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 69 Bf, Df 60S ribosomal protein L33-A 4932
2 4U4R 69 O3, o3 60S ribosomal protein L33-A 4932
3 4U3U 69 O3, o3 60S ribosomal protein L33-A 4932
4 5TBW 34 AG, DH 60S ribosomal protein L33-A 4932
5 4U3M 69 O3, o3 60S ribosomal protein L33-A 4932
6 4U3N 69 O3, o3 60S ribosomal protein L33-A 4932
7 4U52 69 O3, o3 60S ribosomal protein L33-A 4932
8 4U4Q 69 O3, o3 60S ribosomal protein L33-A 4932
9 4U6F 69 O3, o3 60S ribosomal protein L33-A 4932
10 4U4U 69 O3, o3 60S ribosomal protein L33-A 4932
11 4U4Z 69 O3, o3 60S ribosomal protein L33-A 4932
12 4U4Y 69 O3, o3 60S ribosomal protein L33-A 4932
13 4U4N 69 O3, o3 60S ribosomal protein L33-A 4932
14 4U55 69 O3, o3 60S ribosomal protein L33-A 4932
15 5DAT 69 O3, o3 60S ribosomal protein L33-A 4932
16 5I4L 69 O3, o3 60S ribosomal protein L33-A 4932
17 4U51 69 O3, o3 60S ribosomal protein L33-A 4932
18 6HHQ 34 AG, DH 60S ribosomal protein L33-A 4932
19 5OBM 34 O3, o3 60S ribosomal protein L33-A 4932
20 4U53 69 O3, o3 60S ribosomal protein L33-A 4932
21 5ON6 35 AG, DH 60S ribosomal protein L33-A 4932
22 4U50 69 O3, o3 60S ribosomal protein L33-A 4932
23 5NDV 34 O3, o3 60S ribosomal protein L33-A 4932
24 5LYB 69 O3, o3 60S ribosomal protein L33-A 4932
25 4U56 69 O3, o3 60S ribosomal protein L33-A 4932
26 5TGA 69 O3, o3 60S ribosomal protein L33-A 4932
27 5MEI 35 AG, DH 60S ribosomal protein L33-A 4932
28 5FCJ 69 O3, o3 60S ribosomal protein L33-A 4932
29 4U4O 69 O3, o3 60S ribosomal protein L33-A 4932
30 5DGV 69 O3, o3 60S ribosomal protein L33-A 4932
31 5DGE 69 O3, o3 60S ribosomal protein L33-A 4932
32 5NDW 57 O3, o3 60S ribosomal protein L33-A 4932
33 5NDG 69 O3, o3 60S ribosomal protein L33-A 4932
34 5FCI 69 O3, o3 60S ribosomal protein L33-A 4932
35 5DC3 69 O3, o3 60S ribosomal protein L33-A 4932
36 5DGF 69 O3, o3 60S ribosomal protein L33-A 4932
37 5TGM 69 O3, o3 60S ribosomal protein L33-A 4932
38 6T83 67 Q, fy 60S ribosomal protein L33-A 4932
39 6T7T 67 Lf 60S ribosomal protein L33-A 4932
40 6T7I 67 Lf 60S ribosomal protein L33-A 4932
41 6T4Q 66 Lf 60S ribosomal protein L33-A 4932
42 6S47 34 Ah 60S ribosomal protein L33-A 4932
43 6RZZ 31 f 60S ribosomal protein L33-A 4932
44 6S05 31 f 60S ribosomal protein L33-A 4932
45 6RI5 31 f 60S ribosomal protein L33-A 4932
46 6R84 47 h 60S ribosomal protein L33-A 4932
47 6R86 45 h 60S ribosomal protein L33-A 4932
48 6R87 46 h 60S ribosomal protein L33-A 4932
49 6QTZ 31 f 60S ribosomal protein L33-A 4932
50 6QT0 32 f 60S ribosomal protein L33-A 4932
51 6QIK 31 f 60S ribosomal protein L33-A 4932
52 6Q8Y 48 BK 60S ribosomal protein L33-A 4932
53 6N8J 13 f 60S ribosomal protein L33-A 4932
54 6N8K 13 f 60S ribosomal protein L33-A 4932
55 6N8L 13 f 60S ribosomal protein L33-A 4932
56 6N8M 37 s 60S ribosomal protein L33-A 4932
57 6N8N 40 s 60S ribosomal protein L33-A 4932
58 6N8O 42 s 60S ribosomal protein L33-A 4932
59 6I7O 68 BK, YK 60S ribosomal protein L33-A 4932
60 6HD7 37 h 60S ribosomal protein L33-A 4932
61 6GQV 36 f 60S ribosomal protein L33-A 4932
62 6GQ1 36 f 60S ribosomal protein L33-A 4932
63 6GQB 36 f 60S ribosomal protein L33-A 4932
64 6FT6 32 f 60S ribosomal protein L33-A 4932
65 6CB1 27 f 60S ribosomal protein L33-A 4932
66 5Z3G 32 j 60S ribosomal protein L33-A 4932
67 6C0F 27 f 60S ribosomal protein L33-A 4932
68 6EM1 20 f 60S ribosomal protein L33-A 4932
69 6EM3 12 f 60S ribosomal protein L33-A Backbone model 4932
70 6EM4 15 f 60S ribosomal protein L33-A Backbone model 4932
71 6EM5 15 f 60S ribosomal protein L33-A Backbone model 4932
72 6ELZ 15 f 60S ribosomal protein L33-A 4932
73 5MC6 77 BK 60S ribosomal protein L33-A 4932
74 5H4P 33 f 60S ribosomal protein L33-A 4932
75 5M1J 48 f5 60S ribosomal protein L33-A 4932
76 5T62 35 s 60S ribosomal protein L33-A 4932
77 5T6R 34 s 60S ribosomal protein L33-A 4932
78 5JUO 37 KA eL33 (yeast L33) 4932
79 5JUP 37 KA eL33 (yeast L33) 4932
80 5JUS 37 KA eL33 (yeast L33) 4932
81 5JUT 37 KA eL33 (yeast L33) 4932
82 5JUU 37 KA eL33 (yeast L33) 4932
83 5JCS 8 f 60S ribosomal protein L33-A 4932
84 3JCT 32 f 60S ribosomal protein L33-A 4932
85 5GAK 22 h 60S ribosomal protein L33-A 4932
86 5FL8 30 f 60S ribosomal protein L33-A 4932
87 5APN 34 f 60S ribosomal protein L33-A 4932
88 5APO 34 f 60S ribosomal protein L33-A 4932
89 3J77 33 83 60S ribosomal protein L33 4932
90 3J78 33 83 60S ribosomal protein L33 4932
91 3J6X 35 73 60S ribosomal protein L33 4932
92 3J6Y 35 73 60S ribosomal protein L33 4932
93 4V91 34 f EL33 RIBOSOMAL PROTEIN EL33 28985
94 4V7F 34 e 60S ribosomal protein L33 4932
95 4V8Y 66 Bf 60S RIBOSOMAL PROTEIN L33-A 4932
96 4V8Z 66 Bf 60S RIBOSOMAL PROTEIN L33-A 4932
97 4V8T 32 f 60S RIBOSOMAL PROTEIN L33-A 4932
98 4V6I 61 Bj 60S ribosomal protein rpL33 (L35ae) 4932