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 % 44 85 267
95 % 44 89 344
90 % 44 89 352
70 % 44 90 397
50 % 46 122 370
40 % 46 157 285
30 % 46 157 300
Entity #11 | Chains: G
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 75 305
95 % 44 77 406
90 % 44 77 427
70 % 44 78 451
50 % 46 143 317
40 % 46 144 329
30 % 46 144 343
Entity #12 | Chains: H
60S ribosomal protein L6-A protein, length: 176 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 85 268
95 % 44 85 359
90 % 44 86 370
70 % 44 87 408
50 % 45 88 458
40 % 45 91 472
30 % 45 91 498
Entity #13 | Chains: I
60S ribosomal protein L7-A protein, length: 244 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 85 266
95 % 44 85 362
90 % 44 85 378
70 % 44 87 407
50 % 46 146 309
40 % 46 146 325
30 % 46 145 341
Entity #14 | Chains: J
60S ribosomal protein L8-A protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 40 81 310
95 % 47 88 363
90 % 47 88 380
70 % 47 89 415
50 % 49 131 354
40 % 49 133 375
30 % 49 133 381
Entity #15 | Chains: K
60S ribosomal protein L9-A protein, length: 191 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 84 272
95 % 44 84 366
90 % 44 84 386
70 % 44 85 421
50 % 46 153 294
40 % 47 154 299
30 % 114 225 212
Entity #16 | Chains: M
60S ribosomal protein L11-A protein, length: 174 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 21 57 547
95 % 44 80 386
90 % 44 81 400
70 % 47 146 269
50 % 48 149 298
40 % 48 149 312
30 % 48 149 325
Entity #17 | Chains: N
60S ribosomal protein L13-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 83 278
95 % 43 83 378
90 % 43 83 395
70 % 43 84 429
50 % 43 84 479
40 % 45 143 335
30 % 45 143 349
Entity #18 | Chains: O
60S ribosomal protein L14-A protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 85 269
95 % 44 85 364
90 % 44 85 381
70 % 44 86 419
50 % 44 86 473
40 % 44 86 503
30 % 44 86 525
Entity #19 | Chains: Q
60S ribosomal protein L42-A protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 76 299
95 % 44 76 410
90 % 44 77 426
70 % 45 132 303
50 % 46 143 318
40 % 46 144 332
30 % 46 144 345
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 % 44 76 297
95 % 44 76 409
90 % 44 76 431
70 % 44 77 460
50 % 46 144 312
40 % 46 144 330
30 % 68 167 272
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 % 44 87 262
95 % 45 89 348
90 % 45 89 362
70 % 46 143 277
50 % 47 156 282
40 % 114 226 204
30 % 114 226 211
Entity #23 | Chains: b
60S ribosomal protein L16-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 83 273
95 % 44 83 373
90 % 44 84 384
70 % 44 85 420
50 % 46 145 310
40 % 46 146 323
30 % 46 146 339
Entity #24 | Chains: c
60S ribosomal protein L17-A protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 89 248
95 % 44 89 345
90 % 44 90 348
70 % 44 90 398
50 % 46 155 280
40 % 46 155 295
30 % 46 155 309
Entity #25 | Chains: d
60S ribosomal protein L18-A protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 85 270
95 % 44 85 360
90 % 44 86 375
70 % 44 86 414
50 % 45 146 316
40 % 45 151 318
30 % 45 151 331
Entity #26 | Chains: e
60S ribosomal protein L19-A protein, length: 189 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 82 277
95 % 44 82 376
90 % 44 82 394
70 % 44 84 426
50 % 47 147 307
40 % 47 148 322
30 % 47 148 337
Entity #27 | Chains: f
60S ribosomal protein L20-A protein, length: 172 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 83 279
95 % 43 83 379
90 % 43 84 391
70 % 43 84 430
50 % 44 136 346
40 % 45 137 359
30 % 45 138 366
Entity #28 | Chains: g
60S ribosomal protein L21-A protein, length: 160 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 79 288
95 % 44 79 393
90 % 44 80 404
70 % 44 80 440
50 % 45 135 347
40 % 45 141 352
30 % 46 147 336
Entity #29 | Chains: h
60S ribosomal protein L22-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 31 61 436
95 % 31 61 592
90 % 31 61 624
70 % 31 61 660
50 % 31 61 696
40 % 31 61 741
30 % 32 62 745
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 % 44 86 265
95 % 44 86 358
90 % 44 87 369
70 % 47 157 249
50 % 47 158 263
40 % 47 158 282
30 % 47 158 297
Entity #31 | Chains: j
60S ribosomal protein L24-A protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 33 56 442
95 % 33 56 602
90 % 33 56 635
70 % 33 56 661
50 % 33 56 704
40 % 33 94 507
30 % 33 94 528
Entity #32 | Chains: k
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 32 66 411
95 % 32 66 544
90 % 32 66 573
70 % 32 66 612
50 % 32 66 650
40 % 32 68 667
30 % 32 69 692
Entity #33 | Chains: l
60S ribosomal protein L26-A protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 90 245
95 % 44 90 337
90 % 44 91 343
70 % 44 91 391
50 % 46 152 289
40 % 46 152 304
30 % 46 152 314
Entity #34 | Chains: m
60S ribosomal protein L27-A protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 79 291
95 % 43 79 396
90 % 43 80 406
70 % 43 80 445
50 % 44 131 356
40 % 45 144 334
30 % 45 145 346
Entity #35 | Chains: n
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 77 298
95 % 44 80 385
90 % 44 81 397
70 % 44 81 435
50 % 46 148 302
40 % 46 148 315
30 % 46 150 322
Entity #36 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 71 320
95 % 43 71 431
90 % 43 72 461
70 % 43 72 488
50 % 43 72 521
40 % 43 72 563
30 % 43 72 589
Entity #37 | Chains: p
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 46 85 259
95 % 46 85 352
90 % 46 86 363
70 % 46 86 406
50 % 49 154 276
40 % 49 154 292
30 % 49 154 306
Entity #38 | Chains: q
60S ribosomal protein L31-A protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 83 274
95 % 44 83 370
90 % 44 83 388
70 % 44 84 423
50 % 46 145 311
40 % 46 145 327
30 % 46 145 342
Entity #39 | Chains: r
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 86 264
95 % 44 86 357
90 % 44 86 377
70 % 44 87 410
50 % 46 148 303
40 % 46 152 305
30 % 46 153 312
Entity #4 | Chains: Y
Tyrosine-protein phosphatase YVH1 protein, length: 364 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 3 32150
95 % 2 3 26924
90 % 2 3 26043
70 % 2 3 23724
50 % 2 3 20836
40 % 2 3 19069
30 % 2 3 17060
Entity #40 | Chains: s
60S ribosomal protein L33-A protein, length: 107 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 84 276
95 % 43 84 375
90 % 43 84 393
70 % 43 85 427
50 % 44 141 336
40 % 44 142 350
30 % 44 142 363
Entity #41 | Chains: t
60S ribosomal protein L34-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 79 290
95 % 43 79 395
90 % 43 79 415
70 % 43 80 444
50 % 44 130 360
40 % 44 130 382
30 % 44 130 385
Entity #42 | Chains: u
60S ribosomal protein L35-A protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 89 251
95 % 44 89 338
90 % 44 89 351
70 % 44 90 401
50 % 45 147 315
40 % 46 158 280
30 % 46 159 289
Entity #43 | Chains: v
60S ribosomal protein L36-A protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 80 287
95 % 43 84 371
90 % 43 84 389
70 % 43 85 424
50 % 43 85 476
40 % 45 138 355
30 % 45 148 334
Entity #44 | Chains: w
60S ribosomal protein L37-A protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 86 263
95 % 44 86 356
90 % 44 86 374
70 % 44 118 325
50 % 46 153 286
40 % 46 153 302
30 % 46 153 313
Entity #45 | Chains: x
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 43 79 292
95 % 43 79 399
90 % 43 79 418
70 % 43 80 449
50 % 43 80 493
40 % 44 87 489
30 % 44 87 513
Entity #46 | Chains: y
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 82 280
95 % 44 82 377
90 % 44 82 396
70 % 45 137 290
50 % 46 149 301
40 % 46 151 307
30 % 46 151 316
Entity #47 | Chains: z
Ubiquitin-60S ribosomal protein L40 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 4 26 1797
95 % 4 26 2350
90 % 5 49 1150
70 % 5 52 1108
50 % 5 52 1165
40 % 5 52 1200
30 % 5 52 1243
Entity #48 | Chains: L
Ribosomal protein L12 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 4 24002
95 % 3 4 21715
90 % 3 4 17987
70 % 3 4 18980
50 % 6 57 1154
40 % 6 57 1185
30 % 6 57 1230
Entity #5 | Chains: X
Eukaryotic translation initiation factor 6 protein, length: 245 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 6 22 2556
95 % 6 22 3218
90 % 6 22 3278
70 % 7 23 3172
50 % 9 27 2325
40 % 9 27 2356
30 % 10 29 2170
Entity #6 | Chains: W
Large subunit GTPase 1 protein, length: 640 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 2 41445
95 % 1 2 36143
90 % 1 3 26044
70 % 1 3 23725
50 % 1 3 20837
40 % 1 3 19070
30 % 1 3 17061
Entity #7 | Chains: V
60S ribosomal export protein NMD3 protein, length: 518 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 4 6 13582
95 % 4 6 14373
90 % 4 6 14166
70 % 4 6 13393
50 % 4 6 11421
40 % 4 6 11351
30 % 4 6 10391
Entity #8 | Chains: D
60S ribosomal protein L2-A protein, length: 254 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 44 79 289
95 % 44 79 392
90 % 44 80 405
70 % 45 134 297
50 % 46 147 306
40 % 113 217 206
30 % 113 217 217
Entity #9 | Chains: E
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 42 83 286
95 % 44 85 361
90 % 44 86 373
70 % 44 86 418
50 % 47 157 270
40 % 47 157 287
30 % 47 159 295

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