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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 350 Members. Sequence cutoff: 50% Cluster size: 105 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 4Y7N 9 K DNA-directed RNA polymerase II subunit RPB11 559292  
38 1I3Q 9 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932   2.7.7.6   
39 4BBS 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
40 1TWC 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
41 4Y52 9 K DNA-directed RNA polymerase II subunit RPB11 559292  
42 3HOU 11 K, W DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
43 3HOY 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
44 3HOV 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
45 1TWA 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
46 2NVT 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
47 3HOZ 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
48 3HOW 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
49 3HOX 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
50 1I6H 11 K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE 4932   2.7.7.6   
51 2R92 13 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
52 2R7Z 14 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
53 1R9T 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
54 3I4M 11 K DNA-directed RNA polymerase II subunit RPB11 4932  
55 3H3V 11 L DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
56 1TWH 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
57 2NVY 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
58 2E2J 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
59 2VUM 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932   2.7.7.6   
60 3M4O 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
61 2R93 12 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
62 1TWG 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
63 3GTM 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
64 3I4N 11 K DNA-directed RNA polymerase II subunit RPB11 4932  
65 2E2I 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
66 3GTL 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
67 4BXZ 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932   2.7.7.6   
68 3GTK 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
69 3K1F 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
70 3GTJ 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
71 3GTG 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
72 2YU9 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
73 1WCM 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
74 2JA7 14 K, W DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
75 4X6A 9 K DNA-directed RNA polymerase II subunit RPB11 559292  
76 4X67 9 K DNA-directed RNA polymerase II subunit RPB11 559292  
77 1Y1W 14 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
78 3QT1 11 K DNA-directed RNA polymerase II subunit RPB11 4932   2.7.7.6   
79 3K7A 9 K DNA-directed RNA polymerase II subunit RPB11 4932  
80 2JA8 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
81 2JA5 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
82 2NVX 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
83 2B63 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
84 3GTQ 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
85 3GTP 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
86 1Y1V 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
87 3GTO 9 K DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932  
88 3FKI 11 K DNA-directed RNA polymerase II subunit RPB11 4932  
89 1Y1Y 13 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
90 1SFO 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
91 2E2H 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
92 2JA6 11 K DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE 4932   2.7.7.6   
93 2NVZ 12 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
94 1Y77 14 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
95 1NIK 11 K DNA-directed RNA polymerase II, chain RPB11 4932   2.7.7.6   
96 1R9S 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
97 1R5U 9 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
98 2B8K 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
99 4V1M 9 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 4932  
100 4V1N 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 2.7.7.6 4932  
101 4V1O 11 K DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 2.7.7.6 4932  
102 3J1N 11 K DNA-directed RNA polymerase II subunit RPB11 4932  
103 3J0K 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 9606   2.7.7.6   
104 1PQV 11 K DNA-directed RNA polymerase II 13.6 kDa polypeptide 4932   2.7.7.6   
105 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% 16 103 205
95% 16 103 288
90% 16 103 301
70% 16 103 323
50% 16 104 347
40% 16 104 378
30% 16 104 381
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% 18 109 189
95% 18 109 263
90% 18 109 276
70% 18 110 290
50% 18 118 274
40% 18 118 310
30% 18 118 320
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% 16 105 201
95% 16 105 286
90% 16 105 296
70% 16 105 319
50% 16 105 350
40% 16 106 368
30% 16 106 374
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% 18 108 191
95% 18 108 266
90% 18 108 280
70% 18 108 300
50% 18 108 328
40% 18 108 362
30% 18 108 365
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 23041
95% 1 3 19256
90% 1 3 18671
70% 1 3 17183
50% 1 3 15034
40% 1 3 13475
30% 1 3 11564
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% 16 104 202
95% 16 105 284
90% 16 105 295
70% 16 105 318
50% 16 106 334
40% 16 114 320
30% 16 114 329
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% 16 103 206
95% 16 103 289
90% 16 103 302
70% 16 103 324
50% 16 104 349
40% 16 104 380
30% 16 104 384
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 51 464
95% 7 51 673
90% 7 51 708
70% 7 52 753
50% 7 52 843
40% 7 52 864
30% 7 52 864
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% 19 110 184
95% 19 110 256
90% 19 110 268
70% 19 110 292
50% 19 111 310
40% 19 111 344
30% 19 111 353
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% 18 107 192
95% 18 107 272
90% 18 107 285
70% 18 107 305
50% 18 109 317
40% 18 109 349
30% 18 109 358
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 53 437
95% 8 53 638
90% 8 53 670
70% 8 53 721
50% 9 55 712
40% 9 55 740
30% 9 55 741
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 53292
95% 18 110 257
90% 18 110 269
70% 18 110 293
50% 18 110 318
40% 18 110 350
30% 18 112 350
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% 16 104 204
95% 16 104 287
90% 16 104 300
70% 16 104 322
50% 16 105 343
40% 16 105 375
30% 16 105 379
 

Documentation

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