SMTL ID : 7ev7.1 (1 other biounit)

Bovine heart cytochrome c oxidase in the carbon monoxide-bound fully reduced state at a 50 K

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-mer

Ligands

4 x PGV: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE(Non-covalent)

PGV.1: 14 residues within 4Å: Chain A: N.406, T.408, W.409, I.412 Chain D: A.84, F.87 Chain K: F.9, H.10 Chain M: P.12, Q.15, A.16, L.19, S.20 Ligands: EDO.102 20 PLIP interactions: 6 interactions with chain A, 4 interactions with chain M, 5 interactions with chain K, 5 interactions with chain D Hydrophobic interactions: A:T.408, A:W.409, A:W.409, A:W.409, A:I.412, M:P.12, M:Q.15, M:L.19, K:F.9, K:F.9, K:F.9, D:A.84, D:F.87, D:F.87, D:F.87, D:F.87 Hydrogen bonds: A:T.408 Water bridges: M:A.3, K:F.9 Salt bridges: K:H.10 PGV.8: 32 residues within 4Å: Chain A: F.94, P.95, R.96, M.97, M.100, F.148, H.151, L.152, I.158, L.159, P.200 Chain C: H.9, V.11, G.20, A.24, T.28, L.31, N.50, T.53, M.54, W.57, W.58, V.61, E.64, H.71, L.79, G.82, F.86, S.89 Ligands: PEK.45, PGV.47, DMU.85 19 PLIP interactions: 9 interactions with chain A, 10 interactions with chain C Hydrophobic interactions: A:F.148, A:L.152, A:I.158, A:L.159, A:P.200, C:A.24, C:T.28, C:L.31, C:T.53, C:W.57, C:W.57, C:W.57, C:W.58, C:F.86 Hydrogen bonds: A:R.96, A:R.96, A:M.97, C:W.57 Salt bridges: A:R.96 PGV.47: 25 residues within 4Å: Chain C: M.54, W.58, V.61, I.62, S.65, T.66, H.71, L.79, F.86, L.206, H.207, I.209, I.210, T.213, F.214, R.221, H.226, F.227, T.228, H.231, H.232, F.233, G.234 Ligands: PGV.8, CDL.49 28 PLIP interactions: 26 interactions with chain C, 2 interactions with chain F Hydrophobic interactions: C:W.58, C:W.58, C:W.58, C:W.58, C:W.58, C:I.62, C:F.86, C:F.86, C:L.206, C:I.209, C:T.213, C:F.214, C:F.214, C:F.214, C:F.214 Hydrogen bonds: C:S.65, C:R.221, C:F.233, C:G.234 Water bridges: C:S.65, C:R.221, C:H.231, C:H.231, F:Q.12, F:E.17 Salt bridges: C:R.221, C:R.221, C:H.231 PGV.48: 12 residues within 4Å: Chain A: F.237, D.298 Chain C: T.95, W.99, Y.102, H.103, L.106, A.107 Chain H: N.22, N.24 Ligands: EDO.25, CHD.42 13 PLIP interactions: 6 interactions with chain H, 2 interactions with chain A, 5 interactions with chain C Hydrogen bonds: H:N.22, A:D.298 Water bridges: H:N.22, H:Q.23, H:N.24, H:N.24, H:R.27 Hydrophobic interactions: A:F.237, C:T.95, C:W.99, C:W.99, C:L.106 Salt bridges: C:H.103

2 x HEA: HEME-A(Non-covalent)

