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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 311 Members. Sequence cutoff: 70% Cluster size: 98 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1TWF 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
2 3S14 9 K DNA-directed RNA polymerase II subunit RPB11 559292  
3 3CQZ 9 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
4 3PO2 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
5 3RZO 9 K DNA-directed RNA polymerase II subunit RPB11 559292  
6 3PO3 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
7 3S1M 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
8 4A3E 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
9 3S1R 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
10 4A3D 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
11 3S1N 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
12 4A3F 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
13 4A93 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
14 1K83 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932   2.7.7.6   
15 1I50 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932   2.7.7.6   
16 4BY7 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
17 3S2D 9 K DNA-directed RNA polymerase II subunit RPB11 559292  
18 4A3C 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
19 4A3K 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
20 3S15 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
21 4A3L 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
22 4BXX 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
23 3S1Q 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
24 3S16 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
25 3S17 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
26 4A3G 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
27 4A3B 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
28 4BBR 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
29 2NVQ 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
30 3RZD 9 K DNA-directed RNA polymerase II subunit RPB11 559292  
31 4A3J 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
32 3S2H 9 K DNA-directed RNA polymerase II subunit RPB11 559292  
33 3M3Y 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
34 4A3I 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
35 4BY1 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
36 4A3M 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
37 1I3Q 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932   2.7.7.6   
38 4BBS 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
39 1TWC 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
40 3HOU 11 K, W DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
41 3HOY 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
42 3HOV 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
43 1TWA 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
44 2NVT 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
45 3HOZ 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
46 3HOW 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
47 3HOX 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
48 1I6H 11 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932   2.7.7.6   
49 2R92 13 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
50 2R7Z 14 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
51 1R9T 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
52 3I4M 11 K DNA-directed RNA polymerase II subunit RPB11 4932  
53 3H3V 11 L DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
54 1TWH 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
55 2NVY 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
56 2E2J 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
57 2VUM 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932   2.7.7.6   
58 3M4O 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
59 2R93 12 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
60 1TWG 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
61 3GTM 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
62 3I4N 11 K DNA-directed RNA polymerase II subunit RPB11 4932  
63 2E2I 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
64 3GTL 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
65 4BXZ 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932   2.7.7.6   
66 3GTK 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
67 3K1F 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
68 3GTJ 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
69 3GTG 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
70 2YU9 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
71 1WCM 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
72 2JA7 14 K, W DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
73 1Y1W 14 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
74 3QT1 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
75 3K7A 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
76 2JA8 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
77 2JA5 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
78 2NVX 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
79 2B63 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
80 3GTQ 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
81 3GTP 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
82 1Y1V 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
83 3GTO 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
84 3FKI 11 K DNA-directed RNA polymerase II subunit RPB11 4932  
85 1Y1Y 13 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
86 1SFO 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
87 2E2H 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
88 2JA6 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
89 2NVZ 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
90 1Y77 14 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
91 1NIK 11 K DNA-directed RNA polymerase II, chain RPB11 4932   2.7.7.6   
92 1R9S 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
93 1R5U 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
94 2B8K 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
95 3J1N 11 K DNA-directed RNA polymerase II subunit RPB11 4932  
96 3J0K 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 9606   2.7.7.6   
97 1PQV 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
98 1NT9 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 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 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% 18 102 270
70% 18 103 280
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 21276
95% 1 3 17855
90% 1 3 17334
70% 1 3 15969
50% 1 3 14009
40% 1 3 12569
30% 1 3 10824
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 50 757
40% 7 50 769
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% 19 103 176
95% 19 103 250
90% 19 103 261
70% 19 103 287
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 51 605
90% 8 51 636
70% 8 51 667
50% 9 53 638
40% 9 53 664
30% 9 53 664
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 49349
95% 18 103 251
90% 18 103 263
70% 18 103 288
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.