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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 804 Members. Sequence cutoff: 30% Cluster size: 56 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 5C3E 4 D DNA-directed RNA polymerase II subunit RPB4 559292  
24 3HOZ 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
25 3HOW 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
26 3HOX 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
27 2R92 6 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
28 2R7Z 7 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
29 3I4M 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
30 3H3V 4 E DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
31 5C4X 4 D DNA-directed RNA polymerase II subunit RPB4 559292  
32 2VUM 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932   2.7.7.6   
33 5C44 4 D DNA-directed RNA polymerase II subunit RPB4 559292  
34 2R93 5 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
35 3I4N 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
36 4BXZ 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932   2.7.7.6   
37 5C4A 4 D DNA-directed RNA polymerase II subunit RPB4 559292  
38 3K1F 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
39 2JA7 7 D, P DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
40 1Y1W 7 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
41 3QT1 4 D DNA-directed RNA polymerase II subunit RPB4 4932   2.7.7.6   
42 2JA8 4 D DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
43 2JA5 4 D DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
44 2B63 5 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
45 1Y1V 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
46 3FKI 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
47 1Y1Y 6 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
48 2JA6 4 D DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE 4932   2.7.7.6   
49 1Y77 7 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
50 2B8K 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
51 4V1N 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
52 4V1O 4 D DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 4932  
53 3J1N 4 D DNA-directed RNA polymerase II subunit RPB4 4932  
54 3J0K 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 9606   2.7.7.6   
55 1PQV 4 D DNA-directed RNA polymerase II 32 kDa polypeptide 4932   2.7.7.6   
56 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% 16 108 198
95% 16 108 274
90% 16 108 288
70% 16 108 310
50% 16 109 330
40% 16 109 360
30% 16 109 366
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% 18 114 184
95% 18 114 252
90% 18 114 262
70% 18 115 273
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% 16 110 271
90% 16 110 284
70% 16 110 305
50% 16 110 334
40% 16 111 354
30% 16 111 363
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% 18 113 254
90% 18 113 265
70% 18 113 291
50% 18 113 318
40% 18 113 350
30% 18 113 357
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 23321
95% 1 3 19480
90% 1 3 18875
70% 1 3 17352
50% 1 3 15170
40% 1 3 13591
30% 1 3 11664
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% 16 110 267
90% 16 110 280
70% 16 110 302
50% 16 111 321
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% 16 108 311
50% 16 109 331
40% 16 109 364
30% 16 109 368
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 55 428
95% 7 55 617
90% 7 55 648
70% 7 56 689
50% 7 56 778
40% 7 56 805
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% 19 115 171
95% 19 115 240
90% 19 115 250
70% 19 115 279
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% 18 112 256
90% 18 112 268
70% 18 112 294
50% 18 114 313
40% 18 114 341
30% 18 114 351
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 57 400
95% 8 57 589
90% 8 57 617
70% 8 57 668
50% 9 59 672
40% 9 59 703
30% 9 59 704
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 53778
95% 18 115 242
90% 18 115 252
70% 18 115 282
50% 18 115 314
40% 18 115 342
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% 16 109 273
90% 16 109 287
70% 16 109 309
50% 16 110 329
40% 16 110 359
30% 16 110 365
 

Documentation

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