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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 672 Members. Sequence cutoff: 50% Cluster size: 59 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1Y14 2 B, D DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
2 3PO2 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
3 3PO3 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
4 2C35 2 B, D, F, H DNA-DIRECTED RNA POLYMERASE II 19 KDA POLYPEPTIDE 9606  
5 4A3E 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
6 4A3D 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
7 4A3F 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
8 4A93 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
9 4BY7 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
10 4A3C 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
11 4A3K 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
12 4A3L 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
13 4BXX 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
14 4A3G 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
15 4A3B 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
16 4BBR 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
17 4A3J 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
18 4A3I 7 G RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
19 4BY1 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
20 4A3M 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
21 4BBS 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
22 3HOU 7 G, S DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
23 3HOY 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
24 3HOV 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
25 5C3E 7 G DNA-directed RNA polymerase II subunit RPB7 559292  
26 3HOZ 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
27 3HOW 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
28 3HOX 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
29 2R92 9 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
30 2R7Z 10 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
31 3I4M 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
32 3H3V 7 H DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
33 5C4X 7 G DNA-directed RNA polymerase II subunit RPB7 559292  
34 2VUM 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932   2.7.7.6   
35 5C44 7 G DNA-directed RNA polymerase II subunit RPB7 559292  
36 2R93 8 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
37 3I4N 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
38 4BXZ 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932   2.7.7.6   
39 5C4A 7 G DNA-directed RNA polymerase II subunit RPB7 559292  
40 3K1F 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
41 1WCM 7 G DNA-DIRECTED RNA POLYMERASE II 19 KD POLYPEPTIDE 4932   2.7.7.6   
42 2JA7 10 G, S DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
43 1Y1W 10 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
44 3QT1 7 G DNA-directed RNA polymerase II subunit RPB7 4932   2.7.7.6   
45 2JA8 7 G DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
46 2JA5 7 G DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
47 2B63 8 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
48 1Y1V 7 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
49 3H0G 7 G, S DNA-directed RNA polymerase II subunit rpb7 284812  
50 3FKI 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
51 1Y1Y 9 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
52 2JA6 7 G DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE 4932   2.7.7.6   
53 1Y77 10 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
54 4V1N 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
55 4V1O 7 G DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 4932  
56 3J1N 7 G DNA-directed RNA polymerase II subunit RPB7 4932  
57 3J0K 7 G DNA-directed RNA polymerase II 19 kDa polypeptide 9606   2.7.7.6   
58 1PQV 7 G DNA-directed RNA polymerase II 19 kDa polypeptide 4932   2.7.7.6   
59 1NT9 7 G DNA-DIRECTED RNA POLYMERASE II 19 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% 16 108 198
95% 16 108 273
90% 16 108 287
70% 16 108 308
50% 16 109 329
40% 16 109 359
30% 16 109 365
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% 18 114 183
95% 18 114 251
90% 18 114 261
70% 18 115 272
50% 18 123 270
40% 18 123 296
30% 18 123 311
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% 16 110 194
95% 16 110 270
90% 16 110 283
70% 16 110 304
50% 16 110 333
40% 16 111 353
30% 16 111 362
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% 18 113 187
95% 18 113 253
90% 18 113 264
70% 18 113 290
50% 18 113 317
40% 18 113 349
30% 18 113 356
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 23272
95% 1 3 19441
90% 1 3 18839
70% 1 3 17318
50% 1 3 15145
40% 1 3 13571
30% 1 3 11646
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% 16 109 195
95% 16 110 265
90% 16 110 278
70% 16 110 301
50% 16 111 320
40% 16 119 308
30% 16 119 319
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% 16 108 200
95% 16 108 277
90% 16 108 291
70% 16 108 310
50% 16 109 330
40% 16 109 363
30% 16 109 367
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 55 430
95% 7 55 619
90% 7 55 651
70% 7 56 689
50% 7 56 776
40% 7 56 803
30% 7 56 804
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% 19 115 170
95% 19 115 239
90% 19 115 249
70% 19 115 277
50% 19 116 305
40% 19 116 335
30% 19 116 342
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% 18 112 188
95% 18 112 255
90% 18 112 267
70% 18 112 293
50% 18 114 312
40% 18 114 340
30% 18 114 350
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 57 402
95% 8 57 589
90% 8 57 619
70% 8 57 670
50% 9 59 672
40% 9 59 703
30% 9 59 703
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 53678
95% 18 115 241
90% 18 115 251
70% 18 115 280
50% 18 115 313
40% 18 115 341
30% 18 117 336
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% 16 109 196
95% 16 109 272
90% 16 109 286
70% 16 109 307
50% 16 110 328
40% 16 110 358
30% 16 110 364
 

Documentation

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