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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 372 Members. Sequence cutoff: 40% Cluster size: 97 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1TWF 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
2 3S14 1 A DNA-directed RNA polymerase II subunit RPB1 559292   2.7.7.6   
3 3CQZ 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932   2.7.7.6   
4 3PO2 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
5 3RZO 1 A DNA-directed RNA polymerase II subunit RPB1 559292   2.7.7.6   
6 3PO3 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
7 3S1M 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
8 4A3E 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
9 3S1R 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
10 4A3D 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
11 3S1N 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
12 4A3F 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
13 4A93 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
14 1K83 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932   2.7.7.6   
15 1I50 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932   2.7.7.6   
16 4BY7 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932   2.7.7.6   
17 3S2D 1 A DNA-directed RNA polymerase II subunit RPB1 559292   2.7.7.6   
18 4A3C 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
19 4A3K 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
20 3S15 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
21 4A3L 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
22 4BXX 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932   2.7.7.6   
23 3S1Q 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
24 3S16 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
25 3S17 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
26 4A3G 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
27 4A3B 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
28 4BBR 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932   2.7.7.6   
29 2NVQ 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
30 3RZD 1 A DNA-directed RNA polymerase II subunit RPB1 559292   2.7.7.6   
31 4A3J 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
32 3S2H 1 A DNA-directed RNA polymerase II subunit RPB1 559292   2.7.7.6   
33 3M3Y 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
34 4A3I 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
35 4BY1 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932   2.7.7.6   
36 4A3M 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 RESIDUES 1-1732 4932   2.7.7.6   
37 1I3Q 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932   2.7.7.6   
38 4BBS 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932   2.7.7.6   
39 1TWC 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
40 3HOU 1 A, M DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
41 3HOY 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
42 3HOV 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
43 1TWA 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
44 2NVT 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
45 3HOZ 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
46 3HOW 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
47 3HOX 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
48 1I6H 3 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932   2.7.7.6   
49 2R92 3 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
50 2R7Z 4 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
51 1R9T 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
52 3I4M 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
53 3H3V 1 B DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
54 1TWH 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
55 2NVY 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
56 2E2J 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
57 2VUM 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932   2.7.7.6   
58 3M4O 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
59 2R93 2 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
60 1TWG 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
61 3GTM 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
62 3I4N 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
63 2E2I 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
64 3GTL 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
65 4BXZ 1 A DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 4932   2.7.7.6   
66 3GTK 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
67 3K1F 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
68 3GTJ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
69 3GTG 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
70 2YU9 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
71 1WCM 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932   2.7.7.6   
72 2JA7 4 A, M DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932   2.7.7.6   
73 1Y1W 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
74 3QT1 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
75 3K7A 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
76 2JA8 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932   2.7.7.6   
77 2JA5 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932   2.7.7.6   
78 2NVX 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
79 2B63 2 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
80 3GTQ 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
81 3GTP 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
82 1Y1V 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
83 3GTO 1 A DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
84 3H0G 1 A, M DNA-directed RNA polymerase II subunit rpb1 284812   2.7.7.6   
85 3FKI 1 A DNA-directed RNA polymerase II subunit RPB1 4932   2.7.7.6   
86 1Y1Y 3 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
87 1SFO 3 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
88 2E2H 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
89 2JA6 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 4932   2.7.7.6   
90 2NVZ 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
91 1Y77 4 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
92 1NIK 1 A RPB1 4932   2.7.7.6   
93 1R9S 3 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
94 1R5U 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
95 2B8K 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
96 1PQV 1 A DNA-directed RNA polymerase II largest subunit 4932   2.7.7.6   
97 1NT9 1 A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT 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 96 207
95% 16 96 291
90% 16 96 308
70% 16 96 325
50% 16 97 349
40% 16 97 372
30% 16 97 386
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% 18 102 189
95% 18 102 268
90% 18 102 280
70% 18 103 293
50% 18 112 274
40% 18 112 304
30% 18 112 318
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 98 203
95% 16 98 286
90% 16 98 303
70% 16 98 318
50% 16 98 358
40% 16 99 368
30% 16 99 380
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% 18 101 191
95% 18 101 273
90% 18 101 285
70% 18 101 303
50% 18 101 339
40% 18 101 361
30% 18 101 375
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 21656
95% 1 3 18166
90% 1 3 17631
70% 1 3 16242
50% 1 3 14245
40% 1 3 12781
30% 1 3 10998
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 97 204
95% 16 98 283
90% 16 98 299
70% 16 98 316
50% 16 99 342
40% 16 108 313
30% 16 108 328
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 96 209
95% 16 96 292
90% 16 96 309
70% 16 96 326
50% 16 97 352
40% 16 97 374
30% 16 97 388
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 49 459
95% 7 49 659
90% 7 49 694
70% 7 50 734
50% 7 50 821
40% 7 50 838
30% 7 50 837
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% 19 103 183
95% 19 103 261
90% 19 103 273
70% 19 103 297
50% 19 104 318
40% 19 104 343
30% 19 104 354
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% 18 100 193
95% 18 100 277
90% 18 100 289
70% 18 100 309
50% 18 102 330
40% 18 102 353
30% 18 102 365
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 51 420
95% 8 51 614
90% 8 51 647
70% 8 51 697
50% 9 53 681
40% 9 53 714
30% 9 53 713
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 50302
95% 18 103 263
90% 18 103 276
70% 18 103 298
50% 18 103 331
40% 18 103 354
30% 18 105 349
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 97 205
95% 16 97 289
90% 16 97 306
70% 16 97 322
50% 16 98 348
40% 16 98 371
30% 16 98 385
 

Documentation

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