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 95 255
95 % 54 99 322
90 % 54 99 332
70 % 54 100 372
50 % 67 143 337
40 % 68 179 259
30 % 68 179 274
Entity #11 | Chains: G
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 85 298
95 % 54 87 387
90 % 54 87 403
70 % 54 88 435
50 % 67 164 287
40 % 68 166 294
30 % 68 166 311
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 95 254
95 % 54 95 343
90 % 54 96 349
70 % 54 97 384
50 % 55 98 441
40 % 56 102 451
30 % 56 102 466
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 95 252
95 % 54 95 341
90 % 54 95 356
70 % 54 97 379
50 % 67 167 276
40 % 67 167 293
30 % 67 166 316
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 91 302
95 % 57 98 347
90 % 57 98 358
70 % 57 99 393
50 % 70 152 331
40 % 70 154 337
30 % 70 154 348
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 94 257
95 % 54 94 348
90 % 54 94 360
70 % 54 95 396
50 % 67 174 262
40 % 68 176 269
30 % 136 247 202
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 67 469
95 % 54 90 369
90 % 54 91 376
70 % 68 167 255
50 % 70 171 264
40 % 70 171 279
30 % 70 171 299
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 93 264
95 % 53 93 359
90 % 53 93 371
70 % 53 94 405
50 % 65 157 319
40 % 66 164 305
30 % 66 164 321
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 95 251
95 % 54 95 345
90 % 54 95 355
70 % 54 96 389
50 % 54 96 452
40 % 54 96 480
30 % 54 96 503
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 86 295
95 % 54 86 392
90 % 54 87 400
70 % 66 158 269
50 % 68 165 284
40 % 68 166 298
30 % 68 166 317
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 86 297
95 % 54 86 395
90 % 54 86 409
70 % 54 87 439
50 % 67 165 282
40 % 68 166 296
30 % 90 189 250
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 97 248
95 % 55 99 327
90 % 55 99 338
70 % 67 164 260
50 % 69 178 250
40 % 69 178 265
30 % 69 178 282
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 87 291
95 % 48 87 388
90 % 54 94 361
70 % 54 95 395
50 % 67 166 278
40 % 67 167 290
30 % 67 167 310
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 98 237
95 % 53 98 328
90 % 53 99 334
70 % 53 99 376
50 % 67 176 254
40 % 67 176 270
30 % 67 176 285
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 95 253
95 % 54 95 342
90 % 54 96 348
70 % 54 96 390
50 % 66 167 293
40 % 66 172 285
30 % 66 172 304
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 89 273
95 % 51 89 372
90 % 51 89 387
70 % 51 91 417
50 % 65 165 290
40 % 65 166 300
30 % 65 166 319
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 93 268
95 % 53 93 363
90 % 53 94 370
70 % 53 94 410
50 % 65 157 322
40 % 66 158 327
30 % 66 159 338
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 89 274
95 % 54 89 377
90 % 54 90 382
70 % 54 90 423
50 % 66 156 321
40 % 66 162 320
30 % 68 169 305
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 68 416
95 % 38 68 550
90 % 38 68 577
70 % 38 68 624
50 % 38 68 661
40 % 38 68 696
30 % 39 69 697
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 96 243
95 % 54 96 336
90 % 54 97 345
70 % 68 178 231
50 % 68 179 240
40 % 68 179 258
30 % 68 179 273
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 63 419
95 % 40 63 556
90 % 40 63 582
70 % 40 63 629
50 % 40 63 666
40 % 40 101 493
30 % 40 101 515
Entity #32 | Chains: k
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 39 73 393
95 % 39 73 515
90 % 39 73 541
70 % 39 73 581
50 % 39 73 612
40 % 39 75 633
30 % 39 76 658
Entity #33 | Chains: l
60S ribosomal protein L26-A protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 100 230
95 % 54 100 317
90 % 54 101 325
70 % 54 101 367
50 % 67 173 259
40 % 67 173 277
30 % 67 173 296
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 89 286
95 % 53 89 382
90 % 53 90 391
70 % 53 90 428
50 % 65 152 332
40 % 66 165 302
30 % 67 167 313
Entity #35 | Chains: n
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 87 294
95 % 54 90 368
90 % 54 91 377
70 % 54 91 414
50 % 67 169 271
