SMTL ID : 8em4.1

Cryo-EM structure of LRP2 at pH 7.5

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 9 residues within 4Å: Chain A: A.2106, N.2107, F.2109, Y.2111, R.2127, K.2129, I.2177, N.2178 Ligands: NAG.17 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 9 residues within 4Å: Chain B: A.2106, N.2107, F.2109, Y.2111, R.2127, K.2129, I.2177, N.2178 Ligands: NAG.99 No protein-ligand interaction detected (PLIP)

32 x NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose(Post Translational Modification)

NGA.3: 1 residues within 4Å: Chain A: T.1271 Ligand excluded by PLIP NGA.32: 2 residues within 4Å: Chain A: P.64, S.66 Ligand excluded by PLIP NGA.33: 3 residues within 4Å: Chain A: T.221, G.223, T.679 Ligand excluded by PLIP NGA.34: 3 residues within 4Å: Chain A: R.781, Y.1001, T.1022 Ligand excluded by PLIP NGA.35: 2 residues within 4Å: Chain A: T.1065, C.1066 Ligand excluded by PLIP NGA.36: 3 residues within 4Å: Chain A: S.1107, S.1108, T.1109 Ligand excluded by PLIP NGA.37: 2 residues within 4Å: Chain A: T.1149, C.1150 Ligand excluded by PLIP NGA.38: 3 residues within 4Å: Chain A: T.1225, R.1226, P.1227 Ligand excluded by PLIP NGA.39: 3 residues within 4Å: Chain A: G.1410, S.1411, F.1412 Ligand excluded by PLIP NGA.40: 4 residues within 4Å: Chain A: H.2740, T.2741, C.2742, R.2743 Ligand excluded by PLIP NGA.41: 3 residues within 4Å: Chain A: P.3073, T.3076, C.3077 Ligand excluded by PLIP NGA.42: 4 residues within 4Å: Chain A: P.3141, G.3174, S.3175, Y.3176 Ligand excluded by PLIP NGA.43: 2 residues within 4Å: Chain A: T.3799, C.3800 Ligand excluded by PLIP NGA.44: 5 residues within 4Å: Chain A: T.3836, F.3838, P.3839, N.3840, G.3841 Ligand excluded by PLIP NGA.45: 1 residues within 4Å: Chain A: T.1103 Ligand excluded by PLIP NGA.46: 4 residues within 4Å: Chain A: C.3070, H.3071, T.3072, E.3074 Ligand excluded by PLIP NGA.91: 2 residues within 4Å: Chain B: T.1149, C.1150 Ligand excluded by PLIP NGA.94: 4 residues within 4Å: Chain B: H.2740, T.2741, C.2742, R.2743 Ligand excluded by PLIP NGA.101: 2 residues within 4Å: Chain B: P.64, S.66 Ligand excluded by PLIP NGA.110: 5 residues within 4Å: Chain B: T.3836, F.3838, P.3839, N.3840, G.3841 Ligand excluded by PLIP NGA.114: 3 residues within 4Å: Chain B: T.1225, R.1226, P.1227 Ligand excluded by PLIP NGA.115: 1 residues within 4Å: Chain B: T.1271 Ligand excluded by PLIP NGA.118: 3 residues within 4Å: Chain B: G.1410, S.1411, F.1412 Ligand excluded by PLIP NGA.127: 2 residues within 4Å: Chain B: T.1065, C.1066 Ligand excluded by PLIP NGA.129: 3 residues within 4Å: Chain B: S.1107, S.1108, T.1109 Ligand excluded by PLIP NGA.134: 3 residues within 4Å: Chain B: T.221, G.223, T.679 Ligand excluded by PLIP NGA.159: 3 residues within 4Å: Chain B: R.781, Y.1001, T.1022 Ligand excluded by PLIP NGA.169: 4 residues within 4Å: Chain B: C.3070, H.3071, T.3072, E.3074 Ligand excluded by PLIP NGA.171: 1 residues within 4Å: Chain B: T.1103 Ligand excluded by PLIP NGA.172: 2 residues within 4Å: Chain B: T.3799, C.3800 Ligand excluded by PLIP NGA.173: 4 residues within 4Å: Chain B: P.3141, G.3174, S.3175, Y.3176 Ligand excluded by PLIP NGA.176: 3 residues within 4Å: Chain B: P.3073, T.3076, C.3077 Ligand excluded by PLIP

