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 95 257
95 % 54 99 325
90 % 54 99 336
70 % 54 100 376
50 % 71 147 339
40 % 72 183 256
30 % 72 183 274
Entity #11 | Chains: G
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 85 304
95 % 54 87 392
90 % 54 87 409
70 % 54 88 443
50 % 71 168 290
40 % 72 170 294
30 % 72 170 315
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 95 260
95 % 54 95 346
90 % 54 96 350
70 % 54 97 390
50 % 55 98 446
40 % 56 102 455
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 95 259
95 % 54 95 345
90 % 54 95 360
70 % 54 97 385
50 % 71 171 281
40 % 71 171 293
30 % 71 170 319
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 91 308
95 % 57 98 350
90 % 57 98 362
70 % 57 99 397
50 % 74 156 327
40 % 74 158 336
30 % 74 158 347
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 94 355
90 % 54 94 367
70 % 54 95 400
50 % 71 178 267
40 % 72 179 272
30 % 428 719 26
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 67 494
95 % 54 90 374
90 % 54 91 385
70 % 72 171 253
50 % 74 175 264
40 % 74 175 281
30 % 74 175 300
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 93 273
95 % 53 93 364
90 % 53 93 377
70 % 53 94 408
50 % 53 94 463
40 % 70 168 305
30 % 70 168 324
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 95 264
95 % 54 95 348
90 % 54 95 361
70 % 54 96 394
50 % 54 96 457
40 % 54 96 483
30 % 54 96 513
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 86 301
95 % 54 86 403
90 % 54 87 414
70 % 70 162 265
50 % 72 169 286
40 % 72 170 298
30 % 72 170 318
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 86 300
95 % 54 86 401
90 % 54 86 417
70 % 54 87 453
50 % 71 169 285
40 % 72 170 296
30 % 94 193 250
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 97 253
95 % 55 99 330
90 % 55 99 340
70 % 71 168 259
50 % 73 182 250
40 % 73 182 263
30 % 73 182 281
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 87 299
95 % 48 87 398
90 % 54 94 368
70 % 54 95 399
50 % 71 170 284
40 % 71 171 290
30 % 71 171 312
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 98 243
95 % 53 98 329
90 % 53 99 335
70 % 53 99 380
50 % 71 180 254
40 % 71 180 270
30 % 71 180 289
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 95 263
95 % 54 95 349
90 % 54 96 357
70 % 54 96 396
50 % 70 171 291
40 % 70 176 286
30 % 70 176 309
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 89 287
95 % 51 89 385
90 % 51 89 401
70 % 51 91 427
50 % 69 169 292
40 % 69 170 299
30 % 69 170 320
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 93 276
95 % 53 93 367
90 % 53 94 373
70 % 53 94 411
50 % 69 161 319
40 % 70 162 322
30 % 70 163 332
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 89 376
90 % 54 90 387
70 % 54 90 428
50 % 70 160 315
40 % 70 166 315
30 % 72 173 307
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 68 434
95 % 38 68 586
90 % 38 68 609
70 % 38 68 655
50 % 38 68 690
40 % 38 68 715
30 % 39 69 727
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 96 254
95 % 54 96 342
90 % 54 97 348
70 % 72 182 236
50 % 72 183 244
40 % 72 183 257
30 % 72 183 275
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 63 438
95 % 40 63 597
90 % 40 63 620
70 % 40 63 666
50 % 40 63 699
40 % 44 105 482
30 % 44 105 512
Entity #32 | Chains: k
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 39 73 407
95 % 39 73 531
90 % 39 73 556
70 % 39 73 594
50 % 39 73 635
40 % 39 75 656
30 % 39 76 684
Entity #33 | Chains: l
60S ribosomal protein L26-A protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 100 238
95 % 54 100 321
90 % 54 101 330
70 % 54 101 372
50 % 71 180 253
40 % 71 180 268
30 % 71 180 288