40 % 68 170 284
30 % 68 172 298
Entity #36 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 81 310
95 % 53 81 411
90 % 53 82 424
70 % 53 82 464
50 % 53 82 497
40 % 53 82 529
30 % 53 82 551
Entity #37 | Chains: p
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 95 249
95 % 56 95 335
90 % 56 96 342
70 % 56 96 381
50 % 69 136 350
40 % 69 136 369
30 % 69 136 375
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 93 262
95 % 54 93 354
90 % 54 93 367
70 % 54 94 398
50 % 67 166 280
40 % 67 166 295
30 % 67 166 312
Entity #39 | Chains: r
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 96 245
95 % 54 96 338
90 % 54 96 351
70 % 54 97 385
50 % 68 170 267
40 % 68 174 272
30 % 68 175 290
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 18287
95 % 4 5 17110
90 % 4 5 16819
70 % 4 5 15731
50 % 4 5 14204
40 % 4 5 13199
30 % 4 5 12001
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 94 260
95 % 53 94 353
90 % 53 94 365
70 % 53 95 397
50 % 65 162 304
40 % 66 164 317
30 % 66 164 331
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 89 289
95 % 53 89 383
90 % 53 89 398
70 % 53 90 431
50 % 65 151 333
40 % 65 151 351
30 % 65 151 361
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 99 233
95 % 54 99 320
90 % 54 99 330
70 % 54 100 371
50 % 66 168 283
40 % 67 179 257
30 % 68 181 268
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 90 277
95 % 53 94 356
90 % 53 94 368
70 % 53 95 400
50 % 53 95 455
40 % 66 159 322
30 % 66 169 306
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 96 244
95 % 54 96 337
90 % 54 96 350
70 % 54 128 314
50 % 67 174 258
40 % 67 174 275
30 % 67 174 292
Entity #45 | Chains: x
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 89 283
95 % 53 89 381
90 % 53 89 396
70 % 53 90 427
50 % 53 90 471
40 % 54 97 468
30 % 54 97 488
Entity #46 | Chains: y
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 92 267
95 % 54 92 360
90 % 54 92 372
70 % 66 157 271
50 % 67 170 269
40 % 67 172 278
30 % 68 173 295
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 1547
95 % 9 31 2053
90 % 10 54 1085
70 % 10 57 1037
50 % 10 57 1086
40 % 10 57 1122
30 % 10 57 1170
Entity #48 | Chains: L
Ribosomal protein L12 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 4 22359
95 % 3 4 24080
90 % 3 4 18792
70 % 3 4 21384
50 % 13 64 1039
40 % 13 64 1077
30 % 13 64 1116
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 1675
95 % 15 31 2212
90 % 15 31 2269
70 % 16 32 2256
50 % 18 36 1779
40 % 18 36 1836
30 % 19 38 1712
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 12592
95 % 6 7 12496
90 % 6 8 11267
70 % 6 8 10394
50 % 6 8 9629
40 % 6 8 9130
30 % 6 8 8700
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 6944
95 % 9 11 7563
90 % 9 11 7538
70 % 9 11 7368
50 % 9 11 6967
40 % 9 11 6745
30 % 9 11 6333
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 89 275
95 % 54 89 374
90 % 54 90 381
70 % 66 155 273
50 % 67 168 273
40 % 135 239 196
30 % 135 239 206
Entity #9 | Chains: E
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 52 93 270
95 % 54 95 344
90 % 54 96 353
70 % 54 96 391
50 % 69 179 237
40 % 69 179 256
30 % 69 181 267

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 51 BN, DN 60S ribosomal protein L15-A 4932
2 4U4R 51 M5, m5 60S ribosomal protein L15-A 4932
3 4U3U 51 M5, m5 60S ribosomal protein L15-A 4932
4 5TBW 16 CP, v 60S ribosomal protein L15-A 4932
5 4U3M 51 M5, m5 60S ribosomal protein L15-A 4932
6 4U3N 51 M5, m5 60S ribosomal protein L15-A 4932
7 4U52 51 M5, m5 60S ribosomal protein L15-A 4932
8 4U4Q 51 M5, m5 60S ribosomal protein L15-A 4932
9 4U6F 51 M5, m5 60S ribosomal protein L15-A 4932
10 4U4U 51 M5, m5 60S ribosomal protein L15-A 4932
11 4U4Z 51 M5, m5 60S ribosomal protein L15-A 4932
12 4U4Y 51 M5, m5 60S ribosomal protein L15-A 4932
13 4U4N 51 M5, m5 60S ribosomal protein L15-A 4932
14 4U55 51 M5, m5 60S ribosomal protein L15-A 4932
15 5DAT 51 M5 60S ribosomal protein L15-A 4932
16 5DAT 82 m5 60S ribosomal protein L15-A 4932
