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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 207 Members. Sequence cutoff: 100% Cluster size: 97 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1TWF 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
2 3S14 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
3 3CQZ 7 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
4 3PO2 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
5 3RZO 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
6 3PO3 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
7 3S1M 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
8 4A3E 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
9 3S1R 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
10 4A3D 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
11 3S1N 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
12 4A3F 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
13 4A93 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
14 1K83 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
15 1I50 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
16 4BY7 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
17 3S2D 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
18 4A3C 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
19 4A3K 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
20 3S15 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
21 4A3L 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
22 4BXX 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
23 3S1Q 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
24 3S16 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
25 3S17 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
26 4A3G 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
27 4A3B 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
28 4BBR 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
29 2NVQ 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
30 3RZD 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
31 4A3J 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
32 3S2H 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
33 3M3Y 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
34 4A3I 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
35 4BY1 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
36 4A3M 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
37 1I3Q 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
38 4BBS 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
39 1TWC 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
40 3HOU 9 I, U DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
41 3HOY 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
42 3HOV 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
43 1TWA 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
44 2NVT 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
45 3HOZ 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
46 3HOW 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
47 3HOX 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
48 1I6H 9 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
49 2R92 11 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
50 2R7Z 12 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
51 1R9T 10 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
52 3I4M 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
53 3H3V 9 J DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
54 1TWH 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
55 2NVY 7 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
56 2E2J 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
57 2VUM 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932   2.7.7.6   
58 3M4O 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
59 2R93 10 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
60 1TWG 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
61 3GTM 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
62 3I4N 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
63 2E2I 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
64 3GTL 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
65 4BXZ 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932   2.7.7.6   
66 3GTK 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
67 3K1F 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
68 3GTJ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
69 3GTG 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
70 2YU9 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
71 1WCM 9 I DNA-DIRECTED RNA POLYMERASE II 14.2 KDA POLYPEPTIDE 4932   2.7.7.6   
72 2JA7 12 I, U DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
73 1Y1W 12 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
74 3K7A 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
75 2JA8 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
76 2JA5 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
77 2NVX 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
78 2B63 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
79 3GTQ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
80 3GTP 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
81 1Y1V 9 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
82 3GTO 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
83 3FKI 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
84 1Y1Y 11 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
85 1SFO 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
86 2E2H 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
87 2JA6 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
88 2NVZ 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
89 1Y77 12 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
90 1NIK 9 I DNA-directed RNA polymerase II, chain RPB9 4932   2.7.7.6   
91 1R9S 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
92 1R5U 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
93 2B8K 9 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
94 3J1N 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
95 3J0K 9 I DNA-directed RNA polymerase II subunit 9 9606   2.7.7.6   
96 1PQV 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
97 1NT9 9 I DNA-directed RNA polymerase II 14.2 kDa 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 97 353
40% 16 97 377
30% 16 97 388
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% 18 102 282
70% 18 103 295
50% 18 111 277
40% 18 111 306
30% 18 111 319
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 98 205
95% 16 98 289
90% 16 98 306
70% 16 98 321
50% 16 98 362
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% 18 101 367
30% 18 101 377
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 21830
95% 1 3 18298
90% 1 3 17752
70% 1 3 16358
50% 1 3 14345
40% 1 3 12866
30% 1 3 11071
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 97 206
95% 16 98 286
90% 16 98 302
70% 16 98 319
50% 16 99 346
40% 16 107 317
30% 16 107 330
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 96 210
95% 16 96 294
90% 16 96 311
70% 16 96 327
50% 16 97 356
40% 16 97 380
30% 16 97 390
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 49 465
95% 7 49 661
90% 7 49 696
70% 7 50 735
50% 7 50 821
40% 7 50 840
30% 7 50 844
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% 19 103 186
95% 19 103 263
90% 19 103 275
70% 19 103 298
50% 19 104 323
40% 19 104 347
30% 19 104 356
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% 18 100 279
90% 18 100 292
70% 18 100 311
50% 18 102 332
40% 18 102 357
30% 18 102 370
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 51 697
50% 9 53 682
40% 9 53 714
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 50667
95% 18 103 265
90% 18 103 277
70% 18 103 299
50% 18 103 333
40% 18 103 358
30% 18 105 352
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 97 207
95% 16 97 291
90% 16 97 308
70% 16 97 324
50% 16 98 351
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.