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 % 57 99 263
95 % 57 99 348
90 % 57 99 364
70 % 58 101 388
50 % 77 177 282
40 % 77 177 300
30 % 77 176 323
Entity #11 | Chains: J
60S ribosomal protein L8-A protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 95 310
95 % 60 102 351
90 % 60 102 365
70 % 61 104 391
50 % 78 161 329
40 % 78 163 343
30 % 78 163 356
Entity #12 | Chains: K
60S ribosomal protein L9-A protein, length: 191 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 98 265
95 % 57 98 353
90 % 57 98 369
70 % 58 100 393
50 % 77 185 266
40 % 145 257 196
30 % 146 258 204
Entity #13 | Chains: M
60S ribosomal protein L11-A protein, length: 174 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 34 71 487
95 % 57 94 377
90 % 58 96 387
70 % 78 178 256
50 % 80 182 262
40 % 80 182 280
30 % 80 182 305
Entity #14 | Chains: N
60S ribosomal protein L13-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 97 275
95 % 56 97 364
90 % 56 97 380
70 % 57 99 405
50 % 57 99 463
40 % 76 175 304
30 % 76 175 325
Entity #15 | Chains: O
60S ribosomal protein L14-A protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 99 262
95 % 57 99 347
90 % 57 99 363
70 % 58 101 386
50 % 58 101 453
40 % 58 101 478
30 % 58 101 497
Entity #16 | Chains: Q
60S ribosomal protein L42-A protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 90 302
95 % 57 90 399
90 % 58 92 404
70 % 76 161 277
50 % 78 173 294
40 % 77 173 307
30 % 78 174 326
Entity #17 | Chains: R
60S ribosomal protein L43-A protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 90 303
95 % 57 90 398
90 % 57 90 415
70 % 58 92 432
50 % 77 176 284
40 % 78 177 296
30 % 100 200 252
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 % 57 101 257
95 % 59 104 324
90 % 59 104 342
70 % 77 175 263
50 % 79 189 251
40 % 79 189 264
30 % 79 189 283
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 % 51 91 298
95 % 51 91 394
90 % 57 98 371
70 % 58 100 395
50 % 77 177 279
40 % 77 178 291
30 % 77 178 316
Entity #21 | Chains: c
60S ribosomal protein L17-A protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 102 247
95 % 56 102 330
90 % 57 104 339
70 % 57 104 377
50 % 77 187 253
40 % 77 187 267
30 % 77 187 288
Entity #22 | Chains: d
60S ribosomal protein L18-A protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 99 261
95 % 57 99 345
90 % 58 101 350
70 % 58 101 385
50 % 76 178 291
40 % 76 183 284
30 % 76 183 310
Entity #23 | Chains: e
60S ribosomal protein L19-A protein, length: 189 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 93 288
95 % 54 93 378
90 % 54 93 401
70 % 55 96 418
50 % 76 177 286
40 % 76 178 299
30 % 76 178 321
Entity #24 | Chains: f
60S ribosomal protein L20-A protein, length: 172 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 97 273
95 % 56 97 368
90 % 57 99 370
70 % 57 99 406
50 % 75 168 312
40 % 76 169 321
30 % 76 170 341
Entity #25 | Chains: g
60S ribosomal protein L21-A protein, length: 160 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 93 287
95 % 57 93 383
90 % 58 95 394
70 % 58 95 421
50 % 76 167 314
40 % 76 173 317
30 % 78 180 307
Entity #26 | Chains: h
60S ribosomal protein L22-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 39 70 443
95 % 39 70 595
90 % 39 70 612
70 % 40 71 644
50 % 40 71 679
40 % 40 71 709
30 % 41 72 712
Entity #27 | Chains: i
60S ribosomal protein L23-A protein, length: 137 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 100 260
95 % 57 100 344
90 % 58 102 348
70 % 78 189 231
50 % 78 190 243
40 % 78 190 257
30 % 78 190 272
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 64 452
95 % 41 65 599
90 % 41 65 624
70 % 42 66 647
50 % 42 66 689
40 % 48 110 483
30 % 48 110 504
Entity #29 | Chains: k
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 40 75 412
95 % 40 75 539
90 % 41 76 559
70 % 41 76 587
50 % 41 76 625
40 % 41 78 653
30 % 41 79 670
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 % 57 104 242
95 % 57 104 323
90 % 58 106 334
70 % 58 106 372
50 % 78 188 252
40 % 78 188 265
30 % 78 188 284
Entity #31 | Chains: m
60S ribosomal protein L27-A protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 93 295
95 % 56 93 391
90 % 57 95 397
70 % 57 95 425
50 % 75 163 326
40 % 76 176 303
30 % 77 178 319
Entity #32 | Chains: n
