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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 320 Members. Sequence cutoff: 40% Cluster size: 114 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1TWF 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
2 3S14 2 B DNA-directed RNA polymerase II subunit RPB2 559292   2.7.7.6   
3 3CQZ 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
4 3PO2 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
5 3RZO 2 B DNA-directed RNA polymerase II subunit RPB2 559292   2.7.7.6   
6 3PO3 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
7 3S1M 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
8 4A3E 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
9 3S1R 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
10 4A3D 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
11 3S1N 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
12 4A3F 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
13 4A93 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
14 1K83 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932   2.7.7.6   
15 1I50 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932   2.7.7.6   
16 4BY7 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
17 3S2D 2 B DNA-directed RNA polymerase II subunit RPB2 559292   2.7.7.6   
18 4A3C 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
19 4A3K 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
20 3S15 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
21 4A3L 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
22 4BXX 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
23 3S1Q 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
24 3S16 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
25 3S17 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
26 4A3G 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
27 4A3B 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
28 4BBR 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
29 2NVQ 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
30 3RZD 2 B DNA-directed RNA polymerase II subunit RPB2 559292   2.7.7.6   
31 4A3J 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
32 3S2H 2 B DNA-directed RNA polymerase II subunit RPB2 559292   2.7.7.6   
33 3M3Y 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
34 4A3I 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
35 4BY1 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
36 4A3M 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
37 4Y7N 2 B DNA-directed RNA polymerase II subunit RPB2,DNA-directed RNA polymerase II subunit RPB2 559292   2.7.7.6   
38 1I3Q 2 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932   2.7.7.6   
39 4BBS 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
40 1TWC 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
41 4Y52 2 B DNA-directed RNA polymerase II subunit RPB2,DNA-directed RNA polymerase II subunit RPB2 559292   2.7.7.6   
42 3HOU 2 B, N DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
43 3HOY 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
44 3HOV 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
45 1TWA 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
46 4AYB 2 B DNA-DIRECTED RNA POLYMERASE RPO2 2286   2.7.7.6   
47 2NVT 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
48 3HOZ 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
49 3HOW 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
50 3HOX 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
51 1I6H 4 B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE 4932   2.7.7.6   
52 2R92 4 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
53 2R7Z 5 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
54 1R9T 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
55 3I4M 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
56 3H3V 2 C DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
57 1TWH 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
58 2NVY 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
59 2E2J 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
60 2VUM 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
61 3M4O 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
62 2R93 3 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
63 1TWG 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
64 3GTM 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
65 3I4N 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
66 3HKZ 3 B, J DNA-directed RNA polymerase subunit B 273057   2.7.7.6   
67 2WAQ 2 B DNA-DIRECTED RNA POLYMERASE RPO2 SUBUNIT 2286   2.7.7.6   
68 2E2I 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
69 3GTL 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
70 2PMZ 3 B, R DNA-directed RNA polymerase subunit B 273057   2.7.7.6   
71 4BXZ 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
72 3GTK 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
73 3K1F 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
74 3GTJ 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
75 3GTG 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
76 2YU9 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
77 4QIW 2 B, J DNA-directed RNA polymerase 69014   2.7.7.6   
78 1WCM 2 B DNA-DIRECTED RNA POLYMERASE II SECOND LARGEST SUBUNIT 4932   2.7.7.6   
79 2JA7 5 B, N DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932   2.7.7.6   
80 4X6A 2 B DNA-directed RNA polymerase II subunit RPB2 559292   2.7.7.6   
81