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 89 293
95 % 53 89 388
90 % 53 90 399
70 % 53 90 441
50 % 69 156 331
40 % 70 169 300
30 % 71 171 316
Entity #35 | Chains: n
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 87 302
95 % 54 90 373
90 % 54 91 383
70 % 54 91 419
50 % 71 173 273
40 % 72 174 282
30 % 72 176 298
Entity #36 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 81 319
95 % 53 81 419
90 % 53 82 438
70 % 53 82 476
50 % 53 82 512
40 % 53 82 548
30 % 53 82 570
Entity #37 | Chains: p
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 95 251
95 % 56 95 339
90 % 56 96 349
70 % 56 96 389
50 % 74 179 252
40 % 74 179 269
30 % 74 179 287
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 93 359
90 % 54 93 371
70 % 54 94 405
50 % 71 170 283
40 % 71 170 297
30 % 71 170 317
Entity #39 | Chains: r
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 96 249
95 % 54 96 338
90 % 54 96 353
70 % 54 97 388
50 % 72 174 271
40 % 72 178 276
30 % 72 179 292
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 18428
95 % 4 5 17858
90 % 4 5 17533
70 % 4 5 16336
50 % 4 5 14222
40 % 4 5 13714
30 % 4 5 12071
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 94 268
95 % 53 94 357
90 % 53 94 370
70 % 53 95 403
50 % 69 166 305
40 % 70 168 312
30 % 70 168 328
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 89 292
95 % 53 89 390
90 % 53 89 407
70 % 53 90 435
50 % 69 155 332
40 % 69 155 345
30 % 69 155 357
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 99 239
95 % 54 99 324
90 % 54 99 334
70 % 54 100 375
50 % 70 172 288
40 % 71 183 254
30 % 72 185 267
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 90 281
95 % 53 94 358
90 % 53 94 376
70 % 53 95 401
50 % 53 95 460
40 % 70 163 319
30 % 70 173 310
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 96 252
95 % 54 96 340
90 % 54 96 355
70 % 58 132 314
50 % 71 178 260
40 % 71 178 275
30 % 71 178 295
Entity #45 | Chains: x
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 89 294
95 % 53 89 389
90 % 53 89 406
70 % 53 90 442
50 % 53 90 483
40 % 54 97 475
30 % 54 97 499
Entity #46 | Chains: y
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 92 275
95 % 54 92 366
90 % 54 92 380
70 % 70 161 268
50 % 71 173 274
40 % 72 177 278
30 % 72 177 296
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 1574
95 % 9 31 2059
90 % 10 54 1115
70 % 10 57 1074
50 % 10 57 1115
40 % 10 57 1140
30 % 10 57 1185
Entity #48 | Chains: L
Ribosomal protein L12 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 4 27371
95 % 3 4 22527
90 % 3 4 21423
70 % 3 4 19693
50 % 13 64 1069
40 % 13 64 1096
30 % 13 64 1138
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 1720
95 % 15 31 2253
90 % 15 31 2313
70 % 16 32 2317
50 % 18 36 1823
40 % 18 36 1864
30 % 19 38 1742
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 12590
95 % 6 7 12462
90 % 6 8 11441
70 % 6 8 10073
50 % 6 8 9853
40 % 6 8 9504
30 % 6 8 8687
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 7107
95 % 9 11 7901
90 % 9 11 7882
70 % 9 11 7694
50 % 9 11 7163
40 % 9 11 6994
30 % 9 11 6567
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 89 285
95 % 54 89 382
90 % 54 90 388
70 % 70 159 273
50 % 71 172 276
40 % 139 243 198
30 % 139 243 207
Entity #9 | Chains: E
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 52 93 279
95 % 54 95 347
90 % 54 96 356
70 % 54 96 393
50 % 73 183 242
40 % 73 183 253
30 % 73 185 266

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 65 Bb, Db 60S ribosomal protein L29 4932
2 4U4R 65 N9, n9 60S ribosomal protein L29 4932
3 4U3U 65 N9, n9 60S ribosomal protein L29 4932
