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 95 265
95 % 54 99 326
90 % 54 99 339
70 % 54 100 377
50 % 71 147 342
40 % 72 183 259
30 % 72 183 279
Entity #11 | Chains: G
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 85 307
95 % 54 87 397
90 % 54 87 418
70 % 54 88 449
50 % 71 168 293
40 % 72 170 295
30 % 72 170 316
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 95 261
95 % 54 95 351
90 % 54 96 357
70 % 54 97 391
50 % 55 98 449
40 % 56 102 456
30 % 56 102 473
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 95 264
95 % 54 95 349
90 % 54 95 365
70 % 54 97 387
50 % 71 171 282
40 % 71 171 293
30 % 71 170 321
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 91 311
95 % 57 98 350
90 % 57 98 368
70 % 57 99 395
50 % 74 156 331
40 % 74 158 336
30 % 74 158 350
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 94 267
95 % 54 94 356
90 % 54 94 371
70 % 54 95 402
50 % 71 178 269
40 % 72 179 273
30 % 428 719 25
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 67 500
95 % 54 90 377
90 % 54 91 389
70 % 72 171 254
50 % 74 175 267
40 % 145 251 195
30 % 145 251 204
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 93 275
95 % 53 93 371
90 % 53 93 385
70 % 53 94 417
50 % 53 94 468
40 % 70 168 307
30 % 70 168 326
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 95 266
95 % 54 95 352
90 % 54 95 366
70 % 54 96 398
50 % 54 96 460
40 % 54 96 483
30 % 54 96 512
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 86 304
95 % 54 86 404
90 % 54 87 420
70 % 70 157 281
50 % 72 169 289
40 % 71 169 299
30 % 72 170 320
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 86 302
95 % 54 86 405
90 % 54 86 422
70 % 54 87 456
50 % 71 169 287
40 % 72 170 298
30 % 94 193 253
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 97 254
95 % 55 99 332
90 % 55 99 346
70 % 71 168 264
50 % 73 182 252
40 % 73 182 266
30 % 73 182 288
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 87 301
95 % 48 87 400
90 % 54 94 372
70 % 54 95 403
50 % 71 170 284
40 % 71 171 291
30 % 71 171 313
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 98 246
95 % 53 98 330
90 % 53 99 337
70 % 53 99 383
50 % 71 180 254
40 % 71 180 272
30 % 71 180 293
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 95 262
95 % 54 95 355
90 % 54 96 362
70 % 54 96 400
50 % 70 171 294
40 % 70 176 286
30 % 70 176 310
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 89 289
95 % 51 89 380
90 % 51 89 396
70 % 51 91 423
50 % 69 169 291
40 % 69 170 300
30 % 69 170 322
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 93 277
95 % 53 93 369
90 % 53 94 376
70 % 53 94 416
50 % 69 161 321
40 % 70 162 324
30 % 70 163 335
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 89 283
95 % 54 89 383
90 % 54 90 392
70 % 54 90 430
50 % 70 160 323
40 % 70 166 319
30 % 72 173 308
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 68 437
95 % 38 68 593
90 % 38 68 619
70 % 38 68 658
50 % 38 68 697
40 % 38 68 719
30 % 39 69 728
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 96 256
95 % 54 96 341
90 % 54 97 348
70 % 72 182 237
50 % 139 253 178
40 % 139 253 193
30 % 139 253 202
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 63 443
95 % 40 63 603
90 % 40 63 628
70 % 40 63 672
50 % 40 63 705
40 % 44 105 487
30 % 44 105 516
Entity #32 | Chains: k
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 39 73 410
95 % 39 73 537
90 % 39 73 564
70 % 39 73 599
50 % 39 73 639
40 % 39 75 659
30 % 39 76 685
Entity #33 | Chains: l
60S ribosomal protein L26-A protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 100 240
95 % 54 100 322
90 % 54 101 334
70 % 54 101 373
50 % 71 177 262
40 % 71 177 279
30 % 71 177 300
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 89 297
95 % 53 89 390
90 % 53 90 405
70 % 53 90 443
50 % 69 156 334
40 % 70 169 301
30 % 71 171 319
