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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 # 251 Members. Sequence cutoff: 40% Cluster size: 128 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 4V9F 6 D 50S ribosomal protein L5P 272569  
2 1VQO 7 D 50S ribosomal protein L5P 2238  
3 1VQ8 7 D 50S ribosomal protein L5P 2238  
4 1S72 6 D 50S ribosomal protein L5P 2238  
5 1JJ2 6 D RIBOSOMAL PROTEIN L5 2238  
6 1YHQ 6 D 50S ribosomal protein L5P 2238  
7 1VQP 7 D 50S ribosomal protein L5P 2238  
8 1VQM 7 D 50S ribosomal protein L5P 2238  
9 3CC2 4 D 50S ribosomal protein L5P 2238  
10 1VQL 7 D 50S ribosomal protein L5P 2238  
11 1VQK 7 D 50S ribosomal protein L5P 2238  
12 1VQN 8 D 50S ribosomal protein L5P 2238  
13 1YIJ 6 D 50S ribosomal protein L5P 2238  
14 1YI2 6 D 50S ribosomal protein L5P 2238  
15 1VQ9 7 D 50S ribosomal protein L5P 2238  
16 1VQ7 7 D 50S ribosomal protein L5P 2238  
17 3CCM 4 D 50S ribosomal protein L5P 2238  
18 1VQ5 7 D 50S ribosomal protein L5P 2238  
19 3CCJ 4 D 50S ribosomal protein L5P 2238  
20 3CC7 4 D 50S ribosomal protein L5P 2238  
21 1YIT 10 D 50S RIBOSOMAL PROTEIN L5P 2238  
22 3CCE 4 D 50S ribosomal protein L5P 2238  
23 3G6E 5 D 50S ribosomal protein L5P 2238  
24 3CPW 6 D 50S ribosomal protein L5P 2238  
25 3CCU 4 D 50S ribosomal protein L5P 2238  
26 1VQ6 8 D 50S ribosomal protein L5P 2238  
27 1M90 7 F RIBOSOMAL PROTEIN L5 2238  
28 3CCL 4 D 50S ribosomal protein L5P 2238  
29 1YJW 10 D 50S RIBOSOMAL PROTEIN L5P 2238  
30 1YJ9 6 D 50S ribosomal protein L5P 2238  
31 3CD6 4 D 50S ribosomal protein L5P 2238  
32 3CCV 4 D 50S ribosomal protein L5P 2238  
33 3CC4 4 D 50S ribosomal protein L5P 2238  
34 2OTL 6 D 50S ribosomal protein L5P 2238  
35 3G71 5 D 50S ribosomal protein L5P 2238  
36 1FFK 6 D RIBOSOMAL PROTEIN L5 2238  
37 1VQ4 7 D 50S ribosomal protein L5P 2238  
38 1YJN 6 D 50S ribosomal protein L5P 2238  
39 3CMA 4 D 50S ribosomal protein L5P 2238  
40 3CCS 4 D 50S ribosomal protein L5P 2238  
41 3CCQ 4 D 50S ribosomal protein L5P 2238  
42 3I56 4 D 50S ribosomal protein L5P 2238  
43 3CCR 4 D 50S ribosomal protein L5P 2238  
44 2OTJ 6 D 50S ribosomal protein L5P 2238  
45 4V88 48 BJ, DJ 60S ribosomal protein L11-A 559292  
46 1KQS 8 D RIBOSOMAL PROTEIN L5 2238  
47 3OW2 6 D 50S ribosomal protein L5P 2238  
48 4U4R 48 M1, m1 60S ribosomal protein L11-B 559292  
49 3CXC 7 D RIBOSOMAL PROTEIN L5 2238  
50 1QVG 7 D 50S ribosomal protein L5P 2238  
51 3CME 4 D 50S ribosomal protein L5P 2238  
52 2QEX 6 D 50S ribosomal protein L5P 2238  
53 4U3U 48 M1, m1 60S ribosomal protein L11-B 559292  
54 1KC8 6 F RIBOSOMAL PROTEIN L5 2238  
55 4U3M 48 M1, m1 60S ribosomal protein L11-B 559292  
56 1N8R 6 F 50S ribosomal protein L5P 2238  
57 4U3N 48 M1, m1 60S ribosomal protein L11-B 559292  
58 1Q81 7 F 50S ribosomal protein L5P 2238  
59 1Q82 7 F 50S ribosomal protein L5P 2238  
60 1QVF 7 D 50S ribosomal protein L5P 2238  
61 4U52 48 M1, m1 60S ribosomal protein L11-B 559292  
62 4U4Q 48 M1, m1 60S ribosomal protein L11-B 559292  
63 1NJI 6 F 50S ribosomal protein L5P 2238  
64 4U6F 48 M1, m1 60S ribosomal protein L11-B 559292  
65 4U4U 48 M1, m1 60S ribosomal protein L11-B 559292  
66 1K73 6 F RIBOSOMAL PROTEIN L5 2238  
67 4U4Z 48 M1, m1 60S ribosomal protein L11-B 559292  
68 4U4Y 48 M1, m1 60S ribosomal protein L11-B 559292  
69 4U4N 48 M1, m1 60S ribosomal protein L11-B 559292  
