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CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM HALOARCULA MARISMORTUI AT 2.4 ANGSTROM RESOLUTION
Sequence Clustering and Redundancy Reduction Results
1FFK
Cluster # 268 Members. Sequence cutoff: 40% Cluster size: 120 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 4V9F 7 E 50S ribosomal protein L6P 272569  
2 1VQO 8 E 50S ribosomal protein L6P 2238  
3 1VQ8 8 E 50S ribosomal protein L6P 2238  
4 1S72 7 E 50S ribosomal protein L6P 2238  
5 1JJ2 7 E RIBOSOMAL PROTEIN L6 2238  
6 1YHQ 7 E 50S ribosomal protein L6P 2238  
7 1VQP 8 E 50S ribosomal protein L6P 2238  
8 1VQM 8 E 50S ribosomal protein L6P 2238  
9 3CC2 5 E 50S ribosomal protein L6P 2238  
10 1VQL 8 E 50S ribosomal protein L6P 2238  
11 1VQK 8 E 50S ribosomal protein L6P 2238  
12 1VQN 9 E 50S ribosomal protein L6P 2238  
13 1YIJ 7 E 50S ribosomal protein L6P 2238  
14 1YI2 7 E 50S ribosomal protein L6P 2238  
15 1VQ9 8 E 50S ribosomal protein L6P 2238  
16 1VQ7 8 E 50S ribosomal protein L6P 2238  
17 3CCM 5 E 50S ribosomal protein L6P 272569  
18 1VQ5 8 E 50S ribosomal protein L6P 2238  
19 3CCJ 5 E 50S ribosomal protein L6P 272569  
20 3CC7 5 E 50S ribosomal protein L6P 2238  
21 1YIT 11 E 50S RIBOSOMAL PROTEIN L6P 2238  
22 3CCE 5 E 50S ribosomal protein L6P 272569  
23 3G6E 6 E 50S ribosomal protein L6P 2238  
24 3CPW 7 E 50S ribosomal protein L6P 2238  
25 3CCU 5 E 50S ribosomal protein L6P 272569  
26 1VQ6 9 E 50S ribosomal protein L6P 2238  
27 1M90 8 G RIBOSOMAL PROTEIN L6 2238  
28 3CCL 5 E 50S ribosomal protein L6P 272569  
29 1YJW 11 E 50S RIBOSOMAL PROTEIN L6P 2238  
30 1YJ9 7 E 50S ribosomal protein L6P 2238  
31 3CD6 5 E 50S ribosomal protein L6P 272569  
32 3CCV 5 E 50S ribosomal protein L6P 272569  
33 3CC4 5 E 50S ribosomal protein L6P 272569  
34 2OTL 7 E 50S ribosomal protein L6P 2238  
35 3G71 6 E 50S ribosomal protein L6P 2238  
36 1FFK 29 1 RIBOSOMAL PROTEIN L6 2238  
37 1VQ4 8 E 50S ribosomal protein L6P 2238  
38 1YJN 7 E 50S ribosomal protein L6P 2238  
39 3CMA 5 E 50S ribosomal protein L6P 2238  
40 3CCS 5 E 50S ribosomal protein L6P 272569  
41 3CCQ 5 E 50S ribosomal protein L6P 272569  
42 3I56 5 E 50S ribosomal protein L6P 2238  
43 3CCR 5 E 50S ribosomal protein L6P 272569  
44 2OTJ 7 E 50S ribosomal protein L6P 2238  
45 4V88 46 BH, DH 60S ribosomal protein L9-A 559292  
46 1KQS 9 E RIBOSOMAL PROTEIN L6 2238  
47 3OW2 7 E 50S ribosomal protein L6P 2238  
48 4U4R 46 L9, l9 60S ribosomal protein L9-A 559292  
49 3CXC 8 E RIBOSOMAL PROTEIN L6 2238  
50 1QVG 8 E 50S ribosomal protein L6P 2238  
51 3CME 5 E 50S ribosomal protein L6P 2238  
52 2QEX 7 E 50S ribosomal protein L6P 2238  
53 4U3U 46 L9, l9 60S ribosomal protein L9-A 559292  
54 1KC8 7 G RIBOSOMAL PROTEIN L6 2238  
55 4U3M 46 L9, l9 60S ribosomal protein L9-A 559292  
56 1N8R 7 G 50S ribosomal protein L6P 2238  
57 4U3N 46 L9, l9 60S ribosomal protein L9-A 559292  
58 1Q81 8 G 50S ribosomal protein L6P 2238  
59 1Q82 8 G 50S ribosomal protein L6P 2238  
