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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 643 Members. Sequence cutoff: 95% Cluster size: 49 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 3PO2 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
2 3PO3 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
3 4A3E 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
4 4A3D 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
5 4A3F 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
6 4A93 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
7 4BY7 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
8 4A3C 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
9 4A3K 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
10 4A3L 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
11 4BXX 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
12 4A3G 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
13 4A3B 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
14 4BBR 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
15 4A3J 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
16 4A3I 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
17 4BY1 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
18 4A3M 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
19 4BBS 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
20 3HOU 4 D, P DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
21 3HOY 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
22 3HOV 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
23 3HOZ 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
24 3HOW 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
25 3HOX 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
26 2R92 6 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
27 2R7Z 7 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
28 3I4M 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
29 3H3V 4 E DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
30 2VUM 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932   2.7.7.6   
31 2R93 5 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
32 3I4N 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
33 4BXZ 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932   2.7.7.6   
34 3K1F 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
35 2JA7 7 D, P DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
36 1Y1W 7 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
37 3QT1 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
38 2JA8 4 D DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
39 2JA5 4 D DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
40 2B63 5 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
41 1Y1V 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
42 3FKI 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
43 1Y1Y 6 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
44 2JA6 4 D DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
45 1Y77 7 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
46 2B8K 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
47 3J1N 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
48 3J0K 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 9606   2.7.7.6   
49 1NT9 4 D YEAST DNA-DIRECTED RNA POLYMERASE II 32 KD POLYPEPTIDE Numbering of resiudes D10-D24 is arbitrary 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 97 340
40% 16 97 363
30% 16 97 377
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% 18 102 182
95% 18 102 261
90% 18 102 272
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 98 349
40% 16 99 358
30% 16 99 369
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% 18 101 352
30% 18 101 363
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 21359
95% 1 3 17925
90% 1 3 17401
70% 1 3 16022
50% 1 3 14050
40% 1 3 12605
30% 1 3 10851
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 99 333
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 97 343
40% 16 97 365
30% 16 97 379
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 49 445
95% 7 49 643
90% 7 49 676
70% 7 50 701
50% 7 50 760
40% 7 50 771
30% 7 50 779
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% 19 103 177
95% 19 103 251
90% 19 103 262
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 51 414
95% 8 51 606
90% 8 51 637
70% 8 51 669
50% 9 53 639
40% 9 53 666
30% 9 53 671
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 49520
95% 18 103 252
90% 18 103 264
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 98 337
40% 16 98 360
30% 16 98 373
 

Documentation

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