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

NAG.4: 2 residues within 4Å: Chain A: S.339, N.340 Ligand excluded by PLIP NAG.5: 2 residues within 4Å: Chain A: I.377, N.387 Ligand excluded by PLIP NAG.6: 3 residues within 4Å: Chain A: K.446, E.459, N.462 Ligand excluded by PLIP NAG.7: 2 residues within 4Å: Chain A: Q.433, N.657 Ligand excluded by PLIP NAG.8: 2 residues within 4Å: Chain A: P.862, N.865 Ligand excluded by PLIP NAG.9: 1 residues within 4Å: Chain A: N.1187 Ligand excluded by PLIP NAG.10: 1 residues within 4Å: Chain A: N.1384 Ligand excluded by PLIP NAG.11: 4 residues within 4Å: Chain A: N.1436, L.1438, N.1451, Y.1460 Ligand excluded by PLIP NAG.12: 2 residues within 4Å: Chain A: N.1497, T.1499 Ligand excluded by PLIP NAG.13: 1 residues within 4Å: Chain A: N.1551 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain A: N.1676 Ligand excluded by PLIP NAG.15: 4 residues within 4Å: Chain A: N.1733, V.1742, R.1743, Q.1746 Ligand excluded by PLIP NAG.16: 2 residues within 4Å: Chain A: S.1810, N.1811 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain A: S.2133, N.2134 Ligands: NAG-NAG.1 Ligand excluded by PLIP NAG.18: 1 residues within 4Å: Chain A: N.2225 Ligand excluded by PLIP NAG.19: 4 residues within 4Å: Chain A: N.2396, N.2397, G.2420, T.2636 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain A: P.2545, N.2548 Ligand excluded by PLIP NAG.21: 3 residues within 4Å: Chain A: H.3126, N.3127, L.3140 Ligand excluded by PLIP NAG.22: 5 residues within 4Å: Chain A: Y.3202, N.3213, T.3215, S.3220, L.3258 Ligand excluded by PLIP NAG.23: 5 residues within 4Å: Chain A: E.3240, E.3241, F.3257, N.3259, T.3261 Ligand excluded by PLIP NAG.24: 1 residues within 4Å: Chain A: N.3317 Ligand excluded by PLIP NAG.25: 5 residues within 4Å: Chain A: Y.3336, N.3357, T.3359, A.3486, G.3487 Ligand excluded by PLIP NAG.26: 1 residues within 4Å: Chain A: N.3448 Ligand excluded by PLIP NAG.27: 4 residues within 4Å: Chain A: D.3564, N.3566, A.3581, F.3860 Ligand excluded by PLIP NAG.28: 2 residues within 4Å: Chain A: N.3682, H.3683 Ligand excluded by PLIP NAG.29: 4 residues within 4Å: Chain A: F.3838, P.3839, N.3840, A.3846 Ligand excluded by PLIP NAG.30: 6 residues within 4Å: Chain A: L.4057, N.4070, S.4072, S.4073, D.4124, E.4126 Ligand excluded by PLIP NAG.31: 5 residues within 4Å: Chain A: V.4035, D.4036, L.4241, N.4329, V.4332 Ligand excluded by PLIP NAG.89: 1 residues within 4Å: Chain A: N.2488 Ligand excluded