60 1QVF 8 E 50S ribosomal protein L6P 2238  
61 4U52 46 L9, l9 60S ribosomal protein L9-A 559292  
62 4U4Q 46 L9, l9 60S ribosomal protein L9-A 559292  
63 1NJI 7 G 50S ribosomal protein L6P 2238  
64 4U6F 46 L9, l9 60S ribosomal protein L9-A 559292  
65 4U4U 46 L9, l9 60S ribosomal protein L9-A 559292  
66 1K73 7 G RIBOSOMAL PROTEIN L6 2238  
67 4U4Z 46 L9, l9 60S ribosomal protein L9-A 559292  
68 4U4Y 46 L9, l9 60S ribosomal protein L9-A 559292  
69 4U4N 46 L9, l9 60S ribosomal protein L9-A 559292  
70 4U55 46 L9, l9 60S ribosomal protein L9-A 559292  
71 1K9M 7 G RIBOSOMAL PROTEIN L6 2238  
72 1KD1 7 G RIBOSOMAL PROTEIN L6 2238  
73 3I55 6 E 50S ribosomal protein L6P 2238  
74 4U51 46 L9, l9 60S ribosomal protein L9-A 559292  
75 1K8A 7 G RIBOSOMAL PROTEIN L6 2238  
76 4U53 46 L9, l9 60S ribosomal protein L9-A 559292  
77 1Q86 8 G 50S ribosomal protein L6P 2238  
78 4U50 46 L9, l9 60S ribosomal protein L9-A 559292  
79 1M1K 7 G RIBOSOMAL PROTEIN L6 2238  
80 3G4S 6 E 50S ribosomal protein L6P 2238  
81 1W2B 10 E 50S RIBOSOMAL PROTEIN L6P 2238  
82 4U56 46 L9, l9 60S ribosomal protein L9-A 559292  
83 2QA4 7 E 50S ribosomal protein L6P 2238  
84 1Q7Y 8 G 50S ribosomal protein L6P 2238  
85 4U4O 46 L9, l9 60S ribosomal protein L9-A 559292  
86 4V8P 26 BE, CE, EE, GE 60S RIBOSOMAL PROTEIN L9 5911  
87 4V7R 40 BI, DI 60S ribosomal protein L9-A 4932  
88 3J92 8 H uL6 9986  
89 4D67 8 H 60S RIBOSOMAL PROTEIN L9 9986  
90 4D5Y 8 H 60S RIBOSOMAL PROTEIN UL6 9986  
91 4V3P 39 LF 60S ribosomal protein L9 4565  
92 3J7O 11 H Ribosomal protein uL6 9823  
93 3J7P 11 H Ribosomal protein uL6 9823  
94 3J7Q 11 H Ribosomal protein uL6 9823  
95 3J7R 11 H Ribosomal protein uL6 9823  
96 4UJC 14 BH 60S RIBOSOMAL PROTEIN L9 9986  
97 4UJD 11 AH 60S RIBOSOMAL PROTEIN L9 9986  
98 3J79 8 H 60S ribosomal protein uL6 36329  
99 3J77 9 L9 60S ribosomal protein L9 4932  
100 3J78 9 L9 60S ribosomal protein L9 4932  
101 3J6X 12 L9 60S ribosomal protein L9 580240  
102 3J6Y 12 L9 60S ribosomal protein L9 580240  
103 4UJE 45 CH 60S RIBOSOMAL PROTEIN L9 9986  
104 4V91 11 H UL6 RIBOSOMAL PROTEIN UL6 28985  
105 4V7F 9 F 60S ribosomal protein L9 4932  
106 4V7E 43 CH 60S ribosomal protein L6 4565  
107 4V8Y 42 BH 60S RIBOSOMAL PROTEIN L9-A 4932  
108 4V8Z 42 BH 60S RIBOSOMAL PROTEIN L9-A 4932  
109 4V4N 50 AF 50S ribosomal protein L6P SEE REMARK 999 2190  
110 4V6W 80 CH 60S ribosomal protein L9 7227  
111 4V6X 80 CH 60S ribosomal protein L9 9606  
112 4V8M 84 By 60S RIBOSOMAL PROTEIN L9, PUTATIVE 185431  
113 4V6U 54 BF 50S ribosomal protein L6P 186497  
114 4V8T 8 H 60S RIBOSOMAL PROTEIN L9-A 559292  
115 4ADX 15 E RPL6 187420  
116 3J16 6 F 60S ribosomal protein L6 4932  
117 4V6I 36 BF 60S ribosomal protein rpL9 (L6p) 4932  
118 4V7H 32 BH 60S ribosomal protein L9(A) 5541  
119 4V5Z 57 Be 60S Ribosomal protein L9 9615  
120 4V4B 27 BH 60S ribosomal protein L9-A 4932  
 
Sequence Clusters for the Sequence Entities in PDB 1FFK
