6N8N

Cryo-EM structure of Lsg1-engaged (LE) pre-60S ribosomal subunit


Sequence Similarity Clusters for the Entities in PDB 6N8N

Entity #1 | Chains: A
Saccharomyces cerevisiae S288C 35S pre-ribosomal RNA (RDN37-1), miscRNA rna, length: 3396 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: F
60S ribosomal protein L4-A protein, length: 362 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 95 250
95 % 54 99 317
90 % 54 99 329
70 % 54 100 369
50 % 67 143 339
40 % 68 179 261
30 % 68 179 277
Entity #11 | Chains: G
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 85 297
95 % 54 87 384
90 % 54 87 402
70 % 54 88 434
50 % 67 164 291
40 % 68 166 295
30 % 68 166 310
Entity #12 | Chains: H
60S ribosomal protein L6-A protein, length: 176 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 95 255
95 % 54 95 345
90 % 54 96 354
70 % 54 97 380
50 % 55 98 440
40 % 56 102 447
30 % 56 102 463
Entity #13 | Chains: I
60S ribosomal protein L7-A protein, length: 244 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 95 252
95 % 54 95 346
90 % 54 95 358
70 % 54 97 383
50 % 67 167 279
40 % 67 167 294
30 % 67 166 316
Entity #14 | Chains: J
60S ribosomal protein L8-A protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 50 91 300
95 % 57 98 342
90 % 57 98 359
70 % 57 99 391
50 % 70 152 332
40 % 70 154 340
30 % 70 154 350
Entity #15 | Chains: K
60S ribosomal protein L9-A protein, length: 191 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 94 259
95 % 54 94 349
90 % 54 94 360
70 % 54 95 394
50 % 67 174 267
40 % 68 176 271
30 % 136 247 201
Entity #16 | Chains: M
60S ribosomal protein L11-A protein, length: 174 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 31 67 476
95 % 54 90 368
90 % 54 91 377
70 % 68 167 256
50 % 70 171 265
40 % 141 247 195
30 % 141 247 200
Entity #17 | Chains: N
60S ribosomal protein L13-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 93 267
95 % 53 93 363
90 % 53 93 375
70 % 53 94 409
50 % 53 94 461
40 % 66 164 308
30 % 66 164 322
Entity #18 | Chains: O
60S ribosomal protein L14-A protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 95 251
95 % 54 95 340
90 % 54 95 356
70 % 54 96 386
50 % 54 96 452
40 % 54 96 478
30 % 54 96 502
Entity #19 | Chains: Q
60S ribosomal protein L42-A protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 86 296
95 % 54 86 395
90 % 54 87 400
70 % 66 158 271
50 % 68 165 286
40 % 68 166 296
30 % 68 166 311
Entity #2 | Chains: B
5S rRNA rna, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: R
60S ribosomal protein L43-A protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 86 294
95 % 54 86 394
90 % 54 86 410
70 % 54 87 439
50 % 67 165 284
40 % 68 166 298
30 % 90 189 253
Entity #21 | Chains: S
Ribosomal Protein uL1 protein, length: 217 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #22 | Chains: a
60S ribosomal protein L15-A protein, length: 204 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 97 247
95 % 55 99 325
90 % 55 99 338
70 % 67 164 261
50 % 69 178 250
40 % 69 178 266
30 % 69 178 285
Entity #23 | Chains: b
60S ribosomal protein L16-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 87 292
95 % 48 87 387
90 % 54 94 361
70 % 54 95 395
50 % 67 166 282
40 % 67 167 292
30 % 67 167 309
Entity #24 | Chains: c
60S ribosomal protein L17-A protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 98 236
95 % 53 98 326
90 % 53 99 335
70 % 53 99 375
50 % 67 176 253
40 % 67 176 272
30 % 67 176 289
Entity #25 | Chains: d
60S ribosomal protein L18-A protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 95 253
95 % 54 95 344