HEA.2: 36 residues within 4Å: Chain A: A.24, G.27, 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, I.389, F.393, M.417, T.424, F.425, Q.428, R.438, R.439, Y.440, S.458, V.465, M.468 Ligands: TGL.95 37 PLIP interactions: 37 interactions with chain A, Hydrophobic interactions: A:A.24, A:T.31, A:V.58, A:V.58, A:A.62, A:M.65, A:I.66, A:V.70, A:V.374, A:F.377, A:F.377, A:L.381, A:L.381, A:I.389, A:F.393, A:F.393, A:T.424, A:F.425, A:F.425, A:V.465 Hydrogen bonds: A:R.38, A:Y.54, A:W.126, A:Y.371, A:S.382, A:Q.428, A:R.439, A:Y.440 Water bridges: A:R.438, A:R.438, A:S.461 Salt bridges: A:R.438, A:R.439 pi-Stacking: A:F.377, A:F.425 Metal complexes: A:H.61, A:H.378 HEA.3: 34 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: CMO.7 36 PLIP interactions: 31 interactions with chain A, 5 interactions with chain B, Hydrophobic interactions: A:W.236, A:V.243, A:V.243, A:V.243, A:I.247, A:I.247, A:T.309, A:A.313, A:T.316, A:V.320, A:F.348, A:I.356, A:I.356, A:V.373, A:F.377, A:F.377, A:V.380, A:L.381, A:L.381, B:I.34, B:I.34, B:P.69, B:I.72, B:L.73 Hydrogen bonds: A:W.126, A:Y.244 Water bridges: A:H.291, A:T.316, A:D.369, A:D.369, A:R.439 Salt bridges: A:H.368, A:R.438, A:R.439 pi-Cation interactions: A:H.240 Metal complexes: A:H.376

1 x CU: COPPER (II) ION(Non-covalent)

CU.4: 4 residues within 4Å: Chain A: H.240, H.290, H.291 Ligands: CMO.7 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.240, A:H.290, A:H.291, CMO.7

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 4 residues within 4Å: Chain A: H.368, D.369 Chain B: S.197, E.198 6 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: A:H.368, A:D.369, B:E.198, H2O.12, H2O.12, H2O.15

2 x NA: SODIUM ION(Non-functional Binders)

NA.6: 6 residues within 4Å: Chain A: E.40, Q.43, G.45, T.46, S.441, D.442 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.441 Water bridges: A:Q.43 NA.43: 3 residues within 4Å: Chain C: H.148, H.232, E.236 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.236

1 x CMO: CARBON MONOXIDE(Non-functional Binders)

CMO.7: 6 residues within 4Å: Chain A: H.240, V.243, H.290, H.291 Ligands: HEA.3, CU.4 No protein-ligand interaction detected (PLIP)

