: R.73, E.77, W.78
8 PLIP interactions:2 interactions with chain B, 5 interactions with chain A, 1 interactions with chain D- Hydrophobic interactions: B:L.39, B:I.42, A:W.334, A:W.334, A:F.346, A:F.414
- Salt bridges: A:K.411
- Hydrogen bonds: D:W.78
TGL.14: 17 residues within 4Å:- Chain A: F.346, V.350, N.422, F.426, H.429, F.430, L.433, W.450
- Chain B: L.7, G.8, H.24, L.28, F.32, S.35, S.36, L.39
- Chain I: R.43
14 PLIP interactions:6 interactions with chain B, 1 interactions with chain I, 7 interactions with chain A- Hydrophobic interactions: B:L.7, B:L.7, B:F.32, B:L.39, A:F.346, A:V.350, A:F.426, A:F.426, A:H.429, A:F.430, A:W.450
- Water bridges: B:F.9
- Salt bridges: B:H.24, I:R.43
TGL.27: 21 residues within 4Å:- Chain A: T.17, L.18, L.21, F.22, W.25, L.113, F.393, F.397, F.400, I.472
- Chain L: N.10, I.11, P.12, F.13, S.14, R.20, M.24, M.25, F.28, F.29, S.31
16 PLIP interactions:9 interactions with chain A, 7 interactions with chain L- Hydrophobic interactions: A:T.17, A:L.18, A:W.25, A:W.25, A:L.113, A:F.393, A:F.397, A:F.400, A:I.472, L:I.11, L:F.13, L:F.13, L:F.13, L:F.28, L:F.28, L:F.29
TGL.35: 15 residues within 4Å:- Chain N: N.422, F.426, H.429, F.430, L.433
- Chain O: L.7, G.8, H.24, L.28, F.32, S.35, S.36, L.39
- Chain V: F.31, R.43
9 PLIP interactions:5 interactions with chain N, 2 interactions with chain O, 2 interactions with chain V- Hydrophobic interactions: N:F.426, N:F.426, N:F.426, N:H.429, N:F.430, O:L.39, V:F.31
- Salt bridges: O:H.24, V:R.43
TGL.37: 15 residues within 4Å:- Chain N: W.334, M.339, K.411, F.414, A.415
- Chain O: L.39, I.42, L.46, T.47, T.48, K.49
- Chain Q: E.77, W.78, V.81
- Chain V: R.16
11 PLIP interactions:5 interactions with chain N, 3 interactions with chain Q, 3 interactions with chain O- Hydrophobic interactions: N:W.334, N:W.334, N:F.414, N:A.415, Q:V.81, O:L.39, O:I.42, O:L.46
- Salt bridges: N:K.411
- Hydrogen bonds: Q:E.77, Q:W.78
TGL.56: 15 residues within 4Å:- Chain N: F.2, W.6, T.17, L.21, W.25, F.400, I.472
- Chain Y: I.11, P.12, F.13, R.20, M.24, M.25, F.28, F.29
10 PLIP interactions:5 interactions with chain N, 5 interactions with chain Y- Hydrophobic interactions: N:T.17, N:L.21, N:W.25, N:F.400, N:I.472, Y:I.11, Y:F.13, Y:F.13, Y:F.29, Y:F.29
- 2 x O: OXYGEN ATOM(Non-covalent)
O.10: 6 residues within 4Å:- Chain A: H.240, V.243, H.376
- Ligands: CU.1, HEA.5, OH.11
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:H.240
O.39: 6 residues within 4Å:- Chain N: H.240, V.243, H.376
- Ligands: CU.30, HEA.34, OH.40
1 PLIP interactions:1 interactions with chain N- Hydrogen bonds: N:H.240
- 2 x OH: HYDROXIDE ION(Non-covalent)
OH.11: 7 residues within 4Å:- Chain A: H.240, V.243, H.290, H.291
- Ligands: CU.1, HEA.5, O.10
No protein-ligand interaction detected (PLIP)OH.40: 7 residues within 4Å:- Chain N: H.240, V.243, H.290, H.291
- Ligands: CU.30, HEA.34, O.39
1 PLIP interactions:1 interactions with chain N- Hydrogen bonds: N:H.291
- 2 x CUA: DINUCLEAR COPPER ION(Non-covalent)
