SMTL ID : 8rjb.1

Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in complex with Sec61-RAMP4

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

218 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 3 residues within 4Å: Chain M: K.13, N.14 Chain O: G.1400 No protein-ligand interaction detected (PLIP) MG.2: 3 residues within 4Å: Chain O: C.2248, A.2249, A.2250 No protein-ligand interaction detected (PLIP) MG.3: 5 residues within 4Å: Chain O: U.2338, A.2339, A.2340, U.2341, U.2342 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain O: G.2331, C.2333 No protein-ligand interaction detected (PLIP) MG.5: 5 residues within 4Å: Chain O: C.2398, U.2401, G.2402, U.2442, A.2445 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain O: U.2328, C.2329 No protein-ligand interaction detected (PLIP) MG.7: 4 residues within 4Å: Chain O: A.2262, A.2271, G.2325, A.2326 No protein-ligand interaction detected (PLIP) MG.8: 5 residues within 4Å: Chain O: A.1921, U.2174, A.2175, C.2176 Chain a: R.10 No protein-ligand interaction detected (PLIP) MG.9: 4 residues within 4Å: Chain O: U.2180, A.2181, G.2219, U.2220 No protein-ligand interaction detected (PLIP) MG.10: 5 residues within 4Å: Chain O: G.1158, A.1159, G.2185, C.2186, C.2189 No protein-ligand interaction detected (PLIP) MG.11: 3 residues within 4Å: Chain O: A.2068, G.2069, A.2070 No protein-ligand interaction detected (PLIP) MG.12: 3 residues within 4Å: Chain O: U.310, U.2922, U.2923 No protein-ligand interaction detected (PLIP) MG.13: 3 residues within 4Å: Chain O: G.63, A.64 Chain R: R.169 No protein-ligand interaction detected (PLIP) MG.14: 3 residues within 4Å: Chain O: C.344, C.345, G.1735 No protein-ligand interaction detected (PLIP) MG.15: 2 residues within 4Å: Chain O: G.350, A.353 No protein-ligand interaction detected (PLIP) MG.16: 2 residues within 4Å: Chain O: G.376, A.377 No protein-ligand interaction detected (PLIP) MG.17: 4 residues within 4Å: Chain O: A.401, A.404, G.1722, G.1723 No protein-ligand interaction detected (PLIP) MG.18: 2 residues within 4Å: Chain O: G.3275, A.3276 No protein-ligand interaction detected (PLIP) MG.19: 3 residues within 4Å: Chain O: G.223, G.224, A.229 No protein-ligand interaction detected (PLIP) MG.20: 2 residues within 4Å: Chain O: C.3273, A.3274 No protein-ligand interaction detected (PLIP) MG.21: 3 residues within 4Å: Chain O: U.3254, G.3255, A.3256 No protein-ligand interaction detected (PLIP) MG.22: 2 residues within 4Å: Chain O: G.3219, A.3220 No protein-ligand interaction detected (PLIP) MG.23: 4 residues within 4Å: Chain 9: K.52 Chain O: U.3314, U.3315, U.3426 No protein-ligand interaction detected (PLIP) MG.24: 2 residues within 4Å: Chain O: G.1431, A.1432 No protein-ligand interaction detected (PLIP) MG.25: 4 residues within 4Å: Chain O: A.3102, G.3103, A.3122, G.3123 No protein-ligand interaction detected (PLIP) MG.26: 2 residues within 4Å: Chain O: G.2961, G.3017 No protein-ligand interaction detected (PLIP) MG.27: 6 residues within 4Å: Chain O: G.2962, A.2963, U.2964, C.3012, C.3013, U.3014 No protein-ligand interaction detected (PLIP) MG.28: 5 residues within 4Å: Chain O: G.882, A.2573, G.2962, A.2963, U.3014 No protein-ligand interaction detected (PLIP) MG.29: 1 residues within 4Å: Chain O: U.2968 No protein-ligand interaction detected (PLIP) MG.30: 2 residues within 4Å: Chain O: C.2986, G.2987 No protein-ligand interaction detected (PLIP) MG.31: 3 residues within 4Å: Chain O: A.1407, C.3012, C.3013 No protein-ligand interaction detected (PLIP) MG.32: 3 residues within 4Å: Chain O: A.2599, U.3019, G.3020 No protein-ligand interaction detected (PLIP) MG.33: 3 residues within 4Å: Chain O: A.2600, A.2602, G.3020 No protein-ligand interaction detected (PLIP) MG.34: 3 residues within 4Å: Chain O: G.3047, A.3048, A.3049 No protein-ligand interaction detected (PLIP) MG.35: 2 residues within 4Å: Chain O: G.2243, U.2244 No protein-ligand interaction detected (PLIP) MG.36: 2 residues within 4Å: Chain O: A.206, G.207 No protein-ligand interaction detected (PLIP) MG.37: 2 residues within 4Å: Chain O: G.1132, G.1133 No protein-ligand interaction detected (PLIP) MG.38: 5 residues within 4Å: Chain O: C.2623, G.2751, G.2752, G.2753, G.2754 No protein-ligand interaction detected (PLIP) MG.39: 2 residues within 4Å: Chain O: A.2237, G.2238 No protein-ligand interaction detected (PLIP) MG.40: 3 residues within 4Å: Chain O: U.3201, G.3202, G.3232 No protein-ligand interaction detected (PLIP) MG.41: 2 residues within 4Å: Chain O: A.2553, G.2554 No protein-ligand interaction detected (PLIP) MG.42: 4 residues within 4Å: Chain O: C.1138, C.1139, U.1168, C.1169 No protein-ligand interaction detected (PLIP) MG.43: 2 residues within 4Å: Chain O: U.1097, U.2337 No protein-ligand interaction detected (PLIP) MG.44: 2 residues within 4Å: Chain E: Y.186 Chain O: G.1098 No protein-ligand interaction detected (PLIP) MG.45: 3 residues within 4Å: Chain O: A.1092, A.1093, U.1179 No protein-ligand interaction detected (PLIP) MG.46: 1 residues within 4Å: Chain O: G.2146 No protein-ligand interaction detected (PLIP) MG.47: 3 residues within 4Å: Chain O: C.1814, A.1815 Chain T: R.127 No protein-ligand interaction detected (PLIP) MG.48: 2 residues within 4Å: Chain O: C.14, A.15 No protein-ligand interaction detected (PLIP) MG.49: 2 residues within 4Å: Chain O: U.31, G.48 No protein-ligand interaction detected (PLIP) MG.50: 3 residues within 4Å: Chain O: G.48, C.283, U.284 No protein-ligand interaction detected (PLIP) MG.51: 4 residues within 4Å: Chain O: A.65, A.158, C.159, U.321 No protein-ligand interaction detected (PLIP) MG.52: 4 residues within 4Å: Chain O: G.272, A.322, A.323, G.324 No protein-ligand interaction detected (PLIP) MG.53: 2 residues within 4Å: Chain O: A.101, G.102 No protein-ligand interaction detected (PLIP) MG.54: 3 residues within 4Å: Chain O: C.92, G.93, U.2909 No protein-ligand interaction detected (PLIP) MG.55: 1 residues within 4Å: Chain O: C.1393 No protein-ligand interaction detected (PLIP) MG.56: 4 residues within 4Å: Chain O: C.888, A.2598, A.3018, U.3019 No protein-ligand interaction detected (PLIP) MG.57: 4 residues within 4Å: Chain O: C.1225, A.1226, G.1672 Chain U: H.6 No protein-ligand interaction detected (PLIP) MG.58: 6 residues within 4Å: Chain O: A.895, G.896, G.897, C.1738, G.1740, C.1743 No protein-ligand interaction detected (PLIP) MG.59: 3 residues within 4Å: Chain O: C.595, U.1441, U.1442 No protein-ligand interaction detected (PLIP) MG.60: 3 residues within 4Å: Chain O: C.1434, G.1435, G.1670 No protein-ligand interaction detected (PLIP) MG.61: 3 residues within 4Å: Chain O: U.878, C.879, G.1216 No protein-ligand interaction detected (PLIP) MG.62: 3 residues within 4Å: Chain O: A.1752, C.2590, C.3130 No protein-ligand interaction detected (PLIP) MG.63: 3 residues within 4Å: Chain O: U.46, G.48, U.96 No protein-ligand interaction detected (PLIP) MG.64: 2 residues within 4Å: Chain O: C.1153, G.1154 No protein-ligand interaction detected (PLIP) MG.65: 2 residues within 4Å: Chain O: G.1151, C.1153 No protein-ligand interaction detected (PLIP) MG.66: 2 residues within 4Å: Chain O: G.2512, G.3107 No protein-ligand interaction detected (PLIP) MG.67: 4 residues within 4Å: Chain O: A.1755, A.2549, U.2550, A.2591 No protein-ligand interaction detected (PLIP) MG.68: 3 residues within 4Å: Chain O: A.2603, G.2604, G.3017 No protein-ligand interaction detected (PLIP) MG.69: 3 residues within 4Å: Chain O: G.3096, G.3097, G.3098 No protein-ligand interaction detected (PLIP) MG.70: 4 residues within 4Å: Chain O: U.1150, G.1151, U.3095 Chain o: H.245 No protein-ligand interaction detected (PLIP) MG.71: 5 residues within 4Å: Chain O: G.2595, G.2596, U.3090, G.3091, A.3092 No protein-ligand interaction detected (PLIP) MG.72: 3 residues within 4Å: Chain O: U.3032, A.3033, U.3034 No protein-ligand interaction detected (PLIP) MG.73: 2 residues within 4Å: Chain O: G.3083, G.3084 No protein-ligand interaction