by PLIP NAG.90: 5 residues within 4Å: Chain B: V.4035, D.4036, L.4241, N.4329, V.4332 Ligand excluded by PLIP NAG.95: 3 residues within 4Å: Chain B: H.3126, N.3127, L.3140 Ligand excluded by PLIP NAG.97: 1 residues within 4Å: Chain B: N.1187 Ligand excluded by PLIP NAG.98: 1 residues within 4Å: Chain B: N.1676 Ligand excluded by PLIP NAG.99: 3 residues within 4Å: Chain B: S.2133, N.2134 Ligands: NAG-NAG.2 Ligand excluded by PLIP NAG.100: 2 residues within 4Å: Chain B: Q.433, N.657 Ligand excluded by PLIP NAG.103: 1 residues within 4Å: Chain B: N.1384 Ligand excluded by PLIP NAG.106: 4 residues within 4Å: Chain B: F.3838, P.3839, N.3840, A.3846 Ligand excluded by PLIP NAG.107: 2 residues within 4Å: Chain B: N.1497, T.1499 Ligand excluded by PLIP NAG.108: 5 residues within 4Å: Chain B: E.3240, E.3241, F.3257, N.3259, T.3261 Ligand excluded by PLIP NAG.109: 2 residues within 4Å: Chain B: S.1810, N.1811 Ligand excluded by PLIP NAG.111: 2 residues within 4Å: Chain B: P.862, N.865 Ligand excluded by PLIP NAG.112: 4 residues within 4Å: Chain B: N.1733, V.1742, R.1743, Q.1746 Ligand excluded by PLIP NAG.116: 6 residues within 4Å: Chain B: L.4057, N.4070, S.4072, S.4073, D.4124, E.4126 Ligand excluded by PLIP NAG.117: 5 residues within 4Å: Chain B: Y.3202, N.3213, T.3215, S.3220, L.3258 Ligand excluded by PLIP NAG.119: 5 residues within 4Å: Chain B: Y.3336, N.3357, T.3359, A.3486, G.3487 Ligand excluded by PLIP NAG.120: 4 residues within 4Å: Chain B: D.3564, N.3566, A.3581, F.3860 Ligand excluded by PLIP NAG.122: 4 residues within 4Å: Chain B: N.2396, N.2397, G.2420, T.2636 Ligand excluded by PLIP NAG.123: 2 residues within 4Å: Chain B: S.339, N.340 Ligand excluded by PLIP NAG.124: 1 residues within 4Å: Chain B: N.2225 Ligand excluded by PLIP NAG.125: 2 residues within 4Å: Chain B: N.3682, H.3683 Ligand excluded by PLIP NAG.128: 2 residues within 4Å: Chain B: I.377, N.387 Ligand excluded by PLIP NAG.130: 1 residues within 4Å: Chain B: N.3317 Ligand excluded by PLIP NAG.131: 1 residues within 4Å: Chain B: N.2488 Ligand excluded by PLIP NAG.133: 4 residues within 4Å: Chain B: N.1436, L.1438, N.1451, Y.1460 Ligand excluded by PLIP NAG.137: 1 residues within 4Å: Chain B: N.3448 Ligand excluded by PLIP NAG.165: 3 residues within 4Å: Chain B: K.446, E.459, N.462 Ligand excluded by PLIP NAG.167: 2 residues within 4Å: Chain B: P.2545, N.2548 Ligand excluded by PLIP NAG.174: 1 residues within 4Å: Chain B: N.1551 Ligand excluded by PLIP