70 4U55 48 M1, m1 60S ribosomal protein L11-B 559292  
71 1K9M 6 F RIBOSOMAL PROTEIN L5 2238  
72 1KD1 6 F RIBOSOMAL PROTEIN L5 2238  
73 3I55 5 D 50S ribosomal protein L5P 2238  
74 4U51 48 M1, m1 60S ribosomal protein L11-B 559292  
75 1K8A 6 F RIBOSOMAL PROTEIN L5 2238  
76 4U53 48 M1, m1 60S ribosomal protein L11-B 559292  
77 1Q86 7 F 50S ribosomal protein L5P 2238  
78 4U50 48 M1, m1 60S ribosomal protein L11-B 559292  
79 1M1K 6 F RIBOSOMAL PROTEIN L5 2238  
80 3G4S 5 D 50S ribosomal protein L5P 2238  
81 1W2B 9 D 50S RIBOSOMAL PROTEIN L5P HMAL5, HL13, RIBOSOMAL PROTEIN L5 2238  
82 4U56 48 M1, m1 60S ribosomal protein L11-B 559292  
83 2QA4 6 D 50S ribosomal protein L5P 2238  
84 1Q7Y 7 F 50S ribosomal protein L5P 2238  
85 4U4O 48 M1, m1 60S ribosomal protein L11-B 559292  
86 4V8P 25 BD, CD, ED, GD 60S RIBOSOMAL PROTEIN L11 5911  
87 5AFF 3 C RIBOSOMAL PROTEIN L11 209285  
88 4V7R 42 BK, DK 60S ribosomal protein L11-A 4932  
89 4V4P 7 AG 50S ribosomal protein L5 300852  
90 4V4R 31 BG 50S ribosomal protein L5 274  
91 4V4S 31 BG 50S ribosomal protein L5 274  
92 4V4T 30 BG 50S ribosomal protein L5 274  
93 4UG0 13 LJ 60S RIBOSOMAL PROTEIN L11 9606  
94 5AJ0 12 AJ 60S ribosomal protein L11 9606  
95 3J92 10 J uL5 9986  
96 4D67 10 J 60S RIBOSOMAL PROTEIN L11 9986  
97 4D5Y 10 J 60S RIBOSOMAL PROTEIN UL5 9986  
98 4V3P 38 LE Ribosomal protein L11 4565  
99 3J7O 13 J Ribosomal protein uL5 9823  
100 3J7P 13 J Ribosomal protein uL5 9823  
101 3J7Q 13 J Ribosomal protein uL5 9823  
102 3J7R 13 J Ribosomal protein uL5 9823  
103 4UJC 16 BJ 60S RIBOSOMAL PROTEIN L11 9986  
104 4UJD 13 AJ 60S RIBOSOMAL PROTEIN L11 9986  
105 3J79 7 G 60S ribosomal protein uL5 36329  
106 3J77 11 61 60S ribosomal protein L11 4932  
107 3J78 11 61 60S ribosomal protein L11 4932  
108 3J6X 14 51 60S ribosomal protein L11 580240  
109 3J6Y 14 51 60S ribosomal protein L11 580240  
110 4UJE 47 CJ 60S RIBOSOMAL PROTEIN L11 9986  
111 4V91 13 J UL5 RIBOSOMAL PROTEIN UL5 28985  
112 4V7F 8 E 60S ribosomal protein L11 4932  
113 4V7E 42 CJ 60S ribosomal protein L5 4565  
114 4V8Y 44 BJ 60S RIBOSOMAL PROTEIN L11-A 4932  
115 4V8Z 44 BJ 60S RIBOSOMAL PROTEIN L11-A 4932  
116 4V4N 48 AE 50S ribosomal protein L5P SEE REMARK 999 2190  
117 4V6W 79 CJ 60S ribosomal protein L11 7227  
118 4V6X 79 CJ 60S ribosomal protein L11 9606  
119 4V6U 40 BE 50S ribosomal protein L5P 186497  
120 4V8T 10 J 60S RIBOSOMAL PROTEIN L11-B 559292  
121 4ADX 14 D RPL5 187420  
122 3J0Q 17 k Ribosomal protein L11 9986  
123 4V6I 34 BE 60S ribosomal protein rpL11 (L5p) 4932  
124 4V5Z 56 Bd 60S Ribosomal protein L11 9615  
125 2NOQ 8 H 60S ribosomal protein L11-B 4932  
126 4V4B 29 BJ 60S ribosomal protein L11 4932  
127 1ML5 31 g 50S RIBOSOMAL PROTEIN L5 562  
128 4V42 31 BG 50S RIBOSOMAL PROTEIN L5 274  
 
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 44 680
95% 36 68 483
90% 36 68 506
70% 36 68 546
50% 36 123 238
40% 36 123 267
30% 41 360 46
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 50394
95% 1 1 35302
90% 1 1 33721
70% 36 68 539
50% 36 121 245
40% 36 121 272
30% 36 121 289
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 74 291
95% 36 74 420
90% 36 74 447
70% 36 74 480
50% 36 74 534
40% 36 74 576
30% 40 352 50
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 74 289
95% 36 74 418
90% 36 74 445
70% 36 74 477
50% 36 76 507
40% 36 76 552
30% 36 78 535