Entity #35 | Chains: n
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 87 303
95 % 54 90 376
90 % 54 91 388
70 % 54 91 421
50 % 71 173 275
40 % 72 174 282
30 % 72 176 302
Entity #36 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 81 321
95 % 53 81 424
90 % 53 82 445
70 % 53 82 477
50 % 53 82 516
40 % 53 82 546
30 % 53 82 567
Entity #37 | Chains: p
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 95 258
95 % 56 95 343
90 % 56 96 350
70 % 56 96 390
50 % 69 136 362
40 % 69 136 379
30 % 69 136 388
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 93 270
95 % 54 93 361
90 % 54 93 375
70 % 54 94 407
50 % 71 170 286
40 % 71 170 296
30 % 71 170 318
Entity #39 | Chains: r
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 96 253
95 % 54 96 345
90 % 54 96 360
70 % 54 97 392
50 % 72 174 273
40 % 72 178 278
30 % 72 179 294
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 18490
95 % 4 5 18153
90 % 4 5 17638
70 % 4 5 16430
50 % 4 5 14804
40 % 4 5 13764
30 % 4 5 12499
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 94 272
95 % 53 94 363
90 % 53 94 378
70 % 53 95 409
50 % 69 166 309
40 % 70 168 315
30 % 70 168 331
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 89 295
95 % 53 89 394
90 % 53 89 409
70 % 53 90 435
50 % 69 155 337
40 % 69 155 345
30 % 69 155 358
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 99 242
95 % 54 99 328
90 % 54 99 340
70 % 54 100 380
50 % 70 172 288
40 % 71 183 257
30 % 72 185 272
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 90 284
95 % 53 94 360
90 % 53 94 374
70 % 53 95 406
50 % 53 95 463
40 % 70 163 321
30 % 70 163 334
Entity #44 | Chains: w
60S ribosomal protein L37-A protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 96 255
95 % 54 96 346
90 % 54 96 363
70 % 58 132 318
50 % 71 178 259
40 % 71 178 276
30 % 71 178 297
Entity #45 | Chains: x
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 89 292
95 % 53 89 391
90 % 53 89 411
70 % 53 90 438
50 % 53 90 484
40 % 54 97 480
30 % 54 97 500
Entity #46 | Chains: y
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 92 276
95 % 54 92 367
90 % 54 92 381
70 % 70 162 267
50 % 71 174 272
40 % 71 176 281
30 % 72 177 299
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 1577
95 % 9 31 2058
90 % 10 54 1128
70 % 10 57 1080
50 % 10 57 1123
40 % 10 57 1152
30 % 10 57 1192
Entity #48 | Chains: L
Ribosomal protein L12 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 4 27506
95 % 3 4 19156
90 % 3 4 21458
70 % 3 4 19701
50 % 13 64 1076
40 % 13 64 1110
30 % 13 64 1146
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 1706
95 % 15 31 2237
90 % 15 31 2295
70 % 16 32 2270
50 % 18 36 1812
40 % 18 36 1857
30 % 19 38 1747
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 13115
95 % 6 7 12727
90 % 6 8 10982
70 % 6 8 10564
50 % 6 8 9759
40 % 6 8 9247
30 % 6 8 8571
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 7286
95 % 9 11 7834
90 % 9 11 7793
70 % 9 11 7618
50 % 9 11 7175
40 % 9 11 6938
30 % 9 11 6525
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 89 288
95 % 54 89 385
90 % 54 90 393
70 % 70 159 276
50 % 71 172 278
40 % 139 243 200
30 % 139 243 210
Entity #9 | Chains: E
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 52 93 281
95 % 54 95 353
90 % 54 96 361
70 % 54 96 399
50 % 73 183 246
40 % 73 183 256
30 % 73 185 271

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 55 BR, DR 60S ribosomal protein L19-A 4932
2 4U4R 55 M9, m9 60S ribosomal protein L19-A 4932
3 4U3U 55 M9, m9 60S ribosomal protein L19-A 4932
4 5TBW 20 CT, z 60S ribosomal protein L19-A 4932
5 4U3M 55 M9, m9 60S ribosomal protein L19-A 4932
6 4U3N 55 M9, m9 60S ribosomal protein L19-A 4932
7 4U52 55 M9, m9 60S ribosomal protein L19-A 4932
8 4U4Q 55 M9, m9 60S ribosomal protein L19-A 4932
9 4U6F 55 M9, m9 60S ribosomal protein L19-A 4932
