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 % 75 116 271
95 % 75 120 324
90 % 75 120 343
70 % 76 78 375
50 % 96 172 339
40 % 114 225 261
30 % 114 223 271
Entity #11 | Chains: G
60S ribosomal protein L5 protein, length: 297 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 72 104 309
95 % 73 106 393
90 % 73 106 416
70 % 74 79 441
50 % 111 208 282
40 % 113 212 285
30 % 113 211 299
Entity #12 | Chains: H
60S ribosomal protein L6-A protein, length: 176 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 110 288
95 % 74 73 355
90 % 74 116 367
70 % 76 41 390
50 % 77 120 429
40 % 78 124 447
30 % 78 124 464
Entity #13 | Chains: I
60S ribosomal protein L7-A protein, length: 244 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 75 116 273
95 % 75 116 351
90 % 75 116 369
70 % 76 118 400
50 % 114 213 274
40 % 114 213 281
30 % 115 213 296
Entity #14 | Chains: J
60S ribosomal protein L8-A protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 71 112 305
95 % 78 119 347
90 % 78 119 368
70 % 79 121 397
50 % 114 196 307
40 % 115 199 311
30 % 115 195 328
Entity #15 | Chains: K
60S ribosomal protein L9-A protein, length: 191 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 85 277
95 % 75 115 354
90 % 75 115 373
70 % 76 22 405
50 % 76 121 435
40 % 115 223 265
30 % 187 298 198
Entity #16 | Chains: M
60S ribosomal protein L11-A protein, length: 174 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 48 95 494
95 % 73 109 381
90 % 74 112 394
70 % 112 211 248
50 % 116 217 263
40 % 116 217 274
30 % 116 219 286
Entity #17 | Chains: N
60S ribosomal protein L13-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 114 283
95 % 74 114 364
90 % 74 114 386
70 % 75 116 415
50 % 75 116 457
40 % 113 211 287
30 % 113 211 302
Entity #18 | Chains: O
60S ribosomal protein L14-A protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 75 116 272
95 % 75 116 346
90 % 75 116 366
70 % 76 121 399
50 % 76 118 448
40 % 76 118 472
30 % 76 118 491
Entity #19 | Chains: Q
60S ribosomal protein L42-A protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 68 100 323
95 % 68 100 418
90 % 69 102 434
70 % 105 192 275
50 % 109 206 284
40 % 109 207 292
30 % 109 207 306
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 % 74 106 304
95 % 74 106 394
90 % 74 106 417
70 % 75 108 442
50 % 115 213 272
40 % 115 213 279
30 % 137 230 259
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 % 75 118 265
95 % 77 120 323
90 % 77 121 342
70 % 113 210 249
50 % 117 226 254
40 % 187 299 188
30 % 187 304 199
Entity #23 | Chains: b
60S ribosomal protein L16-A protein, length: 199 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 69 108 300
95 % 69 108 388
90 % 75 115 375
70 % 76 117 402
50 % 113 212 276
40 % 113 213 280
30 % 113 212 295
Entity #24 | Chains: c
60S ribosomal protein L17-A protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 16 256
95 % 74 136 329
90 % 75 121 339
70 % 75 146 381
50 % 114 4 257
40 % 115 227 258
30 % 185 301 195
Entity #25 | Chains: d
60S ribosomal protein L18-A protein, length: 186 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 75 116 269
95 % 75 76 344
90 % 76 118 354
70 % 76 118 394
50 % 112 208 281
40 % 113 219 275
30 % 113 219 288
Entity #26 | Chains: e
60S ribosomal protein L19-A protein, length: 189 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 72 110 289
95 % 72 110 374
90 % 72 110 401
70 % 73 113 420
50 % 112 212 277
40 % 112 213 284
30 % 112 122 298
Entity #27 | Chains: f