71 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.9: 8 residues within 4Å: Chain A: Y.19, N.80, M.92, N.98, S.101, G.160, N.163, F.164 Ligand excluded by PLIP EDO.10: 6 residues within 4Å: Chain A: H.256, T.259, K.265, T.490, N.491 Ligands: EDO.72 Ligand excluded by PLIP EDO.11: 7 residues within 4Å: Chain A: Y.260, Y.261, V.394, H.395, P.398, W.494 Chain M: I.1 Ligand excluded by PLIP EDO.12: 5 residues within 4Å: Chain A: L.136, A.137 Chain B: Q.103, W.104 Ligands: EDO.21 Ligand excluded by PLIP EDO.13: 5 residues within 4Å: Chain A: K.265, T.489 Chain F: I.70, P.83, S.84 Ligand excluded by PLIP EDO.14: 4 residues within 4Å: Chain A: K.333, T.484 Chain M: I.1, T.2 Ligand excluded by PLIP EDO.15: 5 residues within 4Å: Chain A: V.485, D.486, L.487, T.488, T.489 Ligand excluded by PLIP EDO.16: 2 residues within 4Å: Chain A: P.131, D.221 Ligand excluded by PLIP EDO.17: 8 residues within 4Å: Chain A: K.265, E.266 Chain B: T.55 Chain F: N.66, T.68, I.70, S.84 Ligands: EDO.73 Ligand excluded by PLIP EDO.18: 8 residues within 4Å: Chain A: G.269, Y.270, M.271, G.272 Chain B: A.58, E.62 Ligands: CHD.30, EDO.38 Ligand excluded by PLIP EDO.19: 7 residues within 4Å: Chain A: E.266, P.267, G.269, Y.270 Chain F: S.67 Ligands: EDO.38, EDO.73 Ligand excluded by PLIP EDO.20: 9 residues within 4Å: Chain A: R.5, N.11, K.13, D.14, W.81, P.499, P.500, Y.502 Chain L: N.10 Ligand excluded by PLIP EDO.21: 6 residues within 4Å: Chain A: Q.52, A.120, A.137, H.138, A.139 Ligands: EDO.12 Ligand excluded by PLIP EDO.22: 3 residues within 4Å: Chain A: E.119, A.139, G.140 Ligand excluded by PLIP EDO.23: 7 residues within 4Å: Chain A: Q.43, P.44, G.45, T.46, L.47 Chain D: Y.104, P.106 Ligand excluded by PLIP EDO.24: 1 residues within 4Å: Ligands: TGL.95 Ligand excluded by PLIP EDO.25: 2 residues within 4Å: Chain A: Y.304 Ligands: PGV.48 Ligand excluded by PLIP EDO.26: 7 residues within 4Å: Chain A: V.482, L.483, G.497, C.498 Chain D: S.8, Y.11 Ligands: EDO.62 Ligand excluded by PLIP EDO.27: 7 residues within 4Å: Chain A: Y.19, M.71, P.72, S.101, L.105, S.156, S.157 Ligand excluded by PLIP EDO.32: 2 residues within 4Å: Chain B: T.125, F.206 Ligand excluded by PLIP EDO.33: 7 residues within 4Å: Chain A: Y.447 Chain B: M.1, A.2, Q.10, L.136, P.166, Y.193 Ligand excluded by PLIP EDO.34: 6 residues within 4Å: Chain B: E.132, R.141 Chain I: I.68, F.69, Q.70, K.73 Ligand excluded by PLIP EDO.35: 5 residues within 4Å: Chain B: W.104, Y.121, M.122, N.203, F.206 Ligand excluded by PLIP EDO.36: 4 residues within 4Å: Chain B: I.123, E.127, K.129, E.132 Ligand excluded by PLIP EDO.37: 6 residues within 4Å: Chain B: Y.3, Q.6, L.7, G.8, F.9 Ligands: TGL.28 Ligand excluded by PLIP EDO.38: 5 residues within 4Å: Chain B: T.55, M.56, A.58 Ligands: EDO.18, EDO.19 Ligand excluded by PLIP EDO.39: 6 residues within 4Å: Chain B: F.118, N.140, R.141, W.222, M.226 Chain I: Q.70 Ligand excluded by PLIP EDO.40: 4 residues within 4Å: Chain B: E.157, P.176 Ligands: EDO.53, EDO.87 Ligand excluded by PLIP EDO.41: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP EDO.53: 7 residues within 4Å: Chain A: P.222 Chain B: G.177 Chain C: E.111 Chain H: W.68 Ligands: EDO.40, EDO.57, EDO.87 Ligand excluded by PLIP EDO.54: 5 residues within 4Å: Chain C: N.12, Q.68 Chain J: L.18, V.20, K.23 Ligand excluded by PLIP EDO.55: 3 residues within 4Å: Chain C: H.3, Q.4, H.70 Ligand excluded by PLIP EDO.56: 9 residues within 4Å: Chain C: W.146, S.150, D.155, H.158 Chain F: A.1, S.2 Chain G: A.13, R.14, R.17 Ligand excluded by PLIP EDO.57: 6 residues within 4Å: Chain B: G.177 Chain C: E.111 Chain H: W.68, W.72 Ligands: EDO.53, EDO.87 Ligand excluded by PLIP EDO.58: 4 residues within 4Å: Chain C: P.73, Q.76, K.77, R.80 Ligand excluded by PLIP EDO.59: 5 residues within 4Å: Chain C: T.145, H.148, A.239, W.240, H.243 Ligand excluded by PLIP EDO.62: 8 residues within 4Å: Chain A: L.483, T.484 Chain D: V.6, K.7, D.10, Y.11, S.15 Ligands: EDO.26 Ligand excluded by PLIP EDO.63: 3 residues within 4Å: Chain D: K.137 Chain K: S.43, V.45 Ligand excluded by PLIP EDO.64: 4 residues within 4Å: Chain D: V.30, E.58, R.61, L.62 Ligand excluded by PLIP EDO.65: 5 residues within 4Å: Chain D: S.36, A.39, L.40, E.55, E.58 Ligand excluded by PLIP EDO.66: 4 residues within 4Å: Chain D: K.31, N.32, L.33, K.38 Ligand excluded by PLIP EDO.67: 6 residues within 4Å: Chain D: K.121, L.124, D.125, W.138, N.143 Chain K: P.50 Ligand excluded by PLIP EDO.68: 3 residues within 4Å: Chain E: Y.82, P.83, E.102 Ligand excluded by PLIP EDO.69: 7 residues within 4Å: Chain D: Y.22, D.26 Chain E: W.27, R.30, K.31, N.34 Chain F: P.83 Ligand excluded by PLIP EDO.70: 4 residues within 4Å: Chain E: Y.18, K.21, I.24, E.28 Ligand excluded by PLIP EDO.72: 7 residues within 4Å: Chain A: T.489, T.490 Chain F: S.67, T.68, V.69, W.71 Ligands: EDO.10 Ligand excluded by PLIP EDO.73: 7 residues within 4Å: Chain A: E.266 Chain F: D.65, N.66, S.67, T.68 Ligands: EDO.17, EDO.19 Ligand excluded by PLIP EDO.74: 6 residues within 4Å: Chain A: Y.510 Chain F: P.36, K.37, T.39, N.47, L.48 Ligand excluded by PLIP EDO.75: 5 residues within 4Å: Chain F: A.1 Chain G: R.14, R.17 Ligands: PEK.46, CHD.79 Ligand excluded by PLIP EDO.76: 3 residues within 4Å: Chain C: H.231 Chain F: D.9, E.17 Ligand excluded by PLIP EDO.77: 4 residues within 4Å: Chain C: F.225 Chain F: G.5, P.7 Chain J: N.3 Ligand excluded by PLIP EDO.80: 4 residues within 4Å: Chain G: K.5, F.18, G.22, L.23 Ligand excluded by PLIP EDO.81: 4 residues within 4Å: Chain G: L.30, L.33, N.34 Ligands: CDL.78 Ligand excluded by PLIP EDO.82: 4 residues within 4Å: Chain C: F.35 Chain G: K.58, P.59, S.61 Ligand excluded by PLIP EDO.83: 6 residues within 4Å: Chain C: G.120 Chain G: A.46, F.47, I.48, L.53, R.54 Ligand excluded by PLIP EDO.84: 6 residues within 4Å: Chain G: G.10, T.11, G.12, A.13, R.14, T.15 Ligand excluded by PLIP EDO.86: 7 residues within 4Å: Chain B: S.94, L.95, Y.113, M.148, L.216, F.219 Chain H: Q.12 Ligand excluded by PLIP EDO.87: 5 residues within 4Å: Chain H: S.67, T.71 Ligands: EDO.40, EDO.53, EDO.57 Ligand excluded by PLIP EDO.88: 6 residues within 4Å: Chain A: D.227 Chain B: G.177, R.178 Chain C: T.109 Chain H: N.24, T.26 Ligand excluded by PLIP EDO.91: 2 residues within 4Å: Chain J: Y.32 Ligands: CHD.90 Ligand excluded by PLIP EDO.92: 3 residues within 4Å: Chain J: Q.9, K.10, Q.13 Ligand excluded by PLIP EDO.93: 3 residues within 4Å: Chain A: M.423 Chain D: I.89 Chain K: W.29 Ligand excluded by PLIP EDO.94: 7 residues within 4Å: Chain D: N.76, K.79 Chain K: H.10, D.11, K.12, G.14, N.15 Ligand excluded by PLIP EDO.96: 4 residues within 4Å: Chain L: T.26, G.30 Chain M: S.25 Ligands: DMU.105 Ligand excluded by PLIP EDO.97: 3 residues within 4Å: Chain A: M.117 Chain L: F.38 Ligands: EDO.98 Ligand excluded by PLIP EDO.98: 3 residues within 4Å: Chain L: R.41, H.42 Ligands: EDO.97 Ligand excluded by PLIP EDO.99: 3 residues within 4Å: Chain L: S.31, F.38 Ligands: TGL.95 Ligand excluded by PLIP EDO.101: 5 residues within 4Å: Chain A: T.46, L.47 Chain D: V.103 Chain M: D.38, K.41 Ligand excluded by PLIP EDO.102: 3 residues within 4Å: Chain A: D.407 Chain M: I.1 Ligands: PGV.1 Ligand excluded by PLIP EDO.103: 5 residues within 4Å: Chain A: E.481 Chain D: S.8 Chain M: K.4, K.7 Ligands: EDO.104 Ligand excluded by PLIP EDO.104: 4 residues within 4Å: Chain D: V.6 Chain M: K.4, K.7 Ligands: EDO.103 Ligand excluded by PLIP