90 % 54 96 352
70 % 54 96 390
50 % 66 167 295
40 % 66 172 286
30 % 66 172 305
Entity #26 | Chains: e
60S ribosomal protein L19-A protein, length: 189 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 51 89 279
95 % 51 89 378
90 % 51 89 392
70 % 51 91 418
50 % 65 165 293
40 % 65 166 301
30 % 65 166 318
Entity #27 | Chains: f
60S ribosomal protein L20-A protein, length: 172 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 93 266
95 % 53 93 362
90 % 53 94 367
70 % 53 94 406
50 % 65 157 323
40 % 66 158 329
30 % 66 159 337
Entity #28 | Chains: g
60S ribosomal protein L21-A protein, length: 160 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 89 280
95 % 54 89 379
90 % 54 90 382
70 % 54 90 422
50 % 66 156 324
40 % 66 162 322
30 % 68 169 303
Entity #29 | Chains: h
60S ribosomal protein L22-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 38 68 415
95 % 38 68 548
90 % 38 68 574
70 % 38 68 628
50 % 38 68 670
40 % 38 68 703
30 % 39 69 704
Entity #3 | Chains: C
5.8S rRNA rna, length: 158 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #30 | Chains: i
60S ribosomal protein L23-A protein, length: 137 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 96 242
95 % 54 96 335
90 % 54 97 342
70 % 68 178 233
50 % 68 179 241
40 % 68 179 262
30 % 68 179 278
Entity #31 | Chains: j
60S ribosomal protein L24-A protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 40 63 419
95 % 40 63 561
90 % 40 63 581
70 % 40 63 634
50 % 40 63 674
40 % 40 101 491
30 % 40 101 514
Entity #32 | Chains: k
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 39 73 391
95 % 39 73 513
90 % 39 73 543
70 % 39 73 581
50 % 39 73 609
40 % 39 75 638
30 % 39 76 658
Entity #33 | Chains: l
60S ribosomal protein L26-A protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 100 231
95 % 54 100 316
90 % 54 101 327
70 % 54 101 367
50 % 67 173 260
40 % 67 173 279
30 % 67 173 295
Entity #34 | Chains: m
60S ribosomal protein L27-A protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 89 285
95 % 53 89 381
90 % 53 90 393
70 % 53 90 429
50 % 65 152 333
40 % 66 165 302
30 % 67 167 314
Entity #35 | Chains: n
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 87 293
95 % 54 90 367
90 % 54 91 379
70 % 54 91 414
50 % 67 169 272
40 % 68 170 285
30 % 68 172 299
Entity #36 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 81 309
95 % 53 81 412
90 % 53 82 429
70 % 53 82 464
50 % 53 82 498
40 % 53 82 530
30 % 53 82 549
Entity #37 | Chains: p
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 95 245
95 % 56 95 338
90 % 56 96 344
70 % 56 96 379
50 % 69 136 351
40 % 69 136 369
30 % 69 136 377
Entity #38 | Chains: q
60S ribosomal protein L31-A protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 93 262
95 % 54 93 353
90 % 54 93 368
70 % 54 94 399
50 % 67 166 281
40 % 67 166 297
30 % 67 166 313
Entity #39 | Chains: r
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 96 248
95 % 54 96 339
90 % 54 96 355
70 % 54 97 384
50 % 68 170 269
40 % 68 174 274
30 % 68 175 290
Entity #4 | Chains: Y
Tyrosine-protein phosphatase YVH1 protein, length: 364 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 4 5 18468
95 % 4 5 17644
90 % 4 5 17314
70 % 4 5 16181
50 % 4 5 14557
40 % 4 5 13537
30 % 4 5 12299
Entity #40 | Chains: s
60S ribosomal protein L33-A protein, length: 107 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 94 260
95 % 53 94 351
90 % 53 94 365
70 % 53 95 396
50 % 65 162 308
40 % 66 164 318
30 % 66 164 330
Entity #41 | Chains: t
60S ribosomal protein L34-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 89 282
95 % 53 89 380
