6N8M

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


Sequence Similarity Clusters for the Entities in PDB 6N8M

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: I
60S ribosomal protein L7-A protein, length: 244 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 101 258
95 % 59 101 344
90 % 59 101 362
70 % 60 103 387
50 % 79 179 280
40 % 79 179 295
30 % 79 178 322
Entity #11 | Chains: J
60S ribosomal protein L8-A protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 97 309
95 % 62 104 348
90 % 62 104 365
70 % 63 106 391
50 % 80 163 327
40 % 80 165 339
30 % 80 165 355
Entity #12 | Chains: K
60S ribosomal protein L9-A protein, length: 191 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 100 260
95 % 59 100 350
90 % 59 100 367
70 % 60 102 396
50 % 79 187 262
40 % 80 188 268
30 % 148 260 204
Entity #13 | Chains: M
60S ribosomal protein L11-A protein, length: 174 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 36 73 474
95 % 59 96 373
90 % 60 98 382
70 % 80 180 253
50 % 82 184 261
40 % 153 260 192
30 % 153 260 203
Entity #14 | Chains: N
60S ribosomal protein L13-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 99 272
95 % 58 99 365
90 % 58 99 381
70 % 59 101 403
50 % 59 101 457
40 % 78 177 304
30 % 78 177 328
Entity #15 | Chains: O
60S ribosomal protein L14-A protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 101 259
95 % 59 101 347
90 % 59 101 364
70 % 60 103 390
50 % 60 103 448
40 % 60 103 478
30 % 60 103 490
Entity #16 | Chains: Q
60S ribosomal protein L42-A protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 92 297
95 % 59 92 394
90 % 60 94 397
70 % 78 163 280
50 % 80 175 292
40 % 79 175 308
30 % 80 176 327
Entity #17 | Chains: R
60S ribosomal protein L43-A protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 92 299
95 % 59 92 395
90 % 59 92 410
70 % 60 94 434
50 % 79 178 281
40 % 80 179 292
30 % 102 202 255
Entity #18 | Chains: S
Ribosomal Protein uL1 protein, length: 217 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #19 | Chains: a
60S ribosomal protein L15-A protein, length: 204 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 103 249
95 % 61 106 323
90 % 61 106 337
70 % 79 177 261
50 % 81 191 247
40 % 81 191 260
30 % 81 191 278
Entity #2 | Chains: B
5S rRNA rna, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: b
60S ribosomal protein L16-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 93 291
95 % 53 93 389
90 % 59 100 368
70 % 60 102 394
50 % 79 179 277
40 % 79 180 288
30 % 79 180 313
Entity #21 | Chains: c
60S ribosomal protein L17-A protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 104 246
95 % 58 104 330
90 % 59 106 334
70 % 59 106 379
50 % 79 189 249
40 % 79 189 265
30 % 79 189 282
Entity #22 | Chains: d
60S ribosomal protein L18-A protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 101 256
95 % 59 101 345
90 % 60 103 351
70 % 60 103 388
50 % 78 180 285
40 % 78 185 282
30 % 78 185 307
Entity #23 | Chains: e
60S ribosomal protein L19-A protein, length: 189 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 95 280
95 % 56 95 378
90 % 56 95 392
70 % 57 98 410
50 % 78 179 282
40 % 78 180 294
30 % 78 180 319
Entity #24 | Chains: f
60S ribosomal protein L20-A protein, length: 172 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 99 270
95 % 58 99 364
90 % 59 101 369
70 % 59 101 401
50 % 77 170 313
40 % 78 171 320
30 % 78 172 337
Entity #25 | Chains: g
60S ribosomal protein L21-A protein, length: 160 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 95 283
95 % 59 95 379
90 % 60 97 385
70 % 60 97 415
50 % 78 169 314
40 % 78 175 312
30 % 80 182 309
Entity #26 | Chains: h
60S ribosomal protein L22-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 41 72 429
95 % 41 72 563
90 % 41 72 588
70 % 42 73 614
50 % 42 73 655
40 % 42 73 689
30 % 43 74 689
Entity #27 | Chains: i
60S ribosomal protein L23-A protein, length: 137 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 102 252
95 % 59 102 337
90 % 60 104 346
70 % 80 191 226
50 % 80 192 243
40 % 80 192 257
30 % 80 192 273
Entity #28 | Chains: j
60S ribosomal protein L24-A protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 40 64 460
95 % 42 66 599
90 % 42 66 627
70 % 43 67 652
50 % 43 67 692
40 % 49 111 487
30 % 49 111 502
Entity #29 | Chains: k
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 42 77 402
95 % 42 77 525
90 % 43 78 545
70 % 43 78 573
50 % 43 78 610
40 % 43 80 629
30 % 43 81 646
Entity #3 | Chains: C
5.8S RNA rna, length: 158 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #30 | Chains: l
60S ribosomal protein L26-A protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 106 242
95 % 59 106 319
90 % 60 108 328
70 % 60 108 372
50 % 80 187 256
40 % 80 187 271
30 % 80 187 289
Entity #31 | Chains: m
