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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 744 Members. Sequence cutoff: 70% Cluster size: 52 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 3PO2 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
2 3PO3 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
3 4A3E 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
4 4A3D 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
5 4A3F 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
6 4A93 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
7 4BY7 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
8 4A3C 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
9 4A3K 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
10 4A3L 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
11 4BXX 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
12 4A3G 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
13 4A3B 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
14 4BBR 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
15 4A3J 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
16 4A3I 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
17 4BY1 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
18 4A3M 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
19 4BBS 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
20 3HOU 4 D, P DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
21 3HOY 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
22 3HOV 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
23 3HOZ 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
24 3HOW 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
25 3HOX 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
26 2R92 6 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
27 2R7Z 7 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
28 3I4M 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
29 3H3V 4 E DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
30 2VUM 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932   2.7.7.6   
31 2R93 5 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
32 3I4N 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
33 4BXZ 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932   2.7.7.6   
34 3K1F 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
35 2JA7 7 D, P DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
36 1Y1W 7 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
37 3QT1 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
38 2JA8 4 D DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
39 2JA5 4 D DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
40 2B63 5 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
41 1Y1V 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
42 3FKI 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
43 1Y1Y 6 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
44 2JA6 4 D DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
45 1Y77 7 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
46 2B8K 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
47 4V1N 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
48 4V1O 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
49 3J1N 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
50 3J0K 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 9606   2.7.7.6   
51 1PQV 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
52 1NT9 4 D YEAST DNA-DIRECTED RNA POLYMERASE II 32 KD POLYPEPTIDE Numbering of resiudes D10-D24 is arbitrary 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% 16 101 208
95% 16 101 292
90% 16 101 310
70% 16 101 329
50% 16 102 352
40% 16 102 381
30% 16 102 387
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% 18 107 189
95% 18 107 269
90% 18 107 282
70% 18 108 293
50% 18 116 277
40% 18 116 310
30% 18 116 322
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% 16 103 202
95% 16 103 287
90% 16 103 303
70% 16 103 321
50% 16 103 356
40% 16 104 376
30% 16 104 382
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% 18 106 192
95% 18 106 271
90% 18 106 285
70% 18 106 303
50% 18 106 332
40% 18 106 365
30% 18 106 371
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 22848
95% 1 3 19081
90% 1 3 18513
70% 1 3 17048
50% 1 3 14917
40% 1 3 13370
30% 1 3 11475
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% 16 102 205
95% 16 103 284
90% 16 103 298
70% 16 103 318
50% 16 104 345
40% 16 112 324
30% 16 112 332
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% 16 101 209
95% 16 101 293
90% 16 101 311
70% 16 101 330
50% 16 102 354
40% 16 102 384
30% 16 102 390
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 51 457
95% 7 51 664
90% 7 51 696
70% 7 52 744
50% 7 52 834
40% 7 52 856
30% 7 52 859
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% 19 108 187
95% 19 108 262
90% 19 108 276
70% 19 108 296
50% 19 109 314
40% 19 109 344
30% 19 109 353
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% 18 105 196
95% 18 105 279
90% 18 105 291
70% 18 105 310
50% 18 107 324
40% 18 107 357
30% 18 107 360
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 53 432
95% 8 53 630
90% 8 53 660
70% 8 53 711
50% 9 55 708
40% 9 55 738
30% 9 55 739
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 52926
95% 18 108 263
90% 18 108 277
70% 18 108 297
50% 18 108 325
40% 18 108 358
30% 18 110 350
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% 16 102 207
95% 16 102 291
90% 16 102 309
70% 16 102 327
50% 16 103 350
40% 16 103 379
30% 16 103 385
 

Documentation

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