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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 715 Members. Sequence cutoff: 40% Cluster size: 53 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1Y14 2 B, D DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
2 3PO2 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
3 3PO3 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
4 2C35 2 B, D, F, H DNA-DIRECTED RNA POLYMERASE II 19 KDA POLYPEPTIDE 9606  
5 4A3E 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
6 4A3D 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
7 4A3F 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
8 4A93 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
9 4BY7 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
10 4A3C 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
11 4A3K 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
12 4A3L 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
13 4BXX 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
14 4A3G 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
15 4A3B 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
16 4BBR 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
17 4A3J 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
18 4A3I 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
19 4BY1 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
20 4A3M 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
21 4BBS 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
22 3HOU 7 G, S DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
23 3HOY 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
24 3HOV 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
25 3HOZ 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
26 3HOW 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
27 3HOX 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
28 2R92 9 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
29 2R7Z 10 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
30 3I4M 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
31 3H3V 7 H DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
32 2VUM 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932   2.7.7.6   
33 2R93 8 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
34 3I4N 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
35 4BXZ 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932   2.7.7.6   
36 3K1F 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
37 1WCM 7 G DNA-DIRECTED RNA POLYMERASE II 19 KD POLYPEPTIDE 4932   2.7.7.6   
38 2JA7 10 G, S DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
39 1Y1W 10 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
40 3QT1 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
41 2JA8 7 G DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
42 2JA5 7 G DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
43 2B63 8 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
44 1Y1V 7 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
45 3H0G 7 G, S DNA-directed RNA polymerase II subunit rpb7 284812  
46 3FKI 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
47 1Y1Y 9 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
48 2JA6 7 G DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
49 1Y77 10 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
50 3J1N 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
51 3J0K 7 G DNA-directed RNA polymerase II 19 kDa polypeptide 9606   2.7.7.6   
52 1PQV 7 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
53 1NT9 7 G DNA-DIRECTED RNA POLYMERASE II 19 KD POLYPEPTIDE 4932   2.7.7.6   
 
Sequence Clusters for the Sequence Entities in PDB 4BY7
Entity #1: Chains: A - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 protein, length: 1733 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 16 96 208
95% 16 96 292
90% 16 96 309
70% 16 96 326
50% 16 97 351
40% 16 97 376
30% 16 97 387
Entity #10: Chains: J - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 5 protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 18 102 190
95% 18 102 269
90% 18 102 281
70% 18 103 295
50% 18 111 276
40% 18 111 305
30% 18 111 318
Entity #11: Chains: K - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 protein, length: 120 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 16 98 204
95% 16 98 287
90% 16 98 304
70% 16 98 319
50% 16 98 360
40% 16 99 372
30% 16 99 381
Entity #12: Chains: L - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 4 protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 18 101 192
95% 18 101 274
90% 18 101 287
70% 18 101 304
50% 18 101 341
40% 18 101 366
30% 18 101 376
Entity #13: Chains: N - , 5'-D(*DAP*AP*AP*GP*TP*AP*CP*TP*TP*GP*AP*GP*CP*DTP)-3' dna, length: 14 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #14: Chains: P - 5'-R(*UP*UP*CP*GP*AP*CP*CP*AP*GP*GP*AP)-3' rna, length: 11 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #15: Chains: T - 5'-D(*DAP*GP*CP*TP*CP*AP*AP*GP*TP*AP*CP*TP*TP*DAP *TP*TP*CP*CP*BP*GP*GP*TP*CP*AP*TP*T)-3' dna, length: 26 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #16: Chains: X - TRANSCRIPTION FACTOR BYE1 protein, length: 146 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 3 21782
95% 1 3 18257
90% 1 3 17714
70% 1 3 16320
50% 1 3 14315
40% 1 3 12841
30% 1 3 11050
Entity #2: Chains: B - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 protein, length: 1224 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 16 97 205
95% 16 98 284
90% 16 98 300
70% 16 98 317
50% 16 99 344
40% 16 107 316
30% 16 107 328
Entity #3: Chains: C - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 protein, length: 318 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 16 96 210
95% 16 96 294
90% 16 96 311
70% 16 96 327
50% 16 97 354
40% 16 97 379
30% 16 97 389
Entity #4: Chains: D - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 protein, length: 221 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 7 49 464
95% 7 49 660
90% 7 49 695
70% 7 50 736
50% 7 50 821
40% 7 50 840
30% 7 50 842
Entity #5: Chains: E - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 1 protein, length: 215 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 19 103 184
95% 19 103 263
90% 19 103 275
70% 19 103 298
50% 19 104 322
40% 19 104 346
30% 19 104 355
Entity #6: Chains: F - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 2 protein, length: 155 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 18 100 194
95% 18 100 278
90% 18 100 291
70% 18 100 310
50% 18 102 332
40% 18 102 356
30% 18 102 368
Entity #7: Chains: G - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 protein, length: 171 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 8 51 422
95% 8 51 615
90% 8 51 648
70% 8 51 698
50% 9 53 683
40% 9 53 715
30% 9 53 714
Entity #8: Chains: H - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 protein, length: 146 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 50556
95% 18 103 265
90% 18 103 277
70% 18 103 299
50% 18 103 333
40% 18 103 357
30% 18 105 350
Entity #9: Chains: I - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 protein, length: 122 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 16 97 206
95% 16 97 290
90% 16 97 307
70% 16 97 323
50% 16 98 350
40% 16 98 375
30% 16 98 386
 

Documentation

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