60S ribosomal protein L20-A protein, length: 172 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 114 284
95 % 74 114 369
90 % 75 96 379
70 % 75 116 417
50 % 111 203 296
40 % 112 204 302
30 % 114 203 307
Entity #28 | Chains: g
60S ribosomal protein L21-A protein, length: 160 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 75 110 291
95 % 75 110 375
90 % 76 112 390
70 % 76 112 423
50 % 112 202 297
40 % 112 200 303
30 % 116 217 287
Entity #29 | Chains: h
60S ribosomal protein L22-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 53 83 435
95 % 53 107 557
90 % 53 83 582
70 % 54 84 595
50 % 54 9 635
40 % 54 84 679
30 % 55 85 675
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 % 75 117 267
95 % 75 117 336
90 % 76 119 351
70 % 115 222 240
50 % 120 233 244
40 % 120 233 250
30 % 123 240 252
Entity #31 | Chains: j
60S ribosomal protein L24-A protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 45 23 515
95 % 47 70 649
90 % 47 70 683
70 % 48 29 699
50 % 48 71 730
40 % 68 118 474
30 % 68 129 492
Entity #32 | Chains: k
60S ribosomal protein L25 protein, length: 142 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 54 88 410
95 % 54 88 516
90 % 55 89 537
70 % 55 89 565
50 % 55 89 596
40 % 55 91 615
30 % 55 4 643
Entity #33 | Chains: l
60S ribosomal protein L26-A protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 75 121 249
95 % 75 121 322
90 % 76 123 338
70 % 76 123 371
50 % 114 220 261
40 % 114 220 269
30 % 114 43 280
Entity #34 | Chains: m
60S ribosomal protein L27-A protein, length: 136 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 110 297
95 % 74 110 382
90 % 75 112 395
70 % 75 112 427
50 % 111 198 306
40 % 113 212 286
30 % 115 113 292
Entity #35 | Chains: n
60S ribosomal protein L28 protein, length: 149 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 108 301
95 % 75 87 371
90 % 76 114 385
70 % 76 113 419
50 % 114 216 264
40 % 116 218 272
30 % 119 223 273
Entity #36 | Chains: o
60S ribosomal protein L29 protein, length: 59 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 67 95 348
95 % 67 10 446
90 % 68 97 458
70 % 68 87 474
50 % 68 97 518
40 % 68 97 548
30 % 68 97 579
Entity #37 | Chains: p
60S ribosomal protein L30 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 77 116 264
95 % 77 116 343
90 % 78 118 353
70 % 78 118 392
50 % 94 164 351
40 % 94 164 365
30 % 94 164 375
Entity #38 | Chains: q
60S ribosomal protein L31-A protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 75 114 279
95 % 75 114 360
90 % 75 114 380
70 % 76 116 407
50 % 113 212 275
40 % 113 212 282
30 % 113 212 297
Entity #39 | Chains: r
60S ribosomal protein L32 protein, length: 130 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 75 117 260
95 % 75 117 335
90 % 75 117 359
70 % 76 119 389
50 % 113 215 266
40 % 115 221 266
30 % 115 222 276
Entity #4 | Chains: Y
Tyrosine-protein phosphatase YVH1 protein, length: 364 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 4 1 21682
95 % 4 5 18646
90 % 4 5 18274
70 % 4 5 17702
50 % 4 5 15172
40 % 4 2 14070
30 % 4 5 13377
Entity #40 | Chains: s
60S ribosomal protein L33-A protein, length: 107 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 115 278
95 % 74 115 361
90 % 74 115 381
70 % 75 117 409
50 % 111 203 287
40 % 113 207 291
30 % 114 213 303
Entity #41 | Chains: t
60S ribosomal protein L34-A protein, length: 121 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 68 295
95 % 74 110 384
90 % 74 110 406
70 % 75 112 430
50 % 111 83 308