detected (PLIP) MG.74: 5 residues within 4Å: Chain O: G.417, U.418 Chain n: A.9, G.10, C.11 No protein-ligand interaction detected (PLIP) MG.75: 4 residues within 4Å: Chain O: C.408, G.409, U.410, G.411 No protein-ligand interaction detected (PLIP) MG.76: 4 residues within 4Å: Chain O: A.404, G.409, U.410, G.1723 No protein-ligand interaction detected (PLIP) MG.77: 4 residues within 4Å: Chain O: C.1224, C.1225, A.1671, G.1672 No protein-ligand interaction detected (PLIP) MG.78: 2 residues within 4Å: Chain O: G.422, A.423 No protein-ligand interaction detected (PLIP) MG.79: 6 residues within 4Å: Chain O: U.2394, G.2395, C.2396, A.2444, A.2513, A.2514 No protein-ligand interaction detected (PLIP) MG.80: 3 residues within 4Å: Chain O: G.1792, A.1793, A.2179 No protein-ligand interaction detected (PLIP) MG.81: 6 residues within 4Å: Chain O: A.2236, A.2237, G.2238, G.2239, G.2240, G.2536 No protein-ligand interaction detected (PLIP) MG.82: 1 residues within 4Å: Chain O: A.2480 No protein-ligand interaction detected (PLIP) MG.83: 3 residues within 4Å: Chain O: U.2475, G.2508, G.2512 No protein-ligand interaction detected (PLIP) MG.84: 3 residues within 4Å: Chain 4: G.23 Chain O: G.1240, G.1389 No protein-ligand interaction detected (PLIP) MG.85: 5 residues within 4Å: Chain O: U.900, C.901, G.1075, A.1077, C.1078 No protein-ligand interaction detected (PLIP) MG.86: 3 residues within 4Å: Chain O: U.909, G.910, A.1067 No protein-ligand interaction detected (PLIP) MG.87: 5 residues within 4Å: Chain 4: K.27 Chain O: A.1077, C.1079, C.1080, A.1209 No protein-ligand interaction detected (PLIP) MG.88: 2 residues within 4Å: Chain O: A.1082, G.1210 No protein-ligand interaction detected (PLIP) MG.89: 5 residues within 4Å: Chain 8: D.42 Chain O: G.877, U.878, A.883, A.887 1 PLIP interactions: 1 interactions with chain 8 Metal complexes: 8:D.42 MG.90: 3 residues within 4Å: Chain O: U.1147, U.2342, A.2343 No protein-ligand interaction detected (PLIP) MG.91: 3 residues within 4Å: Chain O: A.2954, C.3116 Chain k: C.75 No protein-ligand interaction detected (PLIP) MG.92: 4 residues within 4Å: Chain O: A.2242, G.2243, U.2244, A.3065 No protein-ligand interaction detected (PLIP) MG.93: 3 residues within 4Å: Chain O: C.2530, A.3065, U.3066 No protein-ligand interaction detected (PLIP) MG.94: 4 residues within 4Å: Chain O: G.3020, G.3091, A.3092, U.3126 No protein-ligand interaction detected (PLIP) MG.95: 3 residues within 4Å: Chain O: C.3088, G.3089, U.3090 No protein-ligand interaction detected (PLIP) MG.96: 2 residues within 4Å: Chain O: A.3234 Chain o: K.373 1 PLIP interactions: 1 interactions with chain o Metal complexes: o:K.373 MG.97: 1 residues within 4Å: Chain O: A.1241 No protein-ligand interaction detected (PLIP) MG.98: 4 residues within 4Å: Chain O: C.1225, G.1247, G.1248 Chain U: N.7 No protein-ligand interaction detected (PLIP) MG.99: 6 residues within 4Å: Chain 4: K.7, G.18 Chain O: A.1386, G.1387, G.1675, G.1676 1 PLIP interactions: 1 interactions with chain 4 Metal complexes: 4:G.18 MG.100: 5 residues within 4Å: Chain 8: D.42 Chain O: U.880, A.883, G.1416, C.1417 No protein-ligand interaction detected (PLIP) MG.101: 3 residues within 4Å: Chain O: A.1092, A.1093 Chain d: Q.30 No protein-ligand interaction detected (PLIP) MG.102: 4 residues within 4Å: Chain G: G.98, G.99 Chain O: A.349, G.350 No protein-ligand interaction detected (PLIP) MG.103: 2 residues within 4Å: Chain O: A.38, U.2612 No protein-ligand interaction detected (PLIP) MG.104: 4 residues within 4Å: Chain O: U.37, A.38, G.40, C.41 No protein-ligand interaction detected (PLIP) MG.105: 5 residues within 4Å: Chain O: U.43, A.44, U.45 Chain R: K.83, V.85 No protein-ligand interaction detected (PLIP) MG.106: 1 residues within 4Å: Chain O: A.1674 No protein-ligand interaction detected (PLIP) MG.107: 2 residues within 4Å: Chain O: A.1759, U.2220 No protein-ligand interaction detected (PLIP) MG.108: 4 residues within 4Å: Chain O: U.1761, A.1762, U.2218, G.2219 