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 % 58 99 261
95 % 58 103 324
90 % 58 103 338
70 % 59 105 372
50 % 76 152 338
40 % 79 190 249
30 % 79 190 266
Entity #11 | Chains: G
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 89 304
95 % 58 91 394
90 % 58 91 407
70 % 59 93 426
50 % 78 175 287
40 % 79 177 289
30 % 79 177 314
Entity #12 | Chains: H
60S ribosomal protein L6-A protein, length: 176 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 96 271
95 % 58 99 350
90 % 58 100 353
70 % 59 102 380
50 % 60 103 438
40 % 61 107 448
30 % 61 107 469
Entity #13 | Chains: I
60S ribosomal protein L7-A protein, length: 244 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 99 258
95 % 58 99 351
90 % 58 99 361
70 % 59 101 385
50 % 78 177 279
40 % 78 177 293
30 % 78 176 318
Entity #14 | Chains: J
60S ribosomal protein L8-A protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 95 306
95 % 61 102 346
90 % 61 102 359
70 % 62 104 382
50 % 79 161 327
40 % 79 163 334
30 % 79 163 352
Entity #15 | Chains: K
60S ribosomal protein L9-A protein, length: 191 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 98 262
95 % 58 98 354
90 % 58 98 365
70 % 59 100 391
50 % 78 185 260
40 % 79 187 261
30 % 147 258 198
Entity #16 | Chains: M
60S ribosomal protein L11-A protein, length: 174 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 35 71 481
95 % 58 94 373
90 % 59 96 380
70 % 79 178 254
50 % 81 182 261
40 % 81 182 274
30 % 81 182 298
Entity #17 | Chains: N
60S ribosomal protein L13-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 97 269
95 % 57 97 363
90 % 57 97 377
70 % 58 99 401
50 % 76 168 312
40 % 77 175 297
30 % 77 175 320
Entity #18 | Chains: O
60S ribosomal protein L14-A protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 99 259
95 % 58 99 348
90 % 58 99 360
70 % 59 101 387
50 % 59 101 452
40 % 59 101 472
30 % 59 101 495
Entity #19 | Chains: Q
60S ribosomal protein L42-A protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 90 299
95 % 58 90 399
90 % 59 92 403
70 % 77 166 271
50 % 79 173 293
40 % 79 174 299
30 % 79 174 322
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 % 58 90 296
95 % 58 90 397
90 % 58 90 410
70 % 59 92 430
50 % 78 176 281
40 % 79 177 290
30 % 101 200 247
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 % 58 101 254
95 % 60 104 322
90 % 60 104 337
70 % 78 175 262
50 % 80 189 243
40 % 80 189 255
30 % 80 189 275
Entity #23 | Chains: b
60S ribosomal protein L16-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 52 91 293
95 % 52 91 391
90 % 58 98 368
70 % 59 100 393
50 % 78 177 275
40 % 78 178 286
30 % 78 178 311
Entity #24 | Chains: c
60S ribosomal protein L17-A protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 102 244
95 % 57 102 329
90 % 58 104 335
70 % 58 104 375
50 % 78 187 248
40 % 78 187 259
30 % 78 187 281
Entity #25 | Chains: d
60S ribosomal protein L18-A protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 99 260
95 % 58 99 349
90 % 59 101 349
70 % 59 101 388
50 % 77 178 286
40 % 77 183 278
30 % 77 183 301
Entity #26 | Chains: e
60S ribosomal protein L19-A protein, length: 189 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 55 93 284
95 % 55 93 380
90 % 55 93 396
70 % 56 96 414
50 % 76 176 285
40 % 76 177 295
30 % 76 177 317
Entity #27 | Chains: f
60S ribosomal protein L20-A protein, length: 172 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 97 270