3 x TGL: TRISTEAROYLGLYCEROL(Non-covalent)

TGL.28: 15 residues within 4Å: Chain A: F.346, V.350, Y.379, N.422, F.426, F.430, L.433 Chain B: L.7, G.8, L.28, F.32, S.35, L.39 Chain I: R.43 Ligands: EDO.37 13 PLIP interactions: 6 interactions with chain A, 6 interactions with chain B, 1 interactions with chain I Hydrophobic interactions: A:F.346, A:F.426, A:F.426, A:F.426, A:F.426, A:F.430, B:L.7, B:F.32, B:F.32, B:L.39 Water bridges: B:F.9 Salt bridges: B:H.24, I:R.43 TGL.61: 23 residues within 4Å: Chain A: W.334, M.339, L.342, G.343, F.346, F.414, A.415, V.419 Chain B: L.39, I.42, L.46, T.47, K.49 Chain D: R.73, S.74, T.75, E.77, W.78, V.81, M.86, I.89 Chain I: R.16, H.20 19 PLIP interactions: 9 interactions with chain A, 6 interactions with chain D, 4 interactions with chain B Hydrophobic interactions: A:W.334, A:W.334, A:W.334, A:L.342, A:F.346, A:F.414, A:A.415, A:V.419, D:E.77, D:V.81, D:I.89, B:L.39, B:I.42, B:L.46, B:K.49 Salt bridges: A:K.411 Hydrogen bonds: D:E.77, D:W.78 Water bridges: D:T.75 TGL.95: 26 residues within 4Å: Chain A: F.2, T.17, L.18, L.20, L.21, F.22, W.25, F.109, L.113, F.393, F.400, S.401, I.472 Chain L: N.10, I.11, P.12, F.13, S.14, R.20, M.24, F.28, F.29, S.31 Ligands: HEA.2, EDO.24, EDO.99 21 PLIP interactions: 9 interactions with chain L, 12 interactions with chain A Hydrophobic interactions: L:I.11, L:F.13, L:F.13, L:F.13, L:F.28, L:F.28, L:F.28, L:F.29, L:F.29, A:T.17, A:L.18, A:L.20, A:L.21, A:F.22, A:F.22, A:W.25, A:F.109, A:L.113, A:F.393, A:I.472, A:I.472

1 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.29: 22 residues within 4Å: Chain A: F.268, F.321, L.324, A.325, H.328 Chain B: L.37, I.41, H.52, M.56, D.57, E.60, V.61, I.64 Chain E: E.6, T.7, D.8, F.11, D.40, L.41 Chain I: R.10, A.14, L.17 20 PLIP interactions: 9 interactions with chain B, 3 interactions with chain E, 3 interactions with chain I, 5 interactions with chain A Hydrophobic interactions: B:L.37, B:I.41, B:I.41, B:M.56, B:D.57, B:V.61, B:I.64, I:L.17, A:F.268, A:F.321, A:F.321, A:L.324, A:A.325 Salt bridges: B:H.52, B:H.52, E:D.8 Water bridges: E:D.40, I:A.14 pi-Cation interactions: E:F.11 Hydrogen bonds: I:G.11

6 x CHD: CHOLIC ACID(Non-covalent)

CHD.30: 7 residues within 4Å: Chain A: M.271, G.272, W.275 Chain B: E.62, T.63, T.66 Ligands: EDO.18 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:T.66, A:M.271, A:W.275, A:W.275, A:W.275 Hydrogen bonds: B:E.62, B:T.63 Water bridges: B:T.63 CHD.42: 9 residues within 4Å: Chain A: H.233, W.288, D.300, T.301, Y.304, F.305 Chain C: W.99, H.103 Ligands: PGV.48 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:W.288, A:Y.304, A:F.305, C:W.99 Hydrogen bonds: A:T.301, C:W.99 Water bridges: A:T.301 Salt bridges: A:H.233, C:H.103 CHD.50: 6 residues within 4Å: Chain C: R.156, L.160, F.164, F.219, L.223 Chain J: F.1 8 PLIP interactions: 7 interactions with chain C, 1 interactions with chain J Hydrophobic interactions: C:L.160, C:F.164, C:F.164, C:F.164, C:F.219, C:L.223 Salt bridges: C:R.156 Hydrogen bonds: J:F.1 CHD.52: 6 residues within 4Å: Chain C: W.116, P.117, V.254, W.258, W.259, S.261 2 PLIP interactions: 2 interactions with chain C Water bridges: C:W.259, C:S.261 CHD.79: 7 residues within 4Å: Chain G: R.14, R.17, F.18, F.21, G.22 Ligands: PEK.46, EDO.75 5 PLIP interactions: 5 interactions with chain G Hydrophobic interactions: G:F.21 Water bridges: G:R.17, G:R.17 Salt bridges: G:R.14, G:R.17 CHD.90: 7 residues within 4Å: Chain A: I.3 Chain J: Y.32, R.33, M.36, T.37, L.40 Ligands: EDO.91 4 PLIP interactions: 3 interactions with chain J, 1 interactions with chain A Hydrophobic interactions: J:T.37, A:I.3 Hydrogen bonds: J:R.33, J:R.33