No protein-ligand interaction detected (PLIP) MG.109: 3 residues within 4Å: Chain O: C.1785, C.2209, C.2210 No protein-ligand interaction detected (PLIP) MG.110: 2 residues within 4Å: Chain O: A.1793, C.2177 No protein-ligand interaction detected (PLIP) MG.111: 5 residues within 4Å: Chain O: C.879, U.1215, A.1238, G.1390, A.2963 No protein-ligand interaction detected (PLIP) MG.112: 4 residues within 4Å: Chain O: G.1239, G.1389, G.1390, A.2963 No protein-ligand interaction detected (PLIP) MG.113: 3 residues within 4Å: Chain 4: K.24 Chain O: C.879, U.1218 No protein-ligand interaction detected (PLIP) MG.114: 4 residues within 4Å: Chain O: U.315, C.316, G.2924, G.2925 No protein-ligand interaction detected (PLIP) MG.115: 3 residues within 4Å: Chain O: G.409, U.410, G.411 No protein-ligand interaction detected (PLIP) MG.116: 4 residues within 4Å: Chain G: R.97 Chain O: U.348, A.371, A.372 No protein-ligand interaction detected (PLIP) MG.117: 5 residues within 4Å: Chain O: U.374, G.409, U.410 Chain n: U.18, C.19 No protein-ligand interaction detected (PLIP) MG.118: 3 residues within 4Å: Chain O: G.896, G.897, C.1738 No protein-ligand interaction detected (PLIP) MG.119: 6 residues within 4Å: Chain O: G.1423, A.1424, U.1425, G.1426, A.1475, G.1585 No protein-ligand interaction detected (PLIP) MG.120: 3 residues within 4Å: Chain O: C.1802, C.1803, A.1820 No protein-ligand interaction detected (PLIP) MG.121: 3 residues within 4Å: Chain O: C.1838, C.1901, G.1902 No protein-ligand interaction detected (PLIP) MG.122: 2 residues within 4Å: Chain O: G.1906, G.1908 No protein-ligand interaction detected (PLIP) MG.123: 3 residues within 4Å: Chain 9: L.18 Chain O: C.1451, A.1453 No protein-ligand interaction detected (PLIP) MG.124: 4 residues within 4Å: Chain O: G.1085, G.1184, A.2614, G.2615 No protein-ligand interaction detected (PLIP) MG.125: 3 residues within 4Å: Chain O: A.377, G.1723, A.1724 No protein-ligand interaction detected (PLIP) MG.126: 4 residues within 4Å: Chain O: A.347, U.348, A.372, G.373 No protein-ligand interaction detected (PLIP) MG.127: 2 residues within 4Å: Chain O: U.2218, G.2222 No protein-ligand interaction detected (PLIP) MG.128: 2 residues within 4Å: Chain O: C.50, A.51 No protein-ligand interaction detected (PLIP) MG.129: 1 residues within 4Å: Chain O: A.56 No protein-ligand interaction detected (PLIP) MG.130: 3 residues within 4Å: Chain O: A.61, A.62 Chain R: V.155 No protein-ligand interaction detected (PLIP) MG.131: 3 residues within 4Å: Chain O: A.62, G.63, U.327 No protein-ligand interaction detected (PLIP) MG.132: 4 residues within 4Å: Chain O: A.84, G.85, G.941, C.942 No protein-ligand interaction detected (PLIP) MG.133: 2 residues within 4Å: Chain O: A.76, U.77 No protein-ligand interaction detected (PLIP) MG.134: 2 residues within 4Å: Chain O: A.105, A.106 No protein-ligand interaction detected (PLIP) MG.135: 4 residues within 4Å: Chain O: C.112, G.154, C.155, G.156 No protein-ligand interaction detected (PLIP) MG.136: 4 residues within 4Å: Chain O: A.113, G.114, C.115, G.156 No protein-ligand interaction detected (PLIP) MG.137: 2 residues within 4Å: Chain 2: R.45 Chain O: A.192 No protein-ligand interaction detected (PLIP) MG.138: 5 residues within 4Å: Chain O: U.1137, C.1138, C.1169, C.1170, G.1171 No protein-ligand interaction detected (PLIP) MG.139: 2 residues within 4Å: Chain O: G.2604, A.2605 No protein-ligand interaction detected (PLIP) MG.140: 4 residues within 4Å: Chain O: C.1234, C.1235, G.2946, A.2947 No protein-ligand interaction detected (PLIP) MG.141: 6 residues within 4Å: Chain O: A.885, C.886, G.2572, A.2573, A.2574, G.2576 No protein-ligand interaction detected (PLIP) MG.142: 2 residues within 4Å: Chain O: C.1237, G.2610 No protein-ligand interaction detected (PLIP) MG.143: 2 residues within 4Å: Chain O: A.2886, G.2898 No protein-ligand interaction detected (PLIP) MG.144: 4 residues within 4Å: Chain O: U.2609, A.2761, C.2762, U.2763 No protein-ligand