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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 340 Members. Sequence cutoff: 40% Cluster size: 103 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 4C2M 11 H, W DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
2 1TWF 6 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
3 3S14 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 559292  
4 3CQZ 6 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3 4932  
5 3PO2 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
6 3RZO 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 559292  
7 3PO3 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
8 3S1M 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
9 4A3E 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
10 4C3I 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
11 3S1R 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
12 4A3D 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
13 3S1N 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
14 4A3F 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
15 4A93 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
16 1K83 6 H DNA-DIRECTED RNA POLYMERASE II 14.5KD POLYPEPTIDE 4932   2.7.7.6   
17 1I50 6 H DNA-DIRECTED RNA POLYMERASE II 14.5KD POLYPEPTIDE 4932   2.7.7.6   
18 4BY7 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
19 3S2D 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 559292  
20 4A3C 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
21 4A3K 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
22 3S15 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
23 4A3L 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3 4932  
24 4BXX 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
25 3S1Q 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
26 3S16 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
27 3S17 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
28 4A3G 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
29 4A3B 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
30 4BBR 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
31 2NVQ 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
32 3RZD 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 559292  
33 4A3J 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
34 3S2H 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 559292  
35 3M3Y 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
36 4A3I 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
37 4BY1 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
38 4A3M 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3 4932  
39 1I3Q 6 H DNA-DIRECTED RNA POLYMERASE II 14.5KD POLYPEPTIDE 4932   2.7.7.6   
40 4BBS 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
41 4C3J 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3 4932   2.7.7.6   
42 4C3H 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 4932  
43 1TWC 6 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
44 3HOU 8 H, T DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
45 3HOY 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
46 3HOV 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
47 1TWA 6 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
48 2NVT 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
49 3HOZ 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
50 3HOW 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
51 3HOX 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
52 1I6H 8 H DNA-DIRECTED RNA POLYMERASE II 14.5KD POLYPEPTIDE 4932   2.7.7.6   
53 2R92 10 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
54 2R7Z 11 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
55 1R9T 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
56 3I4M 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
57 3H3V 8 I DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
58 1TWH 6 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
59 2NVY 6 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
60 2E2J 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
61 2VUM 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3 4932   2.7.7.6   
62 3M4O 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
63 2R93 9 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
64 1TWG 6 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
65 3GTM 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932  
66 3I4N 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
67 2E2I 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
68 3GTL 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932  
69 4BXZ 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3 4932   2.7.7.6   
70 3GTK 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932  
71 3K1F 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
72 3GTJ 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932  
73 3GTG 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932  
74 2YU9 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
75 1WCM 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE 4932   2.7.7.6   
76 2JA7 11 H, T DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE 4932   2.7.7.6   
77 1Y1W 11 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
78 3QT1 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932   2.7.7.6   
79 3K7A 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
80 2JA8 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE 4932   2.7.7.6   
81 2JA5 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE 4932   2.7.7.6   
82 2NVX 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
83 2B63 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
84 3GTQ 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932  
85 3GTP 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932  
86 1Y1V 8 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
87 3GTO 6 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932  
88 3FKI 8 H DNA-directed RNA polymerases I, II, and III subunit RPABC3 4932  
89 1Y1Y 10 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
90 1SFO 8 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
91 2E2H 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
92 2JA6 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE 4932   2.7.7.6   
93 2NVZ 9 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
94 1Y77 11 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
95 1NIK 8 H DNA-directed RNA polymerase subunit RPB8 4932   2.7.7.6   
96 1R9S 8 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
97 1R5U 6 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
98 2B8K 8 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
99 3J1N 8 H DNA-directed RNA polymerase II subunit RPABC3 4932  
100 3J0K 8 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 9606   2.7.7.6   
101 1PQV 8 H DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide 4932   2.7.7.6   
102 1NT9 8 H DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KD POLYPEPTIDE 4932   2.7.7.6   
103 1A1D 1 A RNA POLYMERASE SUBUNIT RPB8 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 96 203
95% 16 96 287
90% 16 96 300
70% 16 96 316
50% 16 97 338
40% 16 97 361
30% 16 97 374
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% 18 102 181
95% 18 102 259
90% 18 102 269
70% 18 103 279
50% 18 103 311
40% 18 111 294
30% 18 111 311
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 98 200
95% 16 98 282
90% 16 98 295
70% 16 98 311
50% 16 98 347
40% 16 99 356
30% 16 99 367
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% 18 101 186
95% 18 101 267
90% 18 101 278
70% 18 101 295
50% 18 101 327
40% 18 101 351
30% 18 101 362
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 21250
95% 1 3 17832
90% 1 3 17310
70% 1 3 15946
50% 1 3 13989
40% 1 3 12548
30% 1 3 10808
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 97 201
95% 16 98 279
90% 16 98 292
70% 16 98 309
50% 16 99 331
40% 16 107 301
30% 16 107 319
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 96 205
95% 16 96 288
90% 16 96 301
70% 16 96 318
50% 16 97 341
40% 16 97 363
30% 16 97 376
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 49 444
95% 7 49 642
90% 7 49 675
70% 7 50 698
50% 7 50 756
40% 7 50 768
30% 7 50 776
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% 19 103 175
95% 19 103 249
90% 19 103 260
70% 19 103 286
50% 19 104 301
40% 19 104 328
30% 19 104 339
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% 18 100 188
95% 18 100 271
90% 18 100 282
70% 18 100 301
50% 18 102 316
40% 18 102 339
30% 18 102 350
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 51 413
95% 8 51 604
90% 8 51 635
70% 8 51 667
50% 9 53 636
40% 9 53 662
30% 9 53 663
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 49269
95% 18 103 250
90% 18 103 262
70% 18 103 287
50% 18 103 317
40% 18 103 340
30% 18 105 336
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 97 202
95% 16 97 286
90% 16 97 299
70% 16 97 315
50% 16 98 335
40% 16 98 358
30% 16 98 371
 

Documentation

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