CUA.12: 6 residues within 4Å:- Chain B: H.161, C.196, E.198, C.200, H.204, M.207
7 PLIP interactions:7 interactions with chain B- Metal complexes: B:H.161, B:C.196, B:C.196, B:E.198, B:C.200, B:C.200, B:H.204
CUA.41: 6 residues within 4Å:- Chain O: H.161, C.196, E.198, C.200, H.204, M.207
7 PLIP interactions:7 interactions with chain O- Metal complexes: O:H.161, O:C.196, O:C.196, O:E.198, O:C.200, O:C.200, O:H.204
- 2 x PSC: (7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE(Non-covalent)
PSC.13: 16 residues within 4Å:- Chain A: F.321
- Chain B: L.37, I.41, M.45, H.52, M.56, D.57, V.61, W.65, L.68, P.69
- Chain E: D.8, L.41
- Chain I: R.10, G.11, L.17
14 PLIP interactions:9 interactions with chain B, 1 interactions with chain I, 2 interactions with chain E, 2 interactions with chain A- Hydrophobic interactions: B:L.37, B:I.41, B:M.56, B:V.61, B:W.65, B:L.68, B:P.69, I:L.17, A:F.321, A:F.321
- Hydrogen bonds: B:D.57
- Salt bridges: B:H.52, E:D.8
- pi-Cation interactions: E:F.11
PSC.42: 17 residues within 4Å:- Chain N: F.321
- Chain O: L.37, I.41, H.52, M.56, E.60, V.61, W.65, L.68
- Chain R: E.6, T.7, D.8, F.11
- Chain V: R.10, A.14, R.18, I.21
10 PLIP interactions:6 interactions with chain O, 1 interactions with chain R, 1 interactions with chain N, 2 interactions with chain V- Hydrophobic interactions: O:L.37, O:I.41, O:V.61, O:W.65, O:L.68, N:F.321, V:R.18, V:I.21
- Salt bridges: O:H.52, R:D.8
- 8 x CHD: CHOLIC ACID(Non-covalent)
CHD.15: 13 residues within 4Å:- Chain A: M.271, G.272, W.275
- Chain B: Q.59, E.62, T.63, T.66
- Chain T: R.14, R.17, F.18, F.21, G.22
- Ligands: PEK.45
10 PLIP interactions:4 interactions with chain T, 3 interactions with chain B, 3 interactions with chain A- Hydrophobic interactions: T:F.18, A:M.271, A:W.275, A:W.275
- Water bridges: T:R.17
- Salt bridges: T:R.14, T:R.17
- Hydrogen bonds: B:Q.59, B:E.62, B:T.63
CHD.16: 8 residues within 4Å:- Chain A: H.233, D.300, T.301, Y.304
- Chain C: W.99, H.103
- Ligands: PGV.8, CDL.52
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain C- Hydrophobic interactions: A:Y.304
- Hydrogen bonds: A:T.301, C:W.99
- Salt bridges: A:H.233, C:H.103
CHD.24: 12 residues within 4Å:- Chain G: R.14, R.17, F.18, F.21, G.22
- Chain N: M.271, G.272, W.275
- Chain O: E.62, T.63, T.66
- Ligands: PEK.17
9 PLIP interactions:4 interactions with chain G, 3 interactions with chain N, 2 interactions with chain O- Hydrophobic interactions: G:F.18, G:F.18,
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.50 Å
- Oligo State
- hetero-2-2-2-2-2-2-2-2-2-2-2-2-2-mer
- Ligands
- 2 x CU: COPPER (II) ION(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
- 4 x HEA: HEME-A(Non-covalent)
- 8 x PGV: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE(Non-covalent)
- 6 x TGL: TRISTEAROYLGLYCEROL(Non-covalent)
- 2 x O: OXYGEN ATOM(Non-covalent)
- 2 x OH: HYDROXIDE ION(Non-covalent)
- 2 x CUA: DINUCLEAR COPPER ION(Non-covalent)
- 2 x PSC: (7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE(Non-covalent)
- 8 x CHD: CHOLIC ACID(Non-covalent)