interaction detected (PLIP) MG.145: 3 residues within 4Å: Chain O: G.40, C.41, G.2613 No protein-ligand interaction detected (PLIP) MG.146: 2 residues within 4Å: Chain O: G.2613, A.2614 No protein-ligand interaction detected (PLIP) MG.147: 1 residues within 4Å: Chain O: G.2752 No protein-ligand interaction detected (PLIP) MG.148: 4 residues within 4Å: Chain O: U.2617, G.2752, G.2753, G.2754 No protein-ligand interaction detected (PLIP) MG.149: 2 residues within 4Å: Chain O: A.2620, C.2621 No protein-ligand interaction detected (PLIP) MG.150: 4 residues within 4Å: Chain O: U.35, G.1085, G.2756, U.2757 No protein-ligand interaction detected (PLIP) MG.151: 5 residues within 4Å: Chain O: G.1270, U.1271, C.2780, A.2782 Chain X: Y.13 No protein-ligand interaction detected (PLIP) MG.152: 3 residues within 4Å: Chain O: A.2783, C.2784, G.2786 No protein-ligand interaction detected (PLIP) MG.153: 4 residues within 4Å: Chain O: G.2804, G.2852, G.2900, C.2901 No protein-ligand interaction detected (PLIP) MG.154: 4 residues within 4Å: Chain H: A.32 Chain O: A.2808, A.2892, A.2893 No protein-ligand interaction detected (PLIP) MG.155: 3 residues within 4Å: Chain O: G.2809, C.2810, A.2850 No protein-ligand interaction detected (PLIP) MG.156: 4 residues within 4Å: Chain O: A.2954, C.2955, G.3114, A.3115 No protein-ligand interaction detected (PLIP) MG.157: 4 residues within 4Å: Chain E: N.205 Chain O: G.1192, G.3103, A.3104 No protein-ligand interaction detected (PLIP) MG.158: 5 residues within 4Å: Chain E: N.205 Chain O: A.1190, A.1191, G.1192, A.3104 No protein-ligand interaction detected (PLIP) MG.159: 2 residues within 4Å: Chain O: G.872, A.873 No protein-ligand interaction detected (PLIP) MG.160: 2 residues within 4Å: Chain O: A.429, C.2579 No protein-ligand interaction detected (PLIP) MG.161: 1 residues within 4Å: Chain O: G.1611 No protein-ligand interaction detected (PLIP) MG.162: 1 residues within 4Å: Chain O: G.1440 No protein-ligand interaction detected (PLIP) MG.163: 2 residues within 4Å: Chain O: G.1185, G.1186 No protein-ligand interaction detected (PLIP) MG.164: 4 residues within 4Å: Chain O: U.2031, G.2032, G.2080, C.2081 No protein-ligand interaction detected (PLIP) MG.165: 6 residues within 4Å: Chain O: A.2087, A.2089, G.2090, C.2091, G.2109, U.2110 No protein-ligand interaction detected (PLIP) MG.166: 2 residues within 4Å: Chain O: U.1911, A.1928 No protein-ligand interaction detected (PLIP) MG.167: 8 residues within 4Å: Chain O: G.1835, C.1837, C.1838, A.1903, A.1904, G.1906, G.1907, G.1908 No protein-ligand interaction detected (PLIP) MG.168: 4 residues within 4Å: Chain O: U.1836, C.1837, G.1902, A.1903 No protein-ligand interaction detected (PLIP) MG.169: 4 residues within 4Å: Chain O: G.1844, A.1845, C.1857, G.1858 No protein-ligand interaction detected (PLIP) MG.170: 4 residues within 4Å: Chain O: C.1415, G.1419, A.1432, A.1433 No protein-ligand interaction detected (PLIP) MG.171: 1 residues within 4Å: Chain O: A.1671 No protein-ligand interaction detected (PLIP) MG.172: 3 residues within 4Å: Chain O: C.927, G.928, A.929 No protein-ligand interaction detected (PLIP) MG.173: 2 residues within 4Å: Chain O: C.190, G.238 No protein-ligand interaction detected (PLIP) MG.174: 3 residues within 4Å: Chain O: G.219, G.235, U.236 No protein-ligand interaction detected (PLIP) MG.175: 2 residues within 4Å: Chain O: C.214, G.231 No protein-ligand interaction detected (PLIP) MG.176: 2 residues within 4Å: Chain O: U.3201, G.3202 No protein-ligand interaction detected (PLIP) MG.177: 4 residues within 4Å: Chain O: G.3200, U.3201, G.3235, C.3236 No protein-ligand interaction detected (PLIP) MG.178: 2 residues within 4Å: Chain O: G.3199, G.3200 No protein-ligand interaction detected (PLIP) MG.179: 2 residues within 4Å: Chain O: C.3172, G.3173 No protein-ligand interaction detected (PLIP) MG.180: 2 residues within 4Å: Chain O: A.347 Chain n: U.18 No protein-ligand interaction detected (PLIP) MG.181: 3 residues