95 % 57 97 365
90 % 58 99 364
70 % 58 99 406
50 % 76 168 316
40 % 77 169 316
30 % 77 170 336
Entity #28 | Chains: g
60S ribosomal protein L21-A protein, length: 160 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 93 285
95 % 58 93 382
90 % 59 95 388
70 % 59 95 418
50 % 77 167 315
40 % 77 173 310
30 % 79 180 306
Entity #29 | Chains: h
60S ribosomal protein L22-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 41 71 428
95 % 41 71 573
90 % 41 71 596
70 % 42 72 618
50 % 42 72 660
40 % 42 72 688
30 % 43 73 701
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 % 58 100 256
95 % 58 100 339
90 % 59 102 341
70 % 79 189 226
50 % 79 190 237
40 % 79 190 250
30 % 79 190 267
Entity #31 | Chains: j
60S ribosomal protein L24-A protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 41 64 445
95 % 43 66 580
90 % 43 66 603
70 % 44 67 638
50 % 44 67 669
40 % 50 111 465
30 % 50 111 488
Entity #32 | Chains: k
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 42 76 396
95 % 42 76 531
90 % 43 77 547
70 % 43 77 581
50 % 43 77 616
40 % 43 79 629
30 % 43 80 651
Entity #33 | Chains: l
60S ribosomal protein L26-A protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 104 239
95 % 58 104 320
90 % 59 106 332
70 % 59 106 370
50 % 78 184 257
40 % 78 184 269
30 % 78 184 291
Entity #34 | Chains: m
60S ribosomal protein L27-A protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 93 291
95 % 57 93 383
90 % 58 95 392
70 % 58 95 422
50 % 76 163 324
40 % 77 176 296
30 % 78 178 315
Entity #35 | Chains: n
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 91 298
95 % 58 94 374
90 % 59 96 376
70 % 59 96 413
50 % 78 180 270
40 % 79 181 277
30 % 79 183 296
Entity #36 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 85 314
95 % 57 85 426
90 % 58 87 437
70 % 58 87 465
50 % 58 87 499
40 % 58 87 529
30 % 58 87 556
Entity #37 | Chains: p
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 60 99 251
95 % 60 99 340
90 % 61 101 342
70 % 61 101 378
50 % 81 186 247
40 % 81 186 258
30 % 81 186 278
Entity #38 | Chains: q
60S ribosomal protein L31-A protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 97 267
95 % 58 97 361
90 % 58 97 375
70 % 59 99 399
50 % 78 177 278
40 % 78 177 292
30 % 78 177 316
Entity #39 | Chains: r
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 100 250
95 % 58 100 341
90 % 58 100 354
70 % 59 102 379
50 % 79 181 266
40 % 79 185 268
30 % 79 186 284
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 19716
95 % 4 5 17827
90 % 4 5 16683
70 % 4 5 16304
50 % 4 5 14719
40 % 4 5 13694
30 % 4 5 11939
Entity #40 | Chains: s
60S ribosomal protein L33-A protein, length: 107 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 98 265
95 % 57 98 362
90 % 57 98 370
70 % 58 100 396
50 % 76 173 300
40 % 77 175 307
30 % 77 175 332
Entity #41 | Chains: t
60S ribosomal protein L34-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 93 290
95 % 57 93 390
90 % 57 93 401
70 % 58 95 421
50 % 76 162 328
40 % 76 162 339
30 % 76 162 357
Entity #42 | Chains: u
60S ribosomal protein L35-A protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 103 241
95 % 58 103 326
90 % 58 103 340
70 % 59 105 373
50 % 77 179 283
40 % 78 190 248
30 % 79 192 257
Entity #43 | Chains: v
60S ribosomal protein L36-A protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 94 283