1 x CUA: DINUCLEAR COPPER ION(Non-covalent)

CUA.31: 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

3 x PEK: (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE(Non-covalent)

PEK.44: 10 residues within 4Å: Chain C: Y.81, I.84, L.85, V.91, T.95, F.98, W.240, F.244, V.247, F.251 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:Y.81, C:I.84, C:L.85, C:V.91, C:F.98, C:F.98, C:W.240, C:W.240, C:W.240, C:V.247 PEK.45: 24 residues within 4Å: Chain A: H.151, V.155, A.203, T.207, L.210, L.215 Chain C: W.34, A.178, Y.181, Y.182, A.184, F.186, T.187, I.188, F.198, G.202, F.203 Chain G: W.62, T.68, F.69, F.70, H.71, N.76 Ligands: PGV.8 21 PLIP interactions: 9 interactions with chain C, 4 interactions with chain A, 8 interactions with chain G Hydrophobic interactions: C:W.34, C:A.178, C:Y.181, C:I.188, C:F.203, C:F.203, C:F.203, A:V.155, A:A.203, A:L.210, A:L.215, G:W.62, G:F.69 Hydrogen bonds: C:A.184, C:I.188, G:T.68, G:F.70, G:N.76, G:N.76 Water bridges: G:F.69, G:F.69 PEK.46: 12 residues within 4Å: Chain C: K.157, H.158, Q.161, T.168, Y.172 Chain F: A.1 Chain G: R.17, F.21, G.22 Ligands: EDO.75, CDL.78, CHD.79 9 PLIP interactions: 1 interactions with chain F, 5 interactions with chain C, 3 interactions with chain G Hydrogen bonds: F:A.1, C:K.157, C:H.158, G:R.17 Hydrophobic interactions: C:T.168, C:Y.172, C:Y.172, G:F.21 Salt bridges: G:R.17

2 x CDL: CARDIOLIPIN(Non-covalent)

CDL.49: 25 residues within 4Å: Chain C: M.44, T.48, M.51, L.52, M.54, Y.55, W.58, R.59, I.62, R.63, F.67, T.174, I.209, S.212, T.213, I.216, V.217, F.220, K.224, H.226 Chain J: K.8, T.27, L.31, V.34 Ligands: PGV.47 28 PLIP interactions: 23 interactions with chain C, 5 interactions with chain J Hydrophobic interactions: C:L.52, C:M.54, C:Y.55, C:Y.55, C:Y.55, C:Y.55, C:Y.55, C:W.58, C:W.58, C:R.59, C:I.62, C:T.174, C:I.209, C:T.213, C:V.217, C:F.220, J:L.31, J:V.34 Hydrogen bonds: C:Y.55, C:R.63 Water bridges: C:R.59, J:K.8 Salt bridges: C:R.63, C:K.224, C:K.224, C:H.226, J:K.8, J:K.8 CDL.78: 16 residues within 4Å: Chain C: N.125, L.127, L.131, T.134, L.138, V.142, V.254 Chain G: L.19, S.27, L.30, C.31, N.34, L.37, H.38 Ligands: PEK.46, EDO.81 13 PLIP interactions: 7 interactions with chain G, 6 interactions with chain C Hydrophobic interactions: G:L.19, G:L.30, G:L.30, G:L.37, G:L.37, C:L.131, C:T.134, C:L.138, C:V.142, C:V.254 Hydrogen bonds: G:N.34, C:N.125 Salt bridges: G:H.38

5 x DMU: DECYL-BETA-D-MALTOPYRANOSIDE(Non-covalent)