within 4Å: Chain O: U.1704, A.1705 Chain n: A.9 No protein-ligand interaction detected (PLIP) MG.182: 3 residues within 4Å: Chain O: U.225, G.228, A.229 No protein-ligand interaction detected (PLIP) MG.183: 1 residues within 4Å: Chain O: C.276 No protein-ligand interaction detected (PLIP) MG.184: 3 residues within 4Å: Chain O: U.281, G.282 Chain i: G.47 No protein-ligand interaction detected (PLIP) MG.185: 1 residues within 4Å: Chain O: U.285 No protein-ligand interaction detected (PLIP) MG.186: 3 residues within 4Å: Chain O: A.47, G.48, U.285 No protein-ligand interaction detected (PLIP) MG.187: 2 residues within 4Å: Chain O: G.889, G.890 No protein-ligand interaction detected (PLIP) MG.188: 2 residues within 4Å: Chain O: C.2184 Chain f: K.48 No protein-ligand interaction detected (PLIP) MG.189: 2 residues within 4Å: Chain O: C.886, G.2577 No protein-ligand interaction detected (PLIP) MG.190: 3 residues within 4Å: Chain O: G.2596, A.3092, A.3128 No protein-ligand interaction detected (PLIP) MG.191: 2 residues within 4Å: Chain O: A.1755, G.1756 No protein-ligand interaction detected (PLIP) MG.192: 4 residues within 4Å: Chain 4: I.22 Chain O: A.1228, G.1229, G.1416 No protein-ligand interaction detected (PLIP) MG.193: 3 residues within 4Å: Chain O: G.1071, C.1384, U.1385 No protein-ligand interaction detected (PLIP) MG.194: 3 residues within 4Å: Chain O: C.2449, G.2474, U.3108 No protein-ligand interaction detected (PLIP) MG.195: 5 residues within 4Å: Chain O: G.1213, C.1214, A.1238, G.2610, U.2611 No protein-ligand interaction detected (PLIP) MG.196: 4 residues within 4Å: Chain O: G.1229, G.1389, G.1390, G.1391 No protein-ligand interaction detected (PLIP) MG.197: 2 residues within 4Å: Chain O: A.1273, A.1274 No protein-ligand interaction detected (PLIP) MG.198: 2 residues within 4Å: Chain O: U.2975, G.2977 No protein-ligand interaction detected (PLIP) MG.199: 3 residues within 4Å: Chain O: U.3157, C.3281, G.3282 No protein-ligand interaction detected (PLIP) MG.200: 2 residues within 4Å: Chain O: G.3110, G.3112 No protein-ligand interaction detected (PLIP) MG.201: 4 residues within 4Å: Chain O: G.2386, A.2444, A.2445, U.2515 No protein-ligand interaction detected (PLIP) MG.202: 2 residues within 4Å: Chain O: G.24, G.54 No protein-ligand interaction detected (PLIP) MG.203: 2 residues within 4Å: Chain O: U.348 Chain n: A.17 No protein-ligand interaction detected (PLIP) MG.204: 1 residues within 4Å: Chain Z: N.50 No protein-ligand interaction detected (PLIP) MG.205: 1 residues within 4Å: Chain 4: H.25 1 PLIP interactions: 1 interactions with chain 4 Metal complexes: 4:H.25 MG.207: 5 residues within 4Å: Chain O: G.1976 Chain a: G.55, T.70, K.71, H.73 3 PLIP interactions: 3 interactions with chain a Metal complexes: a:G.55, a:T.70, a:H.73 MG.212: 1 residues within 4Å: Chain m: A.42 No protein-ligand interaction detected (PLIP) MG.213: 3 residues within 4Å: Chain N: A.153 Chain m: C.17, C.18 No protein-ligand interaction detected (PLIP) MG.214: 3 residues within 4Å: Chain m: G.21, A.54, A.55 No protein-ligand interaction detected (PLIP) MG.215: 2 residues within 4Å: Chain m: G.64, G.65 No protein-ligand interaction detected (PLIP) MG.216: 1 residues within 4Å: Chain m: A.83 No protein-ligand interaction detected (PLIP) MG.217: 2 residues within 4Å: Chain m: A.22, A.23 No protein-ligand interaction detected (PLIP) MG.218: 3 residues within 4Å: Chain m: G.59, G.110, C.111 No protein-ligand interaction detected (PLIP) MG.219: 1 residues within 4Å: Chain n: C.35 No protein-ligand interaction detected (PLIP) MG.220: 2 residues within 4Å: Chain n: A.65, A.66 No protein-ligand interaction detected (PLIP) MG.221: 2 residues within 4Å: Chain n: U.51, A.52 No protein-ligand interaction detected (PLIP) MG.222: 5 residues within 4Å: Chain n: G.68, U.69, G.87, U.89, C.90 No protein-ligand interaction detected (PLIP) MG.223: 2 residues within 4Å: Chain O: C.1726 Chain n: A.20 No protein-ligand interaction detected (PLIP)