95 % 57 98 357
90 % 57 98 371
70 % 58 100 397
50 % 58 100 458
40 % 77 170 313
30 % 77 180 309
Entity #44 | Chains: w
60S ribosomal protein L37-A protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 100 257
95 % 58 100 338
90 % 58 100 355
70 % 65 141 306
50 % 78 185 256
40 % 78 185 267
30 % 78 185 289
Entity #45 | Chains: x
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 93 288
95 % 57 93 384
90 % 57 93 398
70 % 58 95 420
50 % 58 95 468
40 % 59 102 458
30 % 59 102 480
Entity #46 | Chains: y
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 97 266
95 % 59 97 358
90 % 59 97 372
70 % 77 168 267
50 % 78 180 268
40 % 79 184 270
30 % 79 184 292
Entity #47 | Chains: z
Ubiquitin-60S ribosomal protein L40 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 12 34 1381
95 % 13 35 1768
90 % 14 58 1038
70 % 14 61 1019
50 % 14 61 1043
40 % 14 61 1083
30 % 14 61 1130
Entity #48 | Chains: L
Ribosomal protein L12 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 4 27988
95 % 3 4 22990
90 % 3 4 21879
70 % 3 4 20044
50 % 15 66 1052
40 % 15 66 1091
30 % 15 66 1139
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 1766
95 % 15 31 2287
90 % 15 31 2338
70 % 16 32 2310
50 % 18 36 1853
40 % 18 36 1888
30 % 19 38 1779
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 13285
95 % 6 7 12952
90 % 6 8 11170
70 % 6 8 10726
50 % 6 8 9892
40 % 6 8 9385
30 % 6 8 8695
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 7284
95 % 9 11 8090
90 % 9 11 8021
70 % 9 11 7854
50 % 9 11 7356
40 % 9 11 7091
30 % 9 11 6659
Entity #8 | Chains: D
60S ribosomal protein L2-A protein, length: 254 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 58 93 287
95 % 58 93 377
90 % 59 95 386
70 % 77 166 268
50 % 78 179 272
40 % 146 250 194
30 % 146 250 203
Entity #9 | Chains: E
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 56 97 279
95 % 58 99 347
90 % 59 101 348
70 % 59 101 386
50 % 80 190 235
40 % 80 190 247
30 % 80 192 255

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 60 BW, DW 60S ribosomal protein L24-A 4932
2 4U4R 60 N4, n4 60S ribosomal protein L24-A 4932
3 4U3U 60 N4, n4 60S ribosomal protein L24-A 4932
4 4U3M 60 N4, n4 60S ribosomal protein L24-A 4932
5 4U3N 60 N4, n4 60S ribosomal protein L24-A 4932
6 4U52 60 N4, n4 60S ribosomal protein L24-A 4932
7 4U4Q 60 N4, n4 60S ribosomal protein L24-A 4932
8 4U6F 60 N4, n4 60S ribosomal protein L24-A 4932
9 4U4U 60 N4, n4 60S ribosomal protein L24-A 4932
10 4U4Z 60 N4, n4 60S ribosomal protein L24-A 4932
11 4U4Y 60 N4, n4 60S ribosomal protein L24-A 4932
12 4U4N 60 N4, n4 60S ribosomal protein L24-A 4932
13 4U55 60 N4, n4 60S ribosomal protein L24-A 4932
14 5DAT 60 N4, n4 60S ribosomal protein L24-A 4932
15 4U51 60 N4, n4 60S ribosomal protein L24-A 4932
16 6HHQ 25 7, CY 60S ribosomal protein L24-A 4932
17 5OBM 25 N4 60S ribosomal protein L24-A 4932
18 4U53 60 N4, n4 60S ribosomal protein L24-A 4932
19 4U50 60 N4, n4 60S ribosomal protein L24-A 4932
20 5NDV 25 N4, n4 60S ribosomal protein L24-A 4932
21 4U56 60 N4, n4 60S ribosomal protein L24-A 4932
22 5FCJ 60 N4, n4 60S ribosomal protein L24-A 4932
23 4U4O 60 N4, n4 60S ribosomal protein L24-A 4932
24 5DGV 60 N4, n4 60S ribosomal protein L24-A 4932
25 5DGE 60 N4, n4 60S ribosomal protein L24-A 4932
26 5NDW 48 N4, n4 60S ribosomal protein L24-A 4932
27 5NDG 60 N4, n4 60S ribosomal protein L24-A 4932