84 x CA: CALCIUM ION(Non-covalent)

CA.47: 7 residues within 4Å: Chain A: W.45, R.46, D.48, T.50, D.52, D.58, E.59 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.45, A:D.48, A:T.50, A:D.52, A:D.58 CA.48: 7 residues within 4Å: Chain A: W.85, D.88, D.90, D.92, D.98, E.99 Chain B: K.4027 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.85, A:D.88, A:D.92, A:D.98, A:D.98 CA.49: 6 residues within 4Å: Chain A: W.239, D.242, D.244, D.246, D.252, E.253 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.239, A:D.244, A:D.246, A:D.252, A:E.253 CA.50: 7 residues within 4Å: Chain A: K.283, V.284, D.286, V.288, D.290, D.296, E.297 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.286, A:V.288, A:D.290, A:D.296, A:E.297 CA.51: 6 residues within 4Å: Chain A: F.1042, D.1045, V.1047, D.1049, D.1055, E.1056 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:F.1042, A:D.1045, A:V.1047, A:D.1049, A:D.1055, A:E.1056 CA.52: 6 residues within 4Å: Chain A: W.1084, D.1087, Q.1089, D.1091, D.1097, E.1098 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:W.1084, A:D.1087, A:Q.1089, A:D.1091, A:D.1097, A:E.1098 CA.53: 7 residues within 4Å: Chain A: W.1127, V.1128, D.1130, D.1132, D.1134, D.1140, E.1141 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.1127, A:V.1128, A:D.1130, A:D.1134, A:D.1140 CA.54: 6 residues within 4Å: Chain A: Y.1167, D.1170, D.1172, D.1174, D.1180, E.1181 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:Y.1167, A:D.1170, A:D.1172, A:D.1174, A:D.1180 CA.55: 6 residues within 4Å: Chain A: Y.1206, D.1209, V.1211, D.1213, D.1219, E.1220 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:Y.1206, A:D.1209, A:V.1211, A:D.1213, A:D.1219, A:E.1220 CA.56: 7 residues within 4Å: Chain A: R.846, W.1249, D.1252, H.1254, D.1256, D.1262, E.1263 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.1249, A:H.1254, A:D.1256, A:D.1262, A:E.1263 CA.57: 6 residues within 4Å: Chain A: W.2718, D.2721, D.2723, D.2725, D.2731, E.2732 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.2721, A:D.2723, A:D.2725, A:D.2731, A:E.2732 CA.58: 7 residues within 4Å: Chain A: Y.2759, D.2762, Y.2764, N.2765, D.2766, D.2772, E.2773 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:Y.2759, A:D.2762, A:D.2766, A:D.2772, A:E.2773 CA.59: 7 residues within 4Å: Chain A: Y.3051, C.3053, D.3054, D.3056, D.3058, D.3064, E.3065 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:Y.3051, A:D.3054, A:D.3058, A:D.3064, A:E.3065 CA.60: 7 residues within 4Å: Chain A: T.3094, C.3096, N.3097, V.3099, D.3101, D.3107, E.3108 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:T.3094, A:V.3099, A:D.3101, A:D.3101, A:E.3108 CA.61: 7 residues within 4Å: Chain A: W.3532, K.3533, D.3535, Q.3537, D.3539, D.3545, E.3546 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.3532, A:Q.3537, A:D.3539, A:D.3545, A:E.3546 CA.62: 6 residues within 4Å: Chain A: A.3572, N.3575, R.3577, D.3579, D.3585, E.3586 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:A.3572, A:R.3577, A:D.3579, A:D.3585, A:E.3586 CA.63: 7 residues within 4Å: Chain A: W.3613, Q.3614, D.3616, V.3618, D.3620, D.3626, E.3627 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.3613, A:D.3616, A:V.3618, A:D.3620, A:D.3626 CA.64: 6 residues within 4Å: Chain A: W.3654, D.3657, D.3659, D.3661, D.3667, E.3668 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.3654, A:D.3659, A:D.3661, A:D.3667, A:E.3668 CA.65: 6 residues within 4Å: Chain A: A.3699, N.3702, F.3704, D.3706, D.3712, E.3713 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:A.3699, A:F.3704, A:D.3706, A:D.3712, A:E.3713 CA.66: 6 residues within 4Å: Chain