5 x ZN: ZINC ION(Non-covalent)

ZN.206: 6 residues within 4Å: Chain a: S.44, C.46, V.48, C.49, C.83, C.86 4 PLIP interactions: 4 interactions with chain a Metal complexes: a:C.46, a:C.49, a:C.83, a:C.86 ZN.208: 7 residues within 4Å: Chain d: C.19, R.21, C.22, C.34, K.36, C.37, Y.39 4 PLIP interactions: 4 interactions with chain d Metal complexes: d:C.19, d:C.22, d:C.34, d:C.37 ZN.209: 7 residues within 4Å: Chain g: C.70, C.73, A.75, C.84, K.86, C.89, T.92 4 PLIP interactions: 4 interactions with chain g Metal complexes: g:C.70, g:C.73, g:C.84, g:C.89 ZN.210: 8 residues within 4Å: Chain i: C.12, K.14, C.15, Q.19, C.72, E.74, C.77, S.79 4 PLIP interactions: 4 interactions with chain i Metal complexes: i:C.12, i:C.15, i:C.72, i:C.77 ZN.211: 6 residues within 4Å: Chain j: C.39, F.41, C.42, C.57, S.59, C.60 4 PLIP interactions: 4 interactions with chain j Metal complexes: j:C.39, j:C.42, j:C.57, j:C.60