4 5TBW 30 AC, DD 60S ribosomal protein L29 4932
5 4U3M 65 N9, n9 60S ribosomal protein L29 4932
6 4U3N 65 N9, n9 60S ribosomal protein L29 4932
7 4U52 65 N9, n9 60S ribosomal protein L29 4932
8 4U4Q 65 N9, n9 60S ribosomal protein L29 4932
9 4U6F 65 N9, n9 60S ribosomal protein L29 4932
10 4U4U 65 N9, n9 60S ribosomal protein L29 4932
11 4U4Z 65 N9, n9 60S ribosomal protein L29 4932
12 4U4Y 65 N9, n9 60S ribosomal protein L29 4932
13 4U4N 65 N9, n9 60S ribosomal protein L29 4932
14 4U55 65 N9, n9 60S ribosomal protein L29 4932
15 5DAT 65 N9, n9 60S ribosomal protein L29 4932
16 5I4L 65 N9, n9 60S ribosomal protein L29 4932
17 4U51 65 N9, n9 60S ribosomal protein L29 4932
18 6HHQ 30 AC, DD 60S ribosomal protein L29 4932
19 5OBM 30 N9, n9 60S ribosomal protein L29 4932
20 4U53 65 N9, n9 60S ribosomal protein L29 4932
21 5ON6 31 AC, DD 60S ribosomal protein L29 4932
22 4U50 65 N9, n9 60S ribosomal protein L29 4932
23 5NDV 30 N9, n9 60S ribosomal protein L29 4932
24 5LYB 65 N9, n9 60S ribosomal protein L29 4932
25 4U56 65 N9, n9 60S ribosomal protein L29 4932
26 5TGA 65 N9, n9 60S ribosomal protein L29 4932
27 5MEI 31 AC, DD 60S ribosomal protein L29 4932
28 5FCJ 65 N9, n9 60S ribosomal protein L29 4932
29 4U4O 65 N9, n9 60S ribosomal protein L29 4932
30 5DGV 65 N9, n9 60S ribosomal protein L29 4932
31 5DGE 65 N9, n9 60S ribosomal protein L29 4932
32 5NDW 53 N9, n9 60S ribosomal protein L29 4932
33 5NDG 65 N9, n9 60S ribosomal protein L29 4932
34 5FCI 65 N9, n9 60S ribosomal protein L29 4932
35 5DC3 65 N9, n9 60S ribosomal protein L29 4932
36 5DGF 65 N9, n9 60S ribosomal protein L29 4932
37 5TGM 65 N9, n9 60S ribosomal protein L29 4932
38 6S47 30 Ad 60S ribosomal protein L29 4932
39 6RZZ 26 a 60S ribosomal protein L29 4932
40 6S05 26 a 60S ribosomal protein L29 4932
41 6RI5 26 a 60S ribosomal protein L29 4932
42 6R84 39 d 60S ribosomal protein L29 4932
43 6R86 37 d 60S ribosomal protein L29 4932
44 6R87 38 d 60S ribosomal protein L29 4932
45 6QTZ 26 a 60S ribosomal protein L29 4932
46 6QT0 27 a 60S ribosomal protein L29 4932
47 6QIK 26 a 60S ribosomal protein L29 4932
48 6Q8Y 23 AV 60S ribosomal protein L29 4932
49 6N8J 46 o 60S ribosomal protein L29 4932
50 6N8K 45 o 60S ribosomal protein L29 4932
51 6N8L 45 o 60S ribosomal protein L29 4932
52 6N8M 33 o 60S ribosomal protein L29 4932
53 6N8N 36 o 60S ribosomal protein L29 4932
54 6N8O 38 o 60S ribosomal protein L29 4932
55 6I7O 64 AV, XV 60S ribosomal protein L29 4932
56 6HD7 33 d 60S ribosomal protein L29 4932
57 6GQV 32 b 60S ribosomal protein L29 4932
58 6GQ1 32 b 60S ribosomal protein L29 4932
59 6GQB 32 b 60S ribosomal protein L29 4932
60 5MC6 62 AV 60S ribosomal protein L29 4932
61 5H4P 29 b 60S ribosomal protein L29 4932
62 5M1J 41 b5 60S ribosomal protein L29 4932
63 5T62 31 o 60S ribosomal protein L29 4932
64 5T6R 30 o 60S ribosomal protein L29 4932
65 5JUO 33 GA eL29 (yeast L29) 4932
66 5JUP 33 GA eL29 (yeast L29) 4932
67 5JUS 33 GA eL29 (yeast L29) 4932
68 5JUT 33 GA eL29 (yeast L29) 4932
69 5JUU 33 GA eL29 (yeast L29) 4932
70 5IT7 30 bb KLLA0D16071p 28985
71 5GAK 14 d 60S ribosomal protein L29 4932
72 5APN 30 b 60S ribosomal protein L29 4932
73 5APO 30 b 60S ribosomal protein L29 4932
74 3J77 29 79 60S ribosomal protein L29 4932
75 3J78 29 79 60S ribosomal protein L29 4932
76 3J6X 31 69 60S ribosomal protein L29 4932
77 3J6Y 31 69 60S ribosomal protein L29 4932
78 4V91 30 b EL29 RIBOSOMAL PROTEIN EL29 28985
79 4V8Y 62 Bb 60S RIBOSOMAL PROTEIN L29 4932
80 4V8Z 62 Bb 60S RIBOSOMAL PROTEIN L29 4932
81 4V8T 28 b 60S RIBOSOMAL PROTEIN L29 4932
82 4V6I 54 Bd 60S ribosomal protein rpL29 (L29e) 4932