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 68 329
95% 36 68 485
90% 36 68 509
70% 36 68 549
50% 36 70 595
40% 36 70 632
30% 36 70 632
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 1758
95% 36 68 481
90% 36 68 504
70% 36 68 544
50% 36 68 626
40% 36 70 631
30% 36 71 611
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 68 330
95% 36 68 486
90% 36 68 510
70% 36 68 551
50% 36 70 597
40% 36 70 635
30% 36 71 612
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 67 339
95% 36 68 479
90% 36 68 502
70% 36 68 542
50% 36 68 623
40% 36 68 656
30% 36 124 276
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 74 298
95% 36 74 424
90% 36 74 451
70% 36 74 485
50% 36 76 510
40% 36 78 528
30% 40 309 61
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 74 294
95% 36 74 422
90% 36 74 449
70% 36 74 483
50% 36 130 223
40% 36 130 248
30% 36 130 262
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 70 317
95% 34 70 463
90% 34 70 485
70% 34 70 520
50% 34 70 598
40% 34 70 636
30% 34 70 634
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 74 300
95% 36 74 425
90% 36 74 452
70% 36 74 486
50% 36 74 541
40% 36 74 582
30% 36 74 577
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 68 327
95% 36 68 480
90% 36 68 503
70% 36 68 543
50% 36 68 624
40% 36 70 630
30% 36 71 610
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 68 332
95% 36 68 488
90% 36 68 512
70% 36 68 553
50% 36 68 629
40% 36 68 660
30% 36 68 657
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 53419
95% 3 5 11800
90% 3 5 11604
70% 3 5 10955
50% 3 5 9834
40% 3 5 8984
30% 3 5 7849
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 59170
95% 1 1 41194
90% 1 1 39352
70% 3 21 2365
50% 7 30 1605
40% 7 79 410
30% 26 102 336
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 68 334
95% 36 68 490
90% 36 68 514
70% 36 68 555
50% 36 69 615
40% 36 69 650
30% 36 69 647
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 60478
95% 36 68 491
90% 36 68 515
70% 36 68 556
50% 36 123 239
40% 36 123 268
30% 36 123 284
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 68 331
95% 36 68 487
90% 36 68 511
70% 36 68 552
50% 36 68 628
40% 36 68 659
30% 36 122 288
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 68 326
95% 36 68 478
90% 36 68 501
70% 36 68 541
50% 36 68 622
40% 36 122 270
30% 41 355 49
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 1738
95% 36 68 475
90% 36 68 498
70% 36 68 536
50% 36 121 244
40% 36 123 266
30% 36 123 283
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 44491
95% 36 74 411
90% 36 74 438
70% 36 74 473
50% 36 74 525
40% 36 127 255
30% 36 127 269
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 8206
95% 36 74 415
90% 36 74 442
70% 36 74 476
50% 36 74 527
40% 36 76 547
30% 36 77 541
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 74 290
95% 36 74 419
90% 36 74 446
70% 36 74 478
50% 36 74 531
40% 36 128 251
30% 36 128 266
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 1769
95% 3 21 2313
90% 36 68 508
70% 36 68 548
50% 51 95 319
40% 58 105 298
30% 58 107 309
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 52428
95% 1 1 36435
90% 1 7 8388
70% 3 27 1741
50% 36 74 532
40% 36 79 517
30% 36 79 527
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 74 292
95% 36 74 421
90% 36 74 448
70% 36 74 482
50% 36 74 536
40% 37 77 538
30% 37 78 536
 

Documentation

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