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lewis, A.J.O. et al., Structural analysis of the dynamic ribosome-translocon complex. Elife (2024)

Release Date

2024-01-24

Peptides

Protein transport protein Sec61 subunit alpha isoform 1: A
Protein transport protein Sec61 subunit beta: B
Protein transport protein Sec61 subunit gamma: C
Stress-associated endoplasmic reticulum protein: D
Ribosomal protein L8: E
Nascent chain: F
Large ribosomal subunit protein uL4: G
Ribosomal_L18_c domain-containing protein: H
60S ribosomal protein L6: I
Ribosomal Protein uL30: J
60S ribosomal protein L7a: K
60S ribosomal protein L9: L
60S ribosomal protein L10: M
60S ribosomal protein L11: N
60S ribosomal protein L13: P
60S ribosomal protein L14: Q
Ribosomal protein L15: R
60S ribosomal protein L13: S
uL22: T
Ribosomal protein L26: U
Ribosomal protein L19: V
60S ribosomal protein L18a: W
60S ribosomal protein L21: X
Ribosomal protein L22: Y
Ribosomal protein L23: Z
Ribosomal protein L24: 0
Ribosomal_L23eN domain-containing protein: 1
Ribosomal protein L26: 2
60S ribosomal protein L27: 3
60S ribosomal protein L27a: 4
60S ribosomal protein L29: 5
Large ribosomal subunit protein eL30: 6
60S ribosomal protein L31: 7
Ribosomal protein L32: 8
60S ribosomal protein L35a: 9
60S ribosomal protein L34: a
60S ribosomal protein L35: b
60S ribosomal protein L36: c
Ribosomal protein L37: d
60S ribosomal protein L38: e
60S ribosomal protein L39-like: f
eL40: g
60S ribosomal protein L41: h
60S ribosomal protein L36a-like: i
60S ribosomal protein L37a: j
60S ribosomal protein L28: l
Ribosomal protein L3: o

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

B
2

C
3

D
4

E
A

F
B

G
C

H
D

I
E

J
F

K
G

L
H

M
I

N
J

P
L

Q
M

R
N

S
O

T
P

U
Q

V
R

W
S

X
T

Y
U

Z
V

0
W

1
X

2
Y

3
Z

4
a

5
b

6
c

7
d

8
e

9
f

a
g

b
h

c
i

d
j

e
k

f
l

g
m

h
n

i
o

j
p

l
r

o
w

Membrane

We predict this structure to be a membrane protein.
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Protein transport protein Sec61 subunit alpha isoform 1

Protein transport protein Sec61 subunit beta

Protein transport protein Sec61 subunit gamma

Stress-associated endoplasmic reticulum protein

Ribosomal protein L8

Nascent chain

Large ribosomal subunit protein uL4

Ribosomal_L18_c domain-containing protein

60S ribosomal protein L6

Ribosomal Protein uL30

60S ribosomal protein L7a

60S ribosomal protein L9

60S ribosomal protein L10

60S ribosomal protein L11

60S ribosomal protein L13

60S ribosomal protein L14

Ribosomal protein L15

60S ribosomal protein L13

uL22

Ribosomal protein L26

Ribosomal protein L19

60S ribosomal protein L18a

60S ribosomal protein L21

Ribosomal protein L22

Ribosomal protein L23

Ribosomal protein L24

Ribosomal_L23eN domain-containing protein

Ribosomal protein L26

60S ribosomal protein L27

60S ribosomal protein L27a

60S ribosomal protein L29

Large ribosomal subunit protein eL30

60S ribosomal protein L31

Ribosomal protein L32

60S ribosomal protein L35a

60S ribosomal protein L34

60S ribosomal protein L35

60S ribosomal protein L36

Ribosomal protein L37

60S ribosomal protein L38

60S ribosomal protein L39-like

eL40

60S ribosomal protein L41

60S ribosomal protein L36a-like

60S ribosomal protein L37a

60S ribosomal protein L28

Ribosomal protein L3

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