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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 642 Members. Sequence cutoff: 95% 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 4A3E 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
5 4A3D 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
6 4A3F 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
7 4A93 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
8 4BY7 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
9 4A3C 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
10 4A3K 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
11 4A3L 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
12 4BXX 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
13 4A3G 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
14 4A3B 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
15 4BBR 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
16 4A3J 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
17 4A3I 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
18 4BY1 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
19 4A3M 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
20 4BBS 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
21 3HOU 7 G, S DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
22 3HOY 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
23 3HOV 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
24 3HOZ 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
25 3HOW 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
26 3HOX 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
27 2R92 9 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
28 2R7Z 10 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
29 3I4M 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
30 3H3V 7 H DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
31 2VUM 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932   2.7.7.6   
32 2R93 8 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
33 3I4N 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
34 4BXZ 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932   2.7.7.6   
35 3K1F 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
36 1WCM 7 G DNA-DIRECTED RNA POLYMERASE II 19 KD POLYPEPTIDE 4932   2.7.7.6   
37 2JA7 10 G, S DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
38 1Y1W 10 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
39 3QT1 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
40 2JA8 7 G DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
41 2JA5 7 G DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
42 2B63 8 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
43 1Y1V 7 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
44 3FKI 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
45 1Y1Y 9 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
46 2JA6 7 G DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
47 1Y77 10 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
48 4V1N 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
49 4V1O 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
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% 16 103 206
95% 16 103 289
90% 16 103 303
70% 16 103 325
50% 16 104 348
40% 16 104 379
30% 16 104 384
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% 18 109 189
95% 18 109 263
90% 18 109 276
70% 18 110 292
50% 18 118 276
40% 18 118 312
30% 18 118 321
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% 16 105 201
95% 16 105 286
90% 16 105 297
70% 16 105 320
50% 16 105 352
40% 16 106 370
30% 16 106 376
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% 18 108 192
95% 18 108 266
90% 18 108 280
70% 18 108 301
50% 18 108 329
40% 18 108 363
30% 18 108 366
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 23088
95% 1 3 19290
90% 1 3 18704
70% 1 3 17208
50% 1 3 15054
40% 1 3 13489
30% 1 3 11577
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% 16 104 203
95% 16 105 285
90% 16 105 296
70% 16 105 319
50% 16 106 337
40% 16 114 321
30% 16 114 330
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% 16 103 207
95% 16 103 290
90% 16 103 304
70% 16 103 326
50% 16 104 350
40% 16 104 381
30% 16 104 387
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 51 468
95% 7 51 676
90% 7 51 712
70% 7 52 757
50% 7 52 848
40% 7 52 869
30% 7 52 869
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% 19 110 184
95% 19 110 257
90% 19 110 270
70% 19 110 294
50% 19 111 313
40% 19 111 346
30% 19 111 354
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% 18 107 193
95% 18 107 272
90% 18 107 285
70% 18 107 306
50% 18 109 319
40% 18 109 350
30% 18 109 359
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 53 441
95% 8 53 642
90% 8 53 674
70% 8 53 727
50% 9 55 720
40% 9 55 748
30% 9 55 746
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 53401
95% 18 110 258
90% 18 110 271
70% 18 110 295
50% 18 110 320
40% 18 110 351
30% 18 112 351
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% 16 104 205
95% 16 104 288
90% 16 104 302
70% 16 104 324
50% 16 105 345
40% 16 105 377
30% 16 105 382
 

Documentation

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