60S ribosomal protein L27-A protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 95 287
95 % 58 95 384
90 % 59 97 389
70 % 59 97 420
50 % 77 165 324
40 % 78 178 297
30 % 79 180 316
Entity #32 | Chains: n
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 93 296
95 % 59 96 370
90 % 60 98 378
70 % 60 98 406
50 % 79 182 269
40 % 80 183 278
30 % 80 185 299
Entity #33 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 87 311
95 % 58 87 424
90 % 59 89 430
70 % 59 89 458
50 % 59 89 490
40 % 59 89 526
30 % 59 89 549
Entity #34 | Chains: p
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 61 101 254
95 % 61 101 339
90 % 62 103 347
70 % 62 103 383
50 % 75 143 353
40 % 75 143 369
30 % 75 143 381
Entity #35 | Chains: q
60S ribosomal protein L31-A protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 99 263
95 % 59 99 359
90 % 59 99 376
70 % 60 101 399
50 % 79 179 279
40 % 79 179 293
30 % 79 179 318
Entity #36 | Chains: r
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 102 253
95 % 59 102 336
90 % 59 102 356
70 % 60 104 382
50 % 80 183 265
40 % 80 187 273
30 % 80 188 285
Entity #37 | Chains: s
60S ribosomal protein L33-A protein, length: 107 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 100 266
95 % 58 100 361
90 % 58 100 377
70 % 59 102 400
50 % 77 175 303
40 % 78 177 310
30 % 78 177 330
Entity #38 | Chains: t
60S ribosomal protein L34-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 95 285
95 % 58 95 382
90 % 58 95 398
70 % 59 97 419
50 % 77 164 329
40 % 77 164 345
30 % 77 164 359
Entity #39 | Chains: u
60S ribosomal protein L35-A protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 105 244
95 % 59 105 326
90 % 59 105 341
70 % 60 107 376
50 % 79 182 276
40 % 80 193 254
30 % 81 195 265
Entity #4 | Chains: Y
Tyrosine-protein phosphatase YVH1 protein, length: 364 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 5 19098
95 % 3 5 18552
90 % 3 5 18199
70 % 3 5 16956
50 % 3 5 15265
40 % 3 5 14173
30 % 3 5 12896
Entity #40 | Chains: v
60S ribosomal protein L36-A protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 96 281
95 % 58 100 354
90 % 58 100 372
70 % 59 102 397
50 % 59 102 455
40 % 78 172 315
30 % 78 182 310
Entity #41 | Chains: w
60S ribosomal protein L37-A protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 102 250
95 % 59 102 338
90 % 59 102 357
70 % 66 143 307
50 % 79 187 257
40 % 79 187 272
30 % 79 187 291
Entity #42 | Chains: x
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 95 286
95 % 58 95 381
90 % 58 95 402
70 % 59 97 417
50 % 59 97 472
40 % 60 104 470
30 % 60 104 480
Entity #43 | Chains: y
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 60 99 265
95 % 60 99 355
90 % 60 99 375
70 % 78 171 270
50 % 79 183 266
40 % 79 185 275
30 % 80 186 296
Entity #44 | Chains: z
Ubiquitin-60S ribosomal protein L40 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 12 35 1280
95 % 13 36 1669
90 % 14 59 1004
70 % 14 62 970
50 % 14 62 1014
40 % 14 62 1042
30 % 14 62 1088
Entity #45 | Chains: V
60S ribosomal export protein NMD3 protein, length: 518 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 8 11 7580
95 % 8 11 8139
90 % 8 11 8077
70 % 8 11 7862
50 % 8 11 7394
40 % 8 11 7124
30 % 8 11 6690
Entity #46 | Chains: L
Ribosomal protein L12 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 4 28436
95 % 2 4 19827
90 % 2 4 22185
70 % 2 4 20398
50 % 14 66 1085
40 % 14 66 1120
30 % 14 66 1163
Entity #47 | Chains: X
Eukaryotic translation initiation factor 6 protein, length: 245 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 14 31 1813
95 % 14 31 2362
90 % 14 31 2415
70 % 15 32 2422
50 % 17 36 1927
40 % 17 36 1962
30 % 18 38 1825
Entity #5 | Chains: D
60S ribosomal protein L2-A protein, length: 254 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 95 279
95 % 59 95 375
90 % 60 97 383
70 % 78 168 273
50 % 79 181 272
40 % 147 252 199
30 % 147 252 208
Entity #6 | Chains: E
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 99 275
95 % 59 101 346
90 % 60 103 352
70 % 60 103 389
50 % 81 192 242
40 % 81 192 256
30 % 81 194 270
Entity #7 | Chains: F
60S ribosomal protein L4-A protein, length: 362 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 101 257
95 % 59 105 328
90 % 59 105 342
70 % 60 107 374
50 % 77 154 338
40 % 80 192 258
30 % 80 192 272
Entity #8 | Chains: G
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 91 303
95 % 59 93 390
90 % 59 93 404
70 % 60 95 425
50 % 79 177 284
40 % 80 179 290
30 % 80 179 315
Entity #9 | Chains: H
60S ribosomal protein L6-A protein, length: 176 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 97 274
95 % 58 100 349
90 % 58 101 366
70 % 60 104 385
50 % 61 105 438
40 % 62 109 453
30 % 62 109 469

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