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 91 299
95 % 57 94 375
90 % 58 96 381
70 % 58 96 411
50 % 77 180 270
40 % 78 181 282
30 % 78 183 300
Entity #33 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 85 319
95 % 56 85 427
90 % 57 87 440
70 % 57 87 465
50 % 57 87 502
40 % 57 87 537
30 % 57 87 563
Entity #34 | Chains: p
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 99 251
95 % 59 99 337
90 % 60 101 346
70 % 60 101 381
50 % 73 141 354
40 % 73 141 370
30 % 73 141 384
Entity #35 | Chains: q
60S ribosomal protein L31-A protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 97 271
95 % 57 97 359
90 % 57 97 378
70 % 58 99 398
50 % 77 177 280
40 % 77 177 298
30 % 77 177 320
Entity #36 | Chains: r
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 100 259
95 % 57 100 341
90 % 57 100 359
70 % 58 102 384
50 % 78 181 269
40 % 78 185 274
30 % 78 186 290
Entity #37 | Chains: s
60S ribosomal protein L33-A protein, length: 107 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 98 268
95 % 56 98 361
90 % 56 98 379
70 % 57 100 401
50 % 75 173 300
40 % 76 175 311
30 % 76 175 333
Entity #38 | Chains: t
60S ribosomal protein L34-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 93 290
95 % 56 93 387
90 % 56 93 409
70 % 57 95 422
50 % 75 162 330
40 % 75 162 346
30 % 75 162 360
Entity #39 | Chains: u
60S ribosomal protein L35-A protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 103 245
95 % 57 103 326
90 % 57 103 344
70 % 58 105 375
50 % 77 180 281
40 % 78 191 254
30 % 79 193 264
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 19853
95 % 3 5 17981
90 % 3 5 16815
70 % 3 5 15694
50 % 3 5 14812
40 % 3 5 13765
30 % 3 5 12540
Entity #40 | Chains: v
60S ribosomal protein L36-A protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 94 284
95 % 56 98 356
90 % 56 98 373
70 % 57 100 397
50 % 57 100 459
40 % 76 170 318
30 % 76 170 339
Entity #41 | Chains: w
60S ribosomal protein L37-A protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 100 255
95 % 57 100 340
90 % 57 100 360
70 % 64 141 307
50 % 77 185 255
40 % 77 185 271
30 % 77 185 293
Entity #42 | Chains: x
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 93 293
95 % 56 93 390
90 % 56 93 408
70 % 57 95 423
50 % 57 95 472
40 % 58 102 468
30 % 58 102 486
Entity #43 | Chains: y
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 97 270
95 % 58 97 360
90 % 58 97 377
70 % 76 169 268
50 % 77 181 267
40 % 77 183 277
30 % 78 184 299
Entity #44 | Chains: z
Ubiquitin-60S ribosomal protein L40 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 10 33 1463
95 % 11 34 1826
90 % 12 57 1070
70 % 12 60 1045
50 % 12 60 1083
40 % 12 60 1117
30 % 12 60 1159
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 7483
95 % 8 11 8035
90 % 8 11 7976
70 % 8 11 7776
50 % 8 11 7310
40 % 8 11 7061
30 % 8 11 6627
Entity #46 | Chains: L
Ribosomal protein L12 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 4 25024
95 % 2 4 21136
90 % 2 4 20609
70 % 2 4 19017
50 % 14 66 1067
40 % 14 66 1100
30 % 14 66 1151
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 1771
95 % 14 31 2310
90 % 14 31 2389
70 % 15 32 2390
50 % 17 36 1904
40 % 17 36 1921
30 % 18 38 1798
Entity #5 | Chains: D
60S ribosomal protein L2-A protein, length: 254 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 93 285
95 % 57 93 379
90 % 58 95 389
70 % 76 166 271
50 % 77 179 274
40 % 145 250 198
30 % 145 250 209
Entity #6 | Chains: E
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 97 281
95 % 57 99 350
90 % 58 101 354
70 % 58 101 390
50 % 79 190 242
40 % 79 190 256
30 % 79 192 266
Entity #7 | Chains: F
60S ribosomal protein L4-A protein, length: 362 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 99 264
95 % 57 103 325
90 % 57 103 343
70 % 58 105 374
50 % 75 152 340
40 % 78 190 259
30 % 78 190 276
Entity #8 | Chains: G
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 89 307
95 % 57 91 396
90 % 57 91 413
70 % 58 93 429
50 % 77 175 288
40 % 78 177 294
30 % 78 177 317
Entity #9 | Chains: H
60S ribosomal protein L6-A protein, length: 176 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 96 274
95 % 57 99 346
90 % 57 100 357
70 % 58 102 383
50 % 59 103 443
40 % 60 107 457
30 % 60 107 474

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