DMU.51: 14 residues within 4Å: Chain A: L.110, A.114 Chain C: S.29, T.32, M.33, F.37 Chain J: Y.45, S.46, Y.48, C.49, L.50, W.52, K.58 Ligands: DMU.60 8 PLIP interactions: 3 interactions with chain C, 2 interactions with chain A, 3 interactions with chain J Hydrophobic interactions: C:T.32, C:F.37, C:F.37, A:L.110, A:A.114, J:L.50 Hydrogen bonds: J:Y.45, J:Y.45 DMU.60: 10 residues within 4Å: Chain C: N.38, S.39, T.41, I.45 Chain J: T.37, L.38, G.41, G.42, Y.45 Ligands: DMU.51 6 PLIP interactions: 1 interactions with chain C, 5 interactions with chain J Hydrophobic interactions: C:I.45, J:L.38, J:Y.45, J:Y.45, J:Y.45 Hydrogen bonds: J:Y.45 DMU.85: 6 residues within 4Å: Chain C: W.34, M.40 Chain G: W.62, G.63, F.69 Ligands: PGV.8 4 PLIP interactions: 3 interactions with chain G, 1 interactions with chain C Hydrogen bonds: G:G.63, G:F.69 Water bridges: G:D.64 Hydrophobic interactions: C:W.34 DMU.100: 12 residues within 4Å: Chain A: F.459 Chain D: W.98, Y.102 Chain L: F.37 Chain M: L.27, L.28, A.30, G.31, W.32, L.34, Y.35, H.36 12 PLIP interactions: 5 interactions with chain M, 1 interactions with chain L, 1 interactions with chain A, 5 interactions with chain D Hydrophobic interactions: M:L.27, M:L.27, M:A.30, M:L.34, L:F.37, A:F.459, D:W.98, D:W.98 Water bridges: M:H.36, D:Y.102, D:Y.102, D:Y.102 DMU.105: 7 residues within 4Å: Chain L: W.19, A.23, T.26, L.27 Chain M: E.14, I.17 Ligands: EDO.96 5 PLIP interactions: 2 interactions with chain L, 3 interactions with chain M Hydrophobic interactions: L:A.23, L:L.27 Hydrogen bonds: M:E.14, M:E.14 Water bridges: M:E.14

1 x ZN: ZINC ION(Non-covalent)

ZN.71: 4 residues within 4Å: Chain F: C.60, C.62, C.82, C.85 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.60, F:C.62, F:C.82, F:C.85

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.89: 4 residues within 4Å: Chain H: R.27, Q.31, L.34, R.38 6 PLIP interactions: 6 interactions with chain H Hydrogen bonds: H:Q.31, H:Q.31 Water bridges: H:R.27, H:R.27 Salt bridges: H:R.27, H:R.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shimada, A. et al., Structure of CO-bound fully reduced state of bovine heart cytochrome c oxidase. To Be Published

Release Date

2021-07-14

Peptides

Cytochrome c oxidase subunit 1: A
Cytochrome c oxidase subunit 2: B
Cytochrome c oxidase subunit 3: C
Cytochrome c oxidase subunit 4 isoform 1: D
Cytochrome c oxidase subunit 5A: E
Cytochrome c oxidase subunit 5B, mitochondrial: F
Cytochrome c oxidase subunit 6A2: G
Cytochrome c oxidase subunit 6B1: H
Cytochrome c oxidase subunit 6C: I
Cytochrome c oxidase subunit 7A1: J
Cytochrome c oxidase subunit 7B: K
Cytochrome c oxidase subunit 7C, mitochondrial: L
Cytochrome c oxidase subunit 8B: M

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

M
M

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Cytochrome c oxidase subunit 1

Cytochrome c oxidase subunit 2

Cytochrome c oxidase subunit 3

Cytochrome c oxidase subunit 4 isoform 1

Cytochrome c oxidase subunit 5A

Cytochrome c oxidase subunit 5B, mitochondrial

Cytochrome c oxidase subunit 6A2

Cytochrome c oxidase subunit 6B1

Cytochrome c oxidase subunit 6C

Cytochrome c oxidase subunit 7A1

Cytochrome c oxidase subunit 7B

Cytochrome c oxidase subunit 7C, mitochondrial

Cytochrome c oxidase subunit 8B

Related Entries With Identical Sequence