Entity #1: Chains: 0 - 23S RRNA rna, length: 2922 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #10: Chains: H - RIBOSOMAL PROTEIN L14 protein, length: 132 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 17 44 666
95% 36 68 474
90% 36 68 496
70% 36 68 536
50% 36 121 240
40% 36 121 265
30% 41 335 48
Entity #11: Chains: I - RIBOSOMAL PROTEIN L15E protein, length: 194 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 49419
95% 1 1 34650
90% 1 1 33111
70% 36 68 528
50% 36 119 245
40% 36 119 271
30% 36 119 288
Entity #12: Chains: J - RIBOSOMAL PROTEIN L15 protein, length: 164 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 74 288
95% 36 74 415
90% 36 74 440
70% 36 74 470
50% 36 74 515
40% 36 74 557
30% 40 327 52
Entity #13: Chains: K - RIBOSOMAL PROTEIN L18 protein, length: 186 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 74 286
95% 36 74 413
90% 36 74 438
70% 36 74 467
50% 36 76 494
40% 36 76 533
30% 36 78 518
Entity #14: Chains: L - RIBOSOMAL PROTEIN L18E protein, length: 115 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 68 325
95% 36 68 476
90% 36 68 499
70% 36 68 539
50% 36 70 574
40% 36 70 609
30% 36 70 609
Entity #15: Chains: M - RIBOSOMAL PROTEIN L19 protein, length: 148 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 3 21 1714
95% 36 68 472
90% 36 68 494
70% 36 68 534
50% 36 68 608
40% 36 70 607
30% 36 71 589
Entity #16: Chains: N - RIBOSOMAL PROTEIN L21E protein, length: 95 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 68 327
95% 36 68 478
90% 36 68 501
70% 36 68 541
50% 36 70 578
40% 36 70 614
30% 36 71 592
Entity #17: Chains: O - RIBOSOMAL PROTEIN L22 protein, length: 154 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 35 67 336
95% 36 68 470
90% 36 68 492
70% 36 68 532
50% 36 68 605
40% 36 68 641
30% 36 122 279
Entity #18: Chains: P - RIBOSOMAL PROTEIN L23 protein, length: 84 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 74 292
95% 36 74 418
90% 36 74 443
70% 36 74 474
50% 36 76 495
40% 36 78 515
30% 40 286 71
Entity #19: Chains: Q - RIBOSOMAL PROTEIN L24 protein, length: 119 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 74 291
95% 36 74 417
90% 36 74 442
70% 36 74 473
50% 36 128 220
40% 36 128 247
30% 36 128 261
Entity #2: Chains: 9 - 5S RRNA rna, length: 122 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #20: Chains: R - RIBOSOMAL PROTEIN L24E protein, length: 66 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 34 70 313
95% 34 70 455
90% 34 70 475
70% 34 70 511
50% 34 70 579
40% 34 70 615
30% 34 70 612
Entity #21: Chains: S - RIBOSOMAL PROTEIN L29 protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 74 293
95% 36 74 419
90% 36 74 444
70% 36 74 475
50% 36 74 520
40% 36 74 560
30% 36 74 555
Entity #22: Chains: T - RIBOSOMAL PROTEIN L30 protein, length: 154 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 68 323
95% 36 68 471
90% 36 68 493
70% 36 68 533
50% 36 68 606
40% 36 70 606
30% 36 71 588
Entity #23: Chains: U - RIBOSOMAL PROTEIN L31E protein, length: 91 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 68 329