A: W.3739, D.3742, I.3744, D.3746, D.3752, E.3753 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.3742, A:I.3744, A:D.3746, A:D.3752, A:E.3753 CA.67: 6 residues within 4Å: Chain A: W.3778, D.3781, E.3783, D.3785, D.3791, E.3792 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.3778, A:D.3781, A:E.3783, A:D.3785, A:E.3792 CA.68: 6 residues within 4Å: Chain A: L.3817, D.3820, R.3822, D.3824, D.3830, E.3831 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:L.3817, A:D.3820, A:R.3822, A:D.3824, A:E.3831 CA.69: 6 residues within 4Å: Chain A: W.3861, D.3864, E.3866, D.3868, D.3874, E.3875 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:W.3861, A:D.3864, A:E.3866, A:D.3868, A:E.3875 CA.70: 7 residues within 4Å: Chain A: D.1391, V.1392, E.1394, N.1407, M.1408, G.1410, S.1411 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.1391, A:V.1392, A:E.1394, A:M.1408, A:S.1411 CA.71: 7 residues within 4Å: Chain A: I.3113, E.3115, D.3130, T.3131, I.3132, T.3133, S.3134 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:I.3113, A:E.3115, A:D.3130, A:T.3131, A:S.3134 CA.72: 6 residues within 4Å: Chain A: D.3154, I.3155, E.3157, N.3171, V.3172, S.3175 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.3154, A:I.3155, A:E.3157, A:E.3157, A:S.3175 CA.73: 6 residues within 4Å: Chain A: D.4009, I.4010, E.4012, N.4025, S.4026, S.4029 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.4009, A:I.4010, A:E.4012, A:S.4026, A:S.4029 CA.74: 5 residues within 4Å: Chain A: S.575, D.578, P.601, T.1131, D.1132 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:S.575, A:D.578, A:P.601, A:T.1131 CA.75: 3 residues within 4Å: Chain A: A.888, D.891, T.913 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:A.888, A:D.891, A:D.891, A:T.913 CA.76: 3 residues within 4Å: Chain A: A.1618, D.1621, H.1644 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:A.1618, A:D.1621, A:D.1621, A:H.1644 CA.77: 5 residues within 4Å: Chain A: D.2254, D.2257, P.2279 Chain B: E.1982, N.2001 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.2254, A:D.2257, A:P.2279 CA.78: 3 residues within 4Å: Chain A: A.3291, D.3294, E.3323 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:A.3291, A:D.3294, A:E.3323 CA.79: 2 residues within 4Å: Chain A: D.3344, E.3367 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.3344, A:E.3367 CA.80: 3 residues within 4Å: Chain A: D.242, D.244, D.246 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.242, A:D.244, A:D.246, A:D.246 CA.81: 2 residues within 4Å: Chain A: D.1045, D.1049 No protein-ligand interaction detected (PLIP) CA.82: 3 residues within 4Å: Chain A: D.1130, D.1134, Y.1167 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.1130 CA.83: 3 residues within 4Å: Chain A: D.3054, D.3056, D.3058 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.3054, A:D.3056 CA.84: 4 residues within 4Å: Chain A: W.3613, D.3616, V.3618, D.3620 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.3616, A:D.3620 CA.85: 3 residues within 4Å: Chain A: W.3654, D.3659, D.3661 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.3659 CA.86: 2 residues within 4Å: Chain A: W.3739, D.3746 No protein-ligand interaction detected (PLIP) CA.87: 3 residues within 4Å: Chain A: D.3781, E.3783, D.3785 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.3783 CA.88: 2 residues within 4Å: Chain A: W.3861, D.3868 No protein-ligand interaction detected (PLIP) CA.92: 7 residues within 4Å: Chain B: K.283, V.284, D.286, V.288, D.290, D.296, E.297 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.286, B:V.288, B:D.290, B:D.296, B:E.297 CA.93: 7 residues within 4Å: Chain B: W.45, R.46, D.48, T.50, D.52, D.58, E.59 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.45, B:D.48, B:T.50, B:D.52, B:D.58 CA.96: 3 residues within 4Å: Chain B: D.3781, E.3783, D.3785 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.3783 CA.102: 6 residues within 4Å: Chain B: D.3154, I.3155, E.3157, N.3171, V.3172, S.3175 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.3154, B:I.3155, B:E.3157, B:E.3157, B:S.3175 CA.104: 3 residues within 4Å: Chain B: A.1618, D.1621, H.1644 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:A.1618, B:D.1621, B:D.1621, B:H.1644 CA.105: 2 residues within 4Å: Chain B: D.1045, D.1049 No protein-ligand interaction detected (PLIP) CA.113: 7 residues within 4Å: Chain B: R.846, W.1249, D.1252, H.1254, D.1256, D.1262, E.1263 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.1249, B:H.1254, B:D.1256, B:D.1262, B:E.1263 CA.121: 3 residues within 4Å: Chain B: D.242, D.244, D.246 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.242, B:D.244, B:D.246, B:D.246 CA.126: 5 residues within 4Å: Chain A: E.1982, N.2001 Chain B: D.2254, D.2257, P.2279 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.2254, B:D.2257, B:P.2279 CA.132: 2 residues within 4Å: Chain B: W.3861, D.3868 No protein-ligand interaction detected (PLIP) CA.135: 2 residues within 4Å: Chain B: W.3739, D.3746 No protein-ligand interaction detected (PLIP) CA.136: 3 residues within 4Å: Chain B: W.3654, D.3659, D.3661 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.3659 CA.138: 4 residues within 4Å: Chain B: W.3613, D.3616, V.3618, D.3620 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.3616, B:D.3620 CA.139: 3 residues within 4Å: Chain B: D.3054, D.3056, D.3058 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.3054, B:D.3056 CA.140: 3 residues within 4Å: Chain B: D.1130, D.1134, Y.1167 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.1130 CA.141: 5 residues within 4Å: Chain B: S.575, D.578, P.601, T.1131, D.1132 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:S.575, B:D.578, B:P.601, B:T.1131 CA.142: 6 residues within 4Å: Chain B: D.4009, I.4010, E.4012, N.4025, S.4026, S.4029 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.4009, B:I.4010, B:E.4012, B:S.4026, B:S.4029 CA.143: 7 residues within 4Å: Chain B: I.3113, E.3115, D.3130, T.3131, I.3132, T.3133, S.3134 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:I.3113, B:E.3115, B:D.3130, B:T.3131, B:S.3134 CA.144: 7 residues within 4Å: Chain B: D.1391, V.1392, E.1394, N.1407, M.1408, G.1410, S.1411 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.1391, B:V.1392, B:E.1394, B:M.1408, B:S.1411 CA.145: 6 residues within 4Å: Chain B: W.3861, D.3864, E.3866, D.3868, D.3874, E.3875 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.3861, B:D.3864, B:E.3866, B:D.3868, B:E.3875 CA.146: 2 residues within 4Å: Chain B: D.3344, E.3367 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.3344, B:E.3367 CA.147: 6 residues within 4Å: Chain B: L.3817, D.3820, R.3822, D.3824, D.3830, E.3831 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:L.3817, B:D.3820, B:R.3822, B:D.3824, B:E.3831 CA.148: 6 residues within 4Å: Chain B: W.3778, D.3781, E.3783, D.3785, D.3791, E.3792 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.3778, B:D.3781, B:E.3783, B:D.3785, B:E.3792 CA.149: 6 residues within 4Å: Chain B: W.3739, D.3742, I.3744, D.3746, D.3752, E.3753 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.3742, B:I.3744, B:D.3746, B:D.3752, B:E.3753 CA.150: 6 residues within 4Å: Chain B: A.3699, N.3702, F.3704, D.3706, D.3712, E.3713 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:A.3699, B:F.3704, B:D.3706, B:D.3712, B:E.3713 CA.151: 6 residues within 4Å: Chain B: W.3654, D.3657, D.3659, D.3661, D.3667, E.3668 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.3654, B:D.3659, B:D.3661, B:D.3667, B:E.3668 CA.152: 7 residues within 4Å: Chain B: W.3613, Q.3614, D.3616, V.3618, D.3620, D.3626, E.3627 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.3613, B:D.3616, B:V.3618, B:D.3620, B:D.3626 CA.153: 6 residues within 4Å: Chain B: A.3572, N.3575, R.3577, D.3579, D.3585, E.3586 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:A.3572, B:R.3577, B:D.3579, B:D.3585, B:E.3586 CA.154: 7 residues within 4Å: Chain B: T.3094, C.3096, N.3097, V.3099, D.3101, D.3107, E.3108 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:T.3094, B:V.3099, B:D.3101, B:D.3101, B:E.3108 CA.155: 7 residues within 4Å: Chain B: W.3532, K.3533, D.3535, Q.3537, D.3539, D.3545, E.3546 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.3532, B:Q.3537, B:D.3539, B:D.3545, B:E.3546 CA.156: 7 residues within 4Å: Chain B: Y.3051, C.3053, D.3054, D.3056, D.3058, D.3064, E.3065 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:Y.3051, B:D.3054, B:D.3058, B:D.3064, B:E.3065 CA.157: 6 residues within 4Å: Chain B: W.2718, D.2721, D.2723, D.2725, D.2731, E.2732 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.2721, B:D.2723, B:D.2725, B:D.2731, B:E.2732 CA.158: 7 residues within 4Å: Chain B: Y.2759, D.2762, Y.2764, N.2765, D.2766, D.2772, E.2773 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:Y.2759, B:D.2762, B:D.2766, B:D.2772, B:E.2773 CA.160: 3 residues within 4Å: Chain B: A.3291, D.3294, E.3323 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:A.3291, B:D.3294, B:E.3323 CA.161: 7 residues within 4Å: Chain B: W.1127, V.1128, D.1130, D.1132, D.1134, D.1140, E.1141 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.1127, B:V.1128, B:D.1130, B:D.1134, B:D.1140 CA.162: 6 residues within 4Å: Chain B: Y.1167, D.1170, D.1172, D.1174, D.1180, E.1181 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:Y.1167, B:D.1170, B:D.1172, B:D.1174, B:D.1180 CA.163: 6 residues within 4Å: Chain B: F.1042, D.1045, V.1047, D.1049, D.1055, E.1056 6 PLIP interactions: 6 interactions with chain B Metal complexes: B:F.1042, B:D.1045, B:V.1047, B:D.1049, B:D.1055, B:E.1056 CA.164: 6 residues within 4Å: Chain B: W.1084, D.1087, Q.1089, D.1091, D.1097, E.1098 6 PLIP interactions: 6 interactions with chain B Metal complexes: B:W.1084, B:D.1087, B:Q.1089, B:D.1091, B:D.1097, B:E.1098 CA.166: 6 residues within 4Å: Chain B: W.239, D.242, D.244, D.246, D.252, E.253 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.239, B:D.244, B:D.246, B:D.252, B:E.253 CA.168: 7 residues within 4Å: Chain A: K.4027 Chain B: W.85, D.88, D.90, D.92, D.98, E.99 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:W.85, B:D.88, B:D.92, B:D.98, B:D.98 CA.170: 6 residues within 4Å: Chain B: Y.1206, D.1209, V.1211, D.1213, D.1219, E.1220 6 PLIP interactions: 6 interactions with chain B Metal complexes: B:Y.1206, B:D.1209, B:V.1211, B:D.1213, B:D.1219, B:E.1220 CA.175: 3 residues within 4Å: Chain B: A.888, D.891, T.913 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:A.888, B:D.891, B:D.891, B:T.913

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Beenken, A. et al., Structures of LRP2 reveal a molecular machine for endocytosis. Cell (2023)

Release Date

2023-02-08

Peptides

Low-density lipoprotein receptor-related protein 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Low-density lipoprotein receptor-related protein 2

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