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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 358 Members. Sequence cutoff: 40% Cluster size: 98 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 3H0G 9 I, U DNA-directed RNA polymerase II subunit RPB9 284812  
84 3FKI 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
85 1Y1Y 11 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
86 1SFO 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
87 2E2H 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
88 2JA6 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
89 2NVZ 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
90 1Y77 12 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
91 1NIK 9 I DNA-directed RNA polymerase II, chain RPB9 4932   2.7.7.6   
92 1R9S 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
93 1R5U 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
94 2B8K 9 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
95 3J1N 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
96 3J0K 9 I DNA-directed RNA polymerase II subunit 9 9606   2.7.7.6   
97 1PQV 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
98 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 96 203
95% 16 96 287
90% 16 96 300
70% 16 96 316
50% 16 97 339
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% 18 102 260
90% 18 102 271
70% 18 103 280
50% 18 103 311
40% 18 111 295
30% 18 111 312
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 98 283
90% 16 98 296
70% 16 98 312
50% 16 98 348
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% 18 101 268
90% 18 101 279
70% 18 101 296
50% 18 101 328
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 21321
95% 1 3 17894
90% 1 3 17371
70% 1 3 15996
50% 1 3 14028
40% 1 3 12584
30% 1 3 10837
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 98 280
90% 16 98 293
70% 16 98 310
50% 16 99 332
40% 16 107 302
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 97 342
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 50 699
50% 7 50 758
40% 7 50 770
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% 18 100 272
90% 18 100 283
70% 18 100 302
50% 18 102 316
40% 18 102 339
30% 18 102 351
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 53 666
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 49440
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 98 336
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.