40 % 113 200 313
30 % 114 205 308
Entity #42 | Chains: u
60S ribosomal protein L35-A protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 75 120 251
95 % 75 148 326
90 % 75 120 348
70 % 76 122 376
50 % 114 216 273
40 % 115 227 257
30 % 117 230 261
Entity #43 | Chains: v
60S ribosomal protein L36-A protein, length: 100 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 111 290
95 % 74 69 362
90 % 74 114 382
70 % 75 117 412
50 % 75 117 454
40 % 112 205 295
30 % 112 215 291
Entity #44 | Chains: w
60S ribosomal protein L37-A protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 75 81 262
95 % 75 117 339
90 % 75 117 362
70 % 76 122 377
50 % 113 220 259
40 % 113 220 267
30 % 113 220 278
Entity #45 | Chains: x
60S ribosomal protein L38 protein, length: 78 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 110 293
95 % 74 110 379
90 % 74 110 408
70 % 75 112 432
50 % 75 112 465
40 % 76 119 466
30 % 76 119 483
Entity #46 | Chains: y
60S ribosomal protein L39 protein, length: 51 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 112 285
95 % 74 112 370
90 % 74 112 391
70 % 110 33 261
50 % 115 220 260
40 % 115 220 268
30 % 115 220 279
Entity #47 | Chains: z
Ubiquitin-60S ribosomal protein L40 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 16 30 1345
95 % 17 11 1713
90 % 30 2 881
70 % 30 85 871
50 % 30 11 887
40 % 31 27 907
30 % 31 72 944
Entity #48 | Chains: L
Ribosomal protein L12 protein, length: 165 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 1 30583
95 % 3 4 24487
90 % 3 1 23743
70 % 3 4 21656
50 % 23 74 1035
40 % 23 74 1070
30 % 23 74 1123
Entity #5 | Chains: X
Eukaryotic translation initiation factor 6 protein, length: 245 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 38 1555
95 % 22 38 2001
90 % 22 38 2058
70 % 27 43 1863
50 % 29 47 1615
40 % 29 47 1644
30 % 30 49 1590
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 14171
95 % 6 7 14349
90 % 6 4 11722
70 % 6 8 11191
50 % 6 4 11084
40 % 6 8 10440
30 % 6 8 9543
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 5 8295
95 % 9 11 8885
90 % 9 11 8829
70 % 9 11 8559
50 % 9 7 8020
40 % 12 4 6170
30 % 12 7 5868
Entity #8 | Chains: D
60S ribosomal protein L2-A protein, length: 254 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 74 110 292
95 % 74 109 385
90 % 75 87 397
70 % 111 200 264
50 % 113 214 268
40 % 185 289 196
30 % 185 289 206
Entity #9 | Chains: E
60S ribosomal protein L3 protein, length: 387 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 73 114 287
95 % 75 116 348
90 % 76 118 357
70 % 76 118 398
50 % 117 227 250
40 % 117 227 256
30 % 117 224 262

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 3FSA 1 A Azurin 287
2 3FS9 1 A Azurin 287
3 2CCW 1 A AZURIN II 85698
4 2FT6 1 A Azurin 287
5 3U25 1 A, B Azurin unp residues 22-148 287
6 2FT7 1 A Azurin 287
7 3N2J 1 A, B, C, D, E, F, G, H, I, J, K, L Azurin 287
8 2I7S 1 A, B, C, D Azurin Rhenium-modified azurin 287
9 2FNW 1 A, B Azurin 287
10 2FT8 1 A Azurin 287
11 2HX7 1 A, B Azurin 287
12 4BWW 1 A, B, C, D AZURIN MTSSL SPIN LABEL ATTACHED TO CYSTEINE INTRODUCED AT POSITION 21 287
13 1XB3 1 A, B Azurin 287
14 1JZG 1 A AZURIN 287
15 2HX8 1 A, B Azurin 287
16 3IBO 1 A, B, C, D Azurin 287
17 4KOC 1 A Azurin UNP residues 21-148 287
18 2XV2 1 A AZURIN 287
19 2GHZ 1 A, B Azurin 287
20 4MFH 1 A, B, C Azurin 287
21 2XV0 1 A AZURIN 287
22 1JZF 1 A AZURIN 287
23 1NWP 1 A, B AZURIN 303
24 1CUO 1 A PROTEIN (AZURIN ISO-2) 32038