90 % 53 89 396
70 % 53 90 425
50 % 65 151 334
40 % 65 151 348
30 % 65 151 358
Entity #42 | Chains: u
60S ribosomal protein L35-A protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 99 232
95 % 54 99 319
90 % 54 99 330
70 % 54 100 371
50 % 66 168 287
40 % 67 179 260
30 % 68 181 271
Entity #43 | Chains: v
60S ribosomal protein L36-A protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 90 278
95 % 53 94 355
90 % 53 94 369
70 % 53 95 400
50 % 53 95 455
40 % 66 159 324
30 % 66 159 338
Entity #44 | Chains: w
60S ribosomal protein L37-A protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 96 246
95 % 54 96 332
90 % 54 96 347
70 % 54 128 314
50 % 67 174 258
40 % 67 174 276
30 % 67 174 291
Entity #45 | Chains: x
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 89 284
95 % 53 89 382
90 % 53 89 398
70 % 53 90 433
50 % 53 90 471
40 % 54 97 469
30 % 54 97 487
Entity #46 | Chains: y
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 92 268
95 % 54 92 358
90 % 54 92 376
70 % 66 158 273
50 % 67 170 270
40 % 67 172 281
30 % 68 173 296
Entity #47 | Chains: z
Ubiquitin-60S ribosomal protein L40 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 9 31 1541
95 % 9 31 2048
90 % 10 54 1098
70 % 10 57 1041
50 % 10 57 1089
40 % 10 57 1117
30 % 10 57 1159
Entity #48 | Chains: L
Ribosomal protein L12 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 4 28185
95 % 3 4 19300
90 % 3 4 19689
70 % 3 4 21393
50 % 13 64 1044
40 % 13 64 1078
30 % 13 64 1119
Entity #5 | Chains: X
Eukaryotic translation initiation factor 6 protein, length: 245 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 15 31 1675
95 % 15 31 2214
90 % 15 31 2273
70 % 16 32 2271
50 % 18 36 1785
40 % 18 36 1841
30 % 19 38 1714
Entity #6 | Chains: W
Large subunit GTPase 1 protein, length: 640 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 6 7 12829
95 % 6 7 12724
90 % 6 8 11254
70 % 6 8 10754
50 % 6 8 9905
40 % 6 8 9364
30 % 6 8 8684
Entity #7 | Chains: V
60S ribosomal export protein NMD3 protein, length: 518 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 9 11 7105
95 % 9 11 7739
90 % 9 11 7474
70 % 9 11 7520
50 % 9 11 6906
40 % 9 11 6845
30 % 9 11 6403
Entity #8 | Chains: D
60S ribosomal protein L2-A protein, length: 254 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 89 273
95 % 54 89 371
90 % 54 90 383
70 % 66 155 276
50 % 67 168 274
40 % 135 239 198
30 % 135 239 207
Entity #9 | Chains: E
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 52 93 270
95 % 54 95 343
90 % 54 96 353
70 % 54 96 392
50 % 69 179 239
40 % 69 179 259
30 % 69 181 270

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.

You can also use the structure comparison tool to compare any 2 given structures


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 4V88 43 BE, DE 60S ribosomal protein L6-A 4932
2 4U4R 43 L6, l6 60S ribosomal protein L6-A 4932
3 4U3U 43 L6, l6 60S ribosomal protein L6-A 4932
4 5TBW 8 CH, n 60S ribosomal protein L6-A 4932
5 4U3M 43 L6, l6 60S ribosomal protein L6-A 4932
6 4U3N 43 L6, l6 60S ribosomal protein L6-A 4932
7 4U52 43 L6, l6 60S ribosomal protein L6-A 4932
8 4U4Q 43 L6, l6 60S ribosomal protein L6-A 4932
9 4U6F 43 L6, l6 60S ribosomal protein L6-A 4932
10 4U4U 43 L6, l6 60S ribosomal protein L6-A 4932
11 4U4Z 43 L6, l6 60S ribosomal protein L6-A 4932
12 4U4Y 43 L6, l6 60S ribosomal protein L6-A 4932
13 4U4N 43 L6, l6 60S ribosomal protein L6-A 4932
14 4U55 43 L6, l6 60S ribosomal protein L6-A 4932
15 5DAT 43 L6, l6 60S ribosomal protein L6-A 4932
16 5I4L 43 L6, l6 60S ribosomal protein L6-A 4932