28 5FCI 60 N4, n4 60S ribosomal protein L24-A 4932
29 5DC3 60 N4, n4 60S ribosomal protein L24-A 4932
30 5DGF 60 N4, n4 60S ribosomal protein L24-A 4932
31 4V7R 51 BV, DV 60S ribosomal protein L24-A 4932
32 6UZ7 25 AW 60S ribosomal protein L24 28985
33 6T83 58 H, Wy 60S ribosomal protein L24-A 4932
34 6T7T 58 LW 60S ribosomal protein L24-A 4932
35 6T7I 58 LW 60S ribosomal protein L24-B 4932
36 6T59 22 W3 eL24 9986
37 6SGC 57 W2 TRASH domain-containing protein 9986
38 6S47 25 AY 60S ribosomal protein L24-A 4932
39 6RZZ 45 v 60S ribosomal protein L24-A 4932
40 6S05 42 v 60S ribosomal protein L24-A 4932
41 6P5I 60 AW eL24 9986
42 6P5J 60 AW eL24 9986
43 6P5K 25 AW eL24 9986
44 6P5N 25 AW eL24 9986
45 6RI5 42 v 60S ribosomal protein L24-A 4932
46 6QTZ 42 v 60S ribosomal protein L24-A 4932
47 6QT0 42 v 60S ribosomal protein L24-A 4932
48 6QIK 42 v 60S ribosomal protein L24-A 4932
49 6N8M 28 j 60S ribosomal protein L24-A 4932
50 6N8N 31 j 60S ribosomal protein L24-A 4932
51 6N8O 33 j 60S ribosomal protein L24-A 4932
52 6IP5 25 2Q 60S ribosomal protein L24 9606
53 6IP6 25 2Q 60S ribosomal protein L24 9606
54 6IP8 25 2Q 60S ribosomal protein L24 9606
55 6MTB 28 W 60S ribosomal protein L24 9986
56 6MTC 26 W 60S ribosomal protein L24 9986
57 6MTD 25 W eL24 9986
58 6MTE 25 W eL24 9986
59 6HD7 28 Y 60S ribosomal protein L24-A 4932
60 6HCM 57 W3 eL24 9986
61 6HCF 57 W3 eL24 9986
62 6D9J 22 W eL24 9986
63 6D90 22 W eL24 9986
64 6EK0 25 LW 60S ribosomal protein L24 9606
65 5MC6 45 AE 60S ribosomal protein L24-A 4932
66 5H4P 24 W 60S ribosomal protein L24-A 4932
67 5LZS 22 W uL24 9986
68 5LZT 22 W eL24 9986
69 5LZU 22 W eL24 9986
70 5LZV 22 W eL24 9986
71 5LZW 22 W eL24 9986
72 5LZX 22 W eL24 9986
73 5LZY 22 W eL24 9986
74 5LZZ 22 W eL24 9986
75 5T62 26 j 60S ribosomal protein L24-A 4932
76 5T6R 25 j 60S ribosomal protein L24-A 4932
77 5T2C 13 Q 60S ribosomal protein L24 9606
78 5LKS 25 LW 60S ribosomal protein L24 9606
79 5JUO 28 BA eL24 (yeast L24) 4932
80 5JUP 28 BA eL24 (yeast L24) 4932
81 5JUS 28 BA eL24 (yeast L24) 4932
82 5JUT 28 BA eL24 (yeast L24) 4932
83 5JUU 28 BA eL24 (yeast L24) 4932
84 5GAK 4 Y 60S ribosomal protein L24-A 4932
85 5APN 25 W 60S ribosomal protein L24-A 4932
86 5APO 25 W 60S ribosomal protein L24-A 4932
87 4UG0 25 LW 60S RIBOSOMAL PROTEIN L24 9606
88 5AJ0 25 AW 60S ribosomal protein L24 9606
89 3J92 22 W eL24 9986
90 4D67 22 W 60S RIBOSOMAL PROTEIN L24 9986
91 4D5Y 22 W 60S RIBOSOMAL PROTEIN EL24 9986
92 3J7O 25 W Ribosomal protein eL24 9823
93 3J7P 26 W Ribosomal protein eL24 9823
94 3J7Q 25 W Ribosomal protein eL24 9823
95 3J7R 25 W Ribosomal protein eL24 9823
96 4UJC 28 BW 60S RIBOSOMAL PROTEIN L24 9986
97 4UJD 25 AW 60S RIBOSOMAL PROTEIN L24 9986
98 3J77 24 74 60S ribosomal protein L24 4932
99 3J78 24 74 60S ribosomal protein L24 4932
100 3J6X 26 64 60S ribosomal protein L24 4932
101 3J6Y 26 64 60S ribosomal protein L24 4932
102 4UJE 59 CW 60S RIBOSOMAL PROTEIN L24 9986
103 4V91 25 W EL24 RIBOSOMAL PROTEIN EL24 28985
104 4V7E 52 CW 60S ribosomal protein L24E 4565
105 4V8Y 57 BW 60S RIBOSOMAL PROTEIN L24-A 4932
106 4V8Z 57 BW 60S RIBOSOMAL PROTEIN L24-A 4932
107 4V6W 58 CW 60S ribosomal protein L24 7227
108 4V6X 58 CW 60S ribosomal protein L24 9606
109 4V8T 23 W 60S RIBOSOMAL PROTEIN L24-A 4932
110 4V6I 51 BZ 60S ribosomal protein rpL24 (L24e) 4932
111 4V5Z 74 Bu 60S Ribosomal protein L24 9612