25 4JKN 1 A, B, C, D Azurin UNP residues 21-148 287 1.20.9.1 | Details
26 6GYI 1 A, B, C, D Azurin 287
27 2I7O 1 A Azurin 287
28 4QKT 1 A, B Azurin 287
29 2HX9 1 A, B Azurin 287
30 2GI0 1 A, B Azurin 287
31 1XB6 1 A, B Azurin 287
32 1CC3 1 A, B PROTEIN (CUA AZURIN) AZURINE WITH THE FOLLOWING MUTATIONS: THE LOOP 113-118 TFPGHS WAS REPLACED WITH 113-120 SELCGINH 287
33 2AZA 1 A, B AZURIN 85698
34 1AZC 1 A, B AZURIN 85698
35 1JZI 1 A, B AZURIN 287
36 4K9J 1 A Azurin 287
37 4HHG 1 A Azurin 287
38 2FTA 1 A, B, C, D Azurin 287
39 1AIZ 1 A, B AZURIN 32002
40 3UGE 1 A, B, C, D Azurin UNP residues 21-148 287
41 1DYZ 1 A AZURIN II 85698
42 1DZ0 1 A AZURIN II 85698
43 1GR7 1 A, B, C, D AZURIN OXIDIZED CYSTEINE AT POSITION 26. 287
44 1JZE 1 A azurin 287
45 4KO5 1 A, B Azurin UNP residues 21-148 287
46 6MJS 1 A, B, C, D Azurin 287
47 1UAT 1 A Azurin iso-2 32038
48 3FT0 1 A, B Azurin 287
49 4KOB 1 A, B, C, D Azurin UNP residues 21-148 287
50 2AZU 1 A, B, C, D AZURIN 287
51 1NWO 1 A, B AZURIN 303
52 1VLX 1 A, B, C, D AZURIN COBALT FORM 287
53 6MJR 1 A, B, C, D Azurin 287
54 1E65 1 A, B, C, D AZURIN 287
55 4KO6 1 A, B, C, D Azurin UNP residues 21-148 287
56 1URI 1 A, B AZURIN 32002
57 1A4A 1 A, B AZURIN 32002
58 1E5Y 1 A, B, C, D AZURIN 287
59 2IAA 3 C Azurin 511
60 3FQY 1 A Azurin 287
61 5I26 1 A, B, C, D Azurin 287
62 1JZJ 1 A, B azurin 287
63 3JTB 1 A, B, C, D Azurin 287
64 3FQ1 1 A Azurin 287
65 1A4B 1 A, B AZURIN 32002
66 3FQ2 1 A Azurin 287
67 1JZH 1 A AZURIN 287
68 1JOI 1 A AZURIN HOLO AZURIN 294
69 1I53 1 A, B AZURIN 287
70 4WKX 1 A, B Azurin 287
71 3AZU 1 A, B, C, D AZURIN 287
72 3FSZ 1 A, B Azurin 287
73 1EZL 1 A, B, C, D AZURIN 287
74 1JVL 1 A, B Azurin Azurin 287
75 1E5Z 1 A, B, C, D AZURIN 287
76 3FSW 1 A, B, C, D Azurin 287
77 6MJT 1 A, B Azurin 287
78 1XB8 1 A, C Azurin 287
79 1R1C 1 A, B, C, D Azurin 287
80 5I28 1 A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P Azurin 287
81 3FPY 1 A Azurin 287
82 1AZB 1 A, B AZURIN 85698
83 4KO9 1 A, B, C, D Azurin UNP residues 21-148 287
84 1E67 1 A, B, C, D AZURIN 287
85 4QLW 1 A, B, C, D Azurin 287
86 1ILS 1 A, B, C, D AZURIN 287
87 1NZR 1 A, B, C, D AZURIN 287
88 4HIP 1 A, B Azurin 287
89 4HHW 1 A, B Azurin 287
90 4KO7 1 A, B, C, D Azurin UNP residues 21-148 287
91 1ILU 1 A, B, C, D, E, F, G, H, I, K, L, M AZURIN 287
92 3NP3 1 A Azurin UNP residues 21-148 287
93 3JT2 1 A, B Azurin 287
94 1ETJ 1 A, B, C, D AZURIN 287
95 2HXA 1 A, B Azurin 287
96 2XV3 1 A, B AZURIN 287
97 6IAV 1 A, B, C, D Azurin 287
98 1AZR 1 A, B, C, D AZURIN 287
99 2TSA 1 A, B, C, D AZURIN 287
100 2TSB 1 A, B, C, D AZURIN AZIDE 287
101 6L1V 1 A, C, E, G Azurin-1 85698
102 1RKR 1 A, B, C, D AZURIN-I 85698
103 2OJ1 1 A, B Azurin 287
104 1BEX 1 A, B AZURIN 287
105 3NP4 1 A Azurin UNP residues 21-148 287
106 2IDF 1 A, B Azurin 287
107 2H3X 3 C, F Azurin 511
108 1AG0 1 A, B AZURIN 287
109 3OQR 1 A Azurin UNP residues 21-148 287
110 4HZ1 1 A, B, C, D Azurin 287
111 1AZN 1 A, B, C, D AZURIN 287
112 1A4C 1 A, B, C, D AZURIN 32002
113 2H47 3 C Azurin 511
114 3IN0 1 A, B, C, D Azurin Oxidized F114P/M121Q Azurin 287
115 3FSV 1 A Azurin 287
116 2IWE 1 A, D, G, J AZURIN DIMERIZED BY COORDINATION OF A BIFUNCTIONAL LIGAND WIRE 1,6-DI(IMIDAZOL-1-YL)HEXANE 287
117 3IN2 1 A Azurin N47S/M121L variant of azurin 287
118 1JVO 1 A, B, C, D, E, F, G, H, I, J, K, L Azurin Azurin 287
119 1AZU 1 A AZURIN 287
120 2N0M 1 A Lipid modified azurin protein UNP residues 56-183 485
121 4AZU 1 A, B, C, D AZURIN 287
122 5AZU 1 A, B, C, D AZURIN 287