17 4U51 43 L6, l6 60S ribosomal protein L6-A 4932
18 6HHQ 8 CH, n 60S ribosomal protein L6-A 4932
19 5OBM 8 L6, l6 60S ribosomal protein L6-A 4932
20 4U53 43 L6, l6 60S ribosomal protein L6-A 4932
21 5ON6 8 CH, n 60S ribosomal protein L6-A 4932
22 4U50 43 L6, l6 60S ribosomal protein L6-A 4932
23 5NDV 8 L6, l6 60S ribosomal protein L6-A 4932
24 5LYB 43 L6, l6 60S ribosomal protein L6-A 4932
25 4U56 43 L6, l6 60S ribosomal protein L6-A 4932
26 5TGA 43 L6, l6 60S ribosomal protein L6-A 4932
27 5MEI 8 CH, n 60S ribosomal protein L6-A 4932
28 5FCJ 43 L6, l6 60S ribosomal protein L6-A 4932
29 4U4O 43 L6, l6 60S ribosomal protein L6-A 4932
30 5DGV 43 L6, l6 60S ribosomal protein L6-A 4932
31 5DGE 43 L6, l6 60S ribosomal protein L6-A 4932
32 5NDW 31 L6, l6 60S ribosomal protein L6-A 4932
33 5NDG 43 L6, l6 60S ribosomal protein L6-A 4932
34 5FCI 43 L6, l6 60S ribosomal protein L6-A 4932
35 5DC3 43 L6, l6 60S ribosomal protein L6-A 4932
36 5DGF 43 L6, l6 60S ribosomal protein L6-A 4932
37 5TGM 43 L6, l6 60S ribosomal protein L6-A 4932
38 4V7R 37 BF, DF 60S ribosomal protein L6-A 4932
39 6S47 8 AH 60S ribosomal protein L6-A 4932
40 6RZZ 7 G 60S ribosomal protein L6-A 4932
41 6S05 7 G 60S ribosomal protein L6-A 4932
42 6RI5 7 G 60S ribosomal protein L6-A 4932
43 6R84 48 I 60S ribosomal protein L6-A 4932
44 6R86 46 I 60S ribosomal protein L6-A 4932
45 6R87 47 I 60S ribosomal protein L6-A 4932
46 6QTZ 7 G 60S ribosomal protein L6-A 4932
47 6QT0 7 G 60S ribosomal protein L6-A 4932
48 6QIK 7 G 60S ribosomal protein L6-A 4932
49 6Q8Y 50 BM 60S ribosomal protein L6-A 4932
50 6N8J 10 E 60S ribosomal protein L6-A 4932
51 6N8K 10 E 60S ribosomal protein L6-A 4932
52 6N8L 10 E 60S ribosomal protein L6-A 4932
53 6N8M 9 H 60S ribosomal protein L6-A 4932
54 6N8N 12 H 60S ribosomal protein L6-A 4932
55 6N8O 13 H 60S ribosomal protein L6-A 4932
56 6I7O 8 BM, YM 60S ribosomal protein L6-A 4932
57 6HD7 12 I 60S ribosomal protein L6-A 4932
58 6GQV 10 E 60S ribosomal protein L6-A 4932
59 6GQ1 10 E 60S ribosomal protein L6-A 4932
60 6GQB 10 E 60S ribosomal protein L6-A 4932
61 6FT6 6 E 60S ribosomal protein L6-A 4932
62 6CB1 7 E 60S ribosomal protein L6-A 4932
63 5Z3G 9 I 60S ribosomal protein L6-A 4932
64 6C0F 8 E 60S ribosomal protein L6-A 4932
65 6EM1 19 E 60S ribosomal protein L6-A 4932
66 6EM3 11 E 60S ribosomal protein L6-A Backbone model 4932
67 6EM4 14 E 60S ribosomal protein L6-A Backbone model 4932
68 6EM5 20 E 60S ribosomal protein L6-A Backbone model 4932
69 6ELZ 52 E 60S ribosomal protein L6-A 4932
70 5MC6 79 BM 60S ribosomal protein L6-A 4932
71 5H4P 8 E 60S ribosomal protein L6-A 4932
72 5M1J 78 E5 60S ribosomal protein L6-A 4932
73 5T62 9 H 60S ribosomal protein L6-A 4932
74 5T6R 8 H 60S ribosomal protein L6-A 4932
75 5JUO 10 J eL6 (yeast L6) 4932
76 5JUP 10 J eL6 (yeast L6) 4932
77 5JUS 10 J eL6 (yeast L6) 4932
78 5JUT 10 J eL6 (yeast L6) 4932
79 5JUU 10 J eL6 (yeast L6) 4932
80 5JCS 9 E 60S ribosomal protein L6-A 4932
81 3JCT 5 E 60S ribosomal protein L6-A 4932
82 5GAK 23 I 60S ribosomal protein L6-A 4932
83 5FL8 5 E 60S ribosomal protein L6-A 4932
84 3JBS 1 A eL6 4932
85 5APN 8 E 60S ribosomal protein L6-A 4932
86 3J77 6 L6 60S ribosomal protein L6 4932
87 3J78 6 L6 60S ribosomal protein L6 4932
88 3J6X 9 L6 60S ribosomal protein L6 4932
89 3J6Y 9 L6 60S ribosomal protein L6 4932
90 4V91 8 E EL6 RIBOSOMAL PROTEIN EL6 28985
91 4V7F 10 G 60S ribosomal protein L6 4932
92 4V8Y 39 BE 60S RIBOSOMAL PROTEIN L6-A 4932
93 4V8Z 39 BE 60S RIBOSOMAL PROTEIN L6-A 4932
94 4V8T 5 E 60S RIBOSOMAL PROTEIN L6-A 4932
95 4V6I 35 BG 60S ribosomal protein rpL6 (L6e) 4932