17 5I4L 51 M5, m5 60S ribosomal protein L15-A 4932
18 4U51 51 M5, m5 60S ribosomal protein L15-A 4932
19 6HHQ 16 CP, v 60S ribosomal protein L15-A 4932
20 5OBM 16 M5, m5 60S ribosomal protein L15-A 4932
21 4U53 51 M5, m5 60S ribosomal protein L15-A 4932
22 5ON6 16 CP, v 60S ribosomal protein L15-A 4932
23 4U50 51 M5, m5 60S ribosomal protein L15-A 4932
24 5NDV 16 M5, m5 60S ribosomal protein L15-A 4932
25 5LYB 51 M5, m5 60S ribosomal protein L15-A 4932
26 4U56 51 M5, m5 60S ribosomal protein L15-A 4932
27 5TGA 51 M5, m5 60S ribosomal protein L15-A 4932
28 5MEI 16 CP, v 60S ribosomal protein L15-A 4932
29 5FCJ 51 M5, m5 60S ribosomal protein L15-A 4932
30 4U4O 51 M5, m5 60S ribosomal protein L15-A 4932
31 5DGV 51 M5, m5 60S ribosomal protein L15-A 4932
32 5DGE 51 M5, m5 60S ribosomal protein L15-A 4932
33 5NDW 39 M5, m5 60S ribosomal protein L15-A 4932
34 5NDG 51 M5, m5 60S ribosomal protein L15-A 4932
35 5FCI 51 M5, m5 60S ribosomal protein L15-A 4932
36 5DC3 51 M5, m5 60S ribosomal protein L15-A 4932
37 5DGF 51 M5, m5 60S ribosomal protein L15-A 4932
38 5TGM 51 M5, m5 60S ribosomal protein L15-A 4932
39 4V7R 44 BO, DO 60S ribosomal protein L15-A 4932
40 6S47 16 AP 60S ribosomal protein L15-A 4932
41 6RZZ 14 O 60S ribosomal protein L15-A 4932
42 6S05 14 O 60S ribosomal protein L15-A 4932
43 6RI5 14 O 60S ribosomal protein L15-A 4932
44 6R84 17 p 60S ribosomal protein L15-A 4932
45 6R86 16 p 60S ribosomal protein L15-A 4932
46 6R87 16 p 60S ribosomal protein L15-A 4932
47 6QTZ 14 O 60S ribosomal protein L15-A 4932
48 6QT0 15 O 60S ribosomal protein L15-A 4932
49 6QIK 14 O 60S ribosomal protein L15-A 4932
50 6Q8Y 18 AQ 60S ribosomal protein L15-A 4932
51 6N8J 27 N 60S ribosomal protein L15-A 4932
52 6N8K 26 N 60S ribosomal protein L15-A 4932
53 6N8L 26 N 60S ribosomal protein L15-A 4932
54 6N8M 19 a 60S ribosomal protein L15-A 4932
55 6N8N 22 a 60S ribosomal protein L15-A 4932
56 6N8O 24 a 60S ribosomal protein L15-A 4932
57 6I7O 16 AQ, XQ 60S ribosomal protein L15-A 4932
58 6HD7 19 P 60S ribosomal protein L15-A 4932
59 6GQV 18 N 60S ribosomal protein L15-A 4932
60 6GQ1 18 N 60S ribosomal protein L15-A 4932
61 6GQB 18 N 60S ribosomal protein L15-A 4932
62 6FT6 14 N 60S ribosomal protein L15-A 4932
63 6CB1 14 N 60S ribosomal protein L15-A 4932
64 5Z3G 18 R 60S ribosomal protein L15-A 4932
65 6C0F 15 N 60S ribosomal protein L15-A 4932
66 6EM1 28 N 60S ribosomal protein L15-A 4932
67 6EM3 19 N 60S ribosomal protein L15-A Backbone model 4932
68 6EM4 22 N 60S ribosomal protein L15-A Backbone model 4932
69 6EM5 5 N 60S ribosomal protein L15-A Backbone model 4932
70 6ELZ 5 N 60S ribosomal protein L15-A 4932
71 5MC6 57 AQ 60S ribosomal protein L15-A 4932
72 5H4P 15 N 60S ribosomal protein L15-A 4932
73 5M1J 63 N5 60S ribosomal protein L15-A 4932
74 5T62 17 a 60S ribosomal protein L15-A 4932
75 5T6R 16 a 60S ribosomal protein L15-A 4932
76 5JUO 19 S eL15 (yeast L15) 4932
77 5JUP 19 S eL15 (yeast L15) 4932
78 5JUS 19 S eL15 (yeast L15) 4932
79 5JUT 19 S eL15 (yeast L15) 4932
80 5JUU 19 S eL15 (yeast L15) 4932
81 5JCS 27 N 60S ribosomal protein L15-A 4932
82 5IT7 16 NN Ribosomal protein L15 28985
83 3JCT 14 N 60S ribosomal protein L15-A 4932
84 5GAK 37 P 60S ribosomal protein L15-A 4932
85 5FL8 14 N 60S ribosomal protein L15-A 4932
86 5APN 16 N 60S ribosomal protein L15-A 4932
87 5APO 16 N 60S ribosomal protein L15-A 4932
88 3J77 15 65 60S ribosomal protein L15 4932
89 3J78 15 65 60S ribosomal protein L15 4932
90 3J6X 17 55 60S ribosomal protein L15 4932
91 3J6Y 17 55 60S ribosomal protein L15 4932
92 4V91 16 N EL15 RIBOSOMAL PROTEIN EL15 28985
93 4V7F 18 O 60S ribosomal protein L15 4932
94 4V8Y 48 BN 60S RIBOSOMAL PROTEIN L15-A 4932
95 4V8Z 48 BN 60S RIBOSOMAL PROTEIN L15-A 4932
96 4V8T 14 N 60S RIBOSOMAL PROTEIN L15-A 4932
97 4V6I 43 BP 60S ribosomal protein rpL15 (L15e) 4932
98 4V7H 36 BL 60S ribosomal protein L15(A) 5541
99 4V4B 31 BL 60S ribosomal protein L15-A 4932