10 4U4U 55 M9, m9 60S ribosomal protein L19-A 4932
11 4U4Z 55 M9, m9 60S ribosomal protein L19-A 4932
12 4U4Y 55 M9, m9 60S ribosomal protein L19-A 4932
13 4U4N 55 M9, m9 60S ribosomal protein L19-A 4932
14 4U55 55 M9, m9 60S ribosomal protein L19-A 4932
15 5DAT 55 M9, m9 60S ribosomal protein L19-A 4932
16 5I4L 55 M9, m9 60S ribosomal protein L19-A 4932
17 4U51 55 M9, m9 60S ribosomal protein L19-A 4932
18 6HHQ 20 CT, z 60S ribosomal protein L19-A 4932
19 5OBM 20 M9, m9 60S ribosomal protein L19-A 4932
20 4U53 55 M9, m9 60S ribosomal protein L19-A 4932
21 5ON6 20 CT, z 60S ribosomal protein L19-A 4932
22 4U50 55 M9, m9 60S ribosomal protein L19-A 4932
23 5NDV 20 M9, m9 60S ribosomal protein L19-A 4932
24 5LYB 55 M9, m9 60S ribosomal protein L19-A 4932
25 4U56 55 M9, m9 60S ribosomal protein L19-A 4932
26 5TGA 55 M9, m9 60S ribosomal protein L19-A 4932
27 5MEI 20 CT, z 60S ribosomal protein L19-A 4932
28 5FCJ 55 M9, m9 60S ribosomal protein L19-A 4932
29 4U4O 55 M9, m9 60S ribosomal protein L19-A 4932
30 5DGV 55 M9, m9 60S ribosomal protein L19-A 4932
31 5DGE 55 M9, m9 60S ribosomal protein L19-A 4932
32 5NDW 43 M9, m9 60S ribosomal protein L19-A 4932
33 5NDG 55 M9, m9 60S ribosomal protein L19-A 4932
34 5FCI 55 M9, m9 60S ribosomal protein L19-A 4932
35 5DC3 55 M9, m9 60S ribosomal protein L19-A 4932
36 5DGF 55 M9, m9 60S ribosomal protein L19-A 4932
37 5TGM 55 M9, m9 60S ribosomal protein L19-A 4932
38 4V7R 48 BS, DS 60S ribosomal protein L19 4932
39 6S47 20 AT 60S ribosomal protein L19-A 4932
40 6RZZ 17 R 60S ribosomal protein L19-A 4932
41 6S05 17 R 60S ribosomal protein L19-A 4932
42 6RI5 17 R 60S ribosomal protein L19-A 4932
43 6QTZ 17 R 60S ribosomal protein L19-A 4932
44 6QT0 18 R 60S ribosomal protein L19-A 4932
45 6QIK 17 R 60S ribosomal protein L19-A 4932
46 6Q8Y 43 BF 60S ribosomal protein L19-A 4932
47 6N8J 32 R 60S ribosomal protein L19-A 4932
48 6N8K 31 R 60S ribosomal protein L19-A 4932
49 6N8L 31 R 60S ribosomal protein L19-A 4932
50 6N8M 23 e 60S ribosomal protein L19-A 4932
51 6N8N 26 e 60S ribosomal protein L19-A 4932
52 6N8O 28 e 60S ribosomal protein L19-A 4932
53 6I7O 54 BF, YF 60S ribosomal protein L19-A 4932
54 6HD7 23 T 60S ribosomal protein L19-A 4932
55 6GQV 22 R 60S ribosomal protein L19-A 4932
56 6GQ1 22 R 60S ribosomal protein L19-A 4932
57 6GQB 22 R 60S ribosomal protein L19-A 4932
58 6FT6 18 R 60S ribosomal protein L19-A 4932
59 6EM5 7 R 60S ribosomal protein L19-A Backbone model 4932
60 6ELZ 7 R 60S ribosomal protein L19-A 4932
61 5MC6 72 BF 60S ribosomal protein L19-A 4932
62 5H4P 19 R 60S ribosomal protein L19-A 4932
63 5M1J 74 R5 60S ribosomal protein L19-A 4932
64 5T62 21 e 60S ribosomal protein L19-A 4932
65 5T6R 20 e 60S ribosomal protein L19-A 4932
66 5JUO 23 W eL19 (yeast L19) 4932
67 5JUP 23 W eL19 (yeast L19) 4932
68 5JUS 23 W eL19 (yeast L19) 4932
69 5JUT 23 W eL19 (yeast L19) 4932
70 5JUU 23 W eL19 (yeast L19) 4932
71 5JCS 35 R 60S ribosomal protein L19-A 4932
72 3JCT 18 R 60S ribosomal protein L19-A 4932
73 5GAK 45 T 60S ribosomal protein L19-A 4932
74 5FL8 18 R 60S ribosomal protein L19-A 4932
75 5APN 20 R 60S ribosomal protein L19-A 4932
76 5APO 20 R 60S ribosomal protein L19-A 4932
77 3J77 19 69 60S ribosomal protein L19 4932
78 3J78 19 69 60S ribosomal protein L19 4932
79 3J6X 21 59 60S ribosomal protein L19 4932
80 3J6Y 21 59 60S ribosomal protein L19 4932
81 4V91 20 R EL19 RIBOSOMAL PROTEIN EL19 28985
82 4V7F 21 R 60S ribosomal protein L19 4932
83 4V8Y 52 BR 60S RIBOSOMAL PROTEIN L19-B 4932
84 4V8Z 52 BR 60S RIBOSOMAL PROTEIN L19-B 4932
85 4V8T 18 R 60S RIBOSOMAL PROTEIN L19-B 4932
86 4V6I 46 BT 60S ribosomal protein rpL19 (L19e) 4932
87 2WW9 10 J 60S RIBOSOMAL PROTEIN L19 4932
88 2WWA 10 J 60S RIBOSOMAL PROTEIN L19 4932
89 2WWB 10 J 60S RIBOSOMAL PROTEIN L19 4565