95% 36 68 480
90% 36 68 503
70% 36 68 543
50% 36 68 612
40% 36 68 646
30% 36 68 640
Entity #24: Chains: V - RIBOSOMAL PROTEIN L32E protein, length: 143 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 52409
95% 3 5 11561
90% 3 5 11373
70% 3 5 10759
50% 3 5 9664
40% 3 5 8822
30% 3 5 7716
Entity #25: Chains: W - RIBOSOMAL PROTEIN L37AE protein, length: 73 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 58112
95% 1 1 40506
90% 1 1 38707
70% 3 21 2310
50% 7 30 1571
40% 7 77 414
30% 26 100 336
Entity #26: Chains: X - RIBOSOMAL PROTEIN L37E protein, length: 56 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 68 331
95% 36 68 482
90% 36 68 505
70% 36 68 545
50% 36 69 596
40% 36 69 631
30% 36 69 627
Entity #27: Chains: Y - RIBOSOMAL PROTEIN L39E protein, length: 49 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 59406
95% 36 68 483
90% 36 68 506
70% 36 68 546
50% 36 121 241
40% 36 121 266
30% 36 121 283
Entity #28: Chains: Z - RIBOSOMAL PROTEIN L44E protein, length: 92 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 68 328
95% 36 68 479
90% 36 68 502
70% 36 68 542
50% 36 68 611
40% 36 68 645
30% 36 120 287
Entity #29: Chains: 1 - RIBOSOMAL PROTEIN L6 protein, length: 177 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 68 322
95% 36 68 469
90% 36 68 491
70% 36 68 531
50% 36 68 604
40% 36 120 268
30% 41 330 51
Entity #3: Chains: A - RIBOSOMAL PROTEIN L2 protein, length: 239 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 3 21 1697
95% 36 68 467
90% 36 68 489
70% 36 68 527
50% 36 119 244
40% 36 121 264
30% 36 121 281
Entity #4: Chains: B - RIBOSOMAL PROTEIN L3 protein, length: 337 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 43616
95% 36 74 407
90% 36 74 432
70% 36 74 463
50% 36 74 509
40% 36 125 253
30% 36 125 271
Entity #5: Chains: C - RIBOSOMAL PROTEIN L4 protein, length: 246 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 7 8002
95% 36 74 411
90% 36 74 436
70% 36 74 466
50% 36 74 511
40% 36 76 531
30% 36 77 526
Entity #6: Chains: D - RIBOSOMAL PROTEIN L5 protein, length: 176 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 74 287
95% 36 74 414
90% 36 74 439
70% 36 74 468
50% 36 74 513
40% 36 126 252
30% 36 126 269
Entity #7: Chains: E - RIBOSOMAL PROTEIN L7AE protein, length: 119 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 3 21 1725
95% 3 21 2261
90% 36 68 498
70% 36 68 538
50% 51 95 310
40% 58 105 292
30% 58 107 308
Entity #8: Chains: F - RIBOSOMAL PROTEIN L10E protein, length: 157 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 51422
95% 1 1 35769
90% 1 7 8220
70% 3 27 1698
50% 36 74 514
40% 36 79 503
30% 36 79 511
Entity #9: Chains: G - RIBOSOMAL PROTEIN L13 protein, length: 145 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 36 74 289
95% 36 74 416
90% 36 74 441
70% 36 74 471
50% 36 74 519
40% 37 77 524
30% 37 78 520
 

Documentation

Click here for more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB.