6N8L

Cryo-EM structure of early cytoplasmic-late (ECL) pre-60S ribosomal subunit


Sequence Similarity Clusters for the Entities in PDB 6N8L

Entity #1 | Chains: v
60S ribosomal export protein NMD3 protein, length: 518 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 7 11 7252
95 % 7 11 7984
90 % 7 11 7954
70 % 7 11 7736
50 % 7 11 7278
40 % 7 11 7005
30 % 7 11 6579
Entity #10 | Chains: E
60S ribosomal protein L6-A protein, length: 176 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 96 276
95 % 56 99 354
90 % 56 100 360
70 % 57 102 384
50 % 58 103 445
40 % 59 107 453
30 % 59 107 473
Entity #11 | Chains: e
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 100 258
95 % 56 100 348
90 % 56 100 359
70 % 57 102 382
50 % 77 181 271
40 % 77 185 271
30 % 77 186 291
Entity #12 | Chains: F
60S ribosomal protein L7-A protein, length: 244 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 99 259
95 % 56 99 349
90 % 56 99 361
70 % 57 101 385
50 % 76 177 283
40 % 76 177 296
30 % 76 176 323
Entity #13 | Chains: f
60S ribosomal protein L33-A protein, length: 107 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 98 270
95 % 55 98 361
90 % 55 98 373
70 % 56 100 400
50 % 74 173 303
40 % 75 175 310
30 % 75 175 337
Entity #14 | Chains: G
60S ribosomal protein L8-A protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 52 95 309
95 % 59 102 350
90 % 59 102 362
70 % 60 104 386
50 % 77 161 332
40 % 77 163 342
30 % 77 163 361
Entity #15 | Chains: g
60S ribosomal protein L34-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 93 291
95 % 55 93 391
90 % 55 93 405
70 % 56 95 423
50 % 74 162 331
40 % 74 162 346
30 % 74 162 364
Entity #16 | Chains: I
Bud site selection protein 20 protein, length: 166 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 5 18001
95 % 3 5 16892
90 % 3 5 16596
70 % 3 5 15506
50 % 3 5 13997
40 % 3 5 13019
30 % 3 5 11881
Entity #17 | Chains: H
60S ribosomal protein L9-A protein, length: 191 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 98 266
95 % 56 98 359
90 % 56 98 369
70 % 57 100 394
50 % 76 185 264
40 % 144 257 195
30 % 145 258 201
Entity #18 | Chains: h
60S ribosomal protein L35-A protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 103 243
95 % 56 103 329
90 % 56 103 342
70 % 57 105 376
50 % 75 179 286
40 % 76 190 252
30 % 77 192 264
Entity #19 | Chains: i
60S ribosomal protein L36-A protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 94 289
95 % 55 98 365
90 % 55 98 377
70 % 56 100 402
50 % 56 100 462
40 % 75 170 317
30 % 75 180 315
Entity #2 | Chains: s
Ribosomal Protein uL1 protein, length: 217 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: j
60S ribosomal protein L37-A protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 100 250
95 % 56 100 342
90 % 56 100 356
70 % 63 141 306
50 % 76 185 260
40 % 76 185 270
30 % 76 185 295
Entity #21 | Chains: k
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 93 294
95 % 55 93 390
90 % 55 93 402
70 % 56 95 422
50 % 56 95 472
40 % 57 102 465
30 % 57 102 486
Entity #22 | Chains: L
60S ribosomal protein L13-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 97 274
95 % 55 97 373
90 % 55 97 385
70 % 56 99 405
50 % 74 168 320
40 % 75 175 303
30 % 75 175 329
Entity #23 | Chains: l
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 97 267
95 % 57 97 360
90 % 57 97 371
70 % 75 169 268
50 % 76 181 269
40 % 76 183 276
30 % 77 184 297
Entity #24 | Chains: M
60S ribosomal protein L14-A protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 99 262
95 % 56 99 355
90 % 56 99 364
70 % 57 101 391
50 % 57 101 457
40 % 57 101 476
30 % 57 101 500
Entity #25 | Chains: p
60S ribosomal protein L43-A protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 90 303
95 % 56 90 405
90 % 56 90 416
70 % 57 92 432
50 % 76 176 284
40 % 77 177 294
30 % 99 200 249
Entity #26 | Chains: N
60S ribosomal protein L15-A protein, length: 204 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 101 252
95 % 58 104 327
90 % 58 104 340
70 % 76 175 263
50 % 78 189 249
40 % 78 189 260
30 % 78 189 281
Entity #27 | Chains: u
Ribosome biogenesis protein RLP24 protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 13 5769
95 % 3 13 6555
90 % 3 13 6439
70 % 3 13 6432
50 % 3 13 6266
40 % 3 13 6024
30 % 3 13 5750
Entity #28 | Chains: O
60S ribosomal protein L16-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 50 91 297
95 % 50 91 395
90 % 56 98 367
70 % 57 100 392
50 % 76 177 281
40 % 76 178 289
30 % 76 178 316
Entity #29 | Chains: P
60S ribosomal protein L17-A protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 102 246
95 % 55 102 334
90 % 56 104 339
70 % 56 104 379
50 % 76 187 253
40 % 76 187 264
30 % 76 187 288
Entity #3 | Chains: A
60S ribosomal protein L2-A protein, length: 254 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 93 288
95 % 56 93 386
90 % 57 95 390
70 % 75 166 271
50 % 76 179 275
40 % 144 250 197
30 % 144 250 206
Entity #30 | Chains: Q
60S ribosomal protein L18-A protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 99 260
95 % 56 99 351
90 % 57 101 348
70 % 57 101 387
50 % 75 178 291
40 % 75 183 282
30 % 75 183 309
Entity #31 | Chains: R
60S ribosomal protein L19-A protein, length: 189 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 93 285
95 % 53 93 383
90 % 53 93 396
70 % 54 96 413
50 % 74 176 292
40 % 74 177 299
30 % 74 177 322
Entity #32 | Chains: S
60S ribosomal protein L20-A protein, length: 172 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 97 273
95 % 55 97 372
90 % 56 99 370
70 % 56 99 404
50 % 74 168 318
40 % 75 169 320
30 % 75 170 343
Entity #33 | Chains: T
60S ribosomal protein L21-A protein, length: 160 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 93 286
95 % 56 93 384
90 % 57 95 389
70 % 57 95 419
50 % 75 167 317
40 % 75 173 315
30 % 77 180 307
Entity #34 | Chains: U
60S ribosomal protein L22-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 39 71 436
95 % 39 71 577
90 % 39 71 608
70 % 40 72 614
50 % 40 72 659
40 % 40 72 689
30 % 41 73 706
Entity #35 | Chains: V
60S ribosomal protein L23-A protein, length: 137 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 100 255
95 % 56 100 341
90 % 57 102 344
70 % 77 189 231
50 % 77 190 246
40 % 77 190 253
30 % 77 190 274
Entity #36 | Chains: W
Ribosome assembly factor MRT4 protein, length: 236 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 11 7464
95 % 3 11 8005
90 % 3 11 7973
70 % 3 11 7751
50 % 3 11 7295
40 % 3 11 7020
30 % 3 11 6595
Entity #37 | Chains: X
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 40 76 403
95 % 40 76 532
90 % 41 77 546
70 % 41 77 583
50 % 41 77 620
40 % 41 79 637
30 % 41 80 660
Entity #38 | Chains: Y
60S ribosomal protein L26-A protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 104 242
95 % 56 104 324
90 % 57 106 334
70 % 57 106 373
50 % 76 187 254
40 % 76 187 265
30 % 76 187 289
Entity #39 | Chains: y
Eukaryotic translation initiation factor 6 protein, length: 245 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 13 31 1778
95 % 13 31 2330
90 % 13 31 2388
70 % 14 32 2396
50 % 16 36 1897
40 % 16 36 1929
30 % 17 38 1799
Entity #4 | Chains: a
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 91 300
95 % 56 94 377
90 % 57 96 378
70 % 57 96 411
50 % 76 180 272
40 % 77 181 280
30 % 77 183 300
Entity #40 | Chains: Z
60S ribosomal protein L27-A protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 93 292
95 % 55 93 392
90 % 56 95 393
70 % 56 95 424
50 % 74 163 330
40 % 75 176 300
30 % 76 178 320
Entity #41 | Chains: z
UPF0642 protein YBL028C protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 8 10104
95 % 3 8 10792
90 % 3 8 10747
70 % 3 8 10288
50 % 3 8 10256
40 % 3 8 9117
30 % 3 8 8479
Entity #42 | Chains: D
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 89 305
95 % 56 91 399
90 % 56 91 412
70 % 57 93 428
50 % 76 175 290
40 % 77 177 292
30 % 77 177 318
Entity #43 | Chains: J
60S ribosomal protein L11-A protein, length: 174 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 33 71 483
95 % 56 94 378
90 % 57 96 379
70 % 77 178 256
50 % 79 182 265
40 % 79 182 278
30 % 79 182 304
Entity #44 | Chains: q
60S ribosomal protein L42-A protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 90 299
95 % 56 90 401
90 % 57 92 404
70 % 75 166 272
50 % 77 173 296
40 % 77 174 301
30 % 77 174 327
Entity #45 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 85 319
95 % 55 85 429
90 % 56 87 436
70 % 56 87 466
50 % 56 87 503
40 % 56 87 532
30 % 56 87 561
Entity #46 | Chains: 1
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 #47 | Chains: 2
5S rRNA rna, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #48 | Chains: 3
5.8S rRNA rna, length: 158 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #5 | Chains: B
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 97 281
95 % 56 99 353
90 % 57 101 351
70 % 57 101 389
50 % 78 190 242
40 % 78 190 250
30 % 78 192 263
Entity #6 | Chains: b
Nucleolar GTP-binding protein 1 protein, length: 647 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 12 5826
95 % 3 12 6701
90 % 3 12 6728
70 % 3 12 6626
50 % 3 12 6330
40 % 3 12 6135
30 % 3 12 5844
Entity #7 | Chains: C
60S ribosomal protein L4-A protein, length: 362 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 99 261
95 % 56 103 328
90 % 56 103 341
70 % 57 105 374
50 % 74 152 343
40 % 77 190 254
30 % 77 190 275
Entity #8 | Chains: c
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 99 257
95 % 58 99 346
90 % 59 101 346
70 % 59 101 381
50 % 79 186 252
40 % 79 186 263
30 % 79 186 286
Entity #9 | Chains: d
60S ribosomal protein L31-A protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 97 268
95 % 56 97 364
90 % 56 97 376
70 % 57 99 401
50 % 76 177 282
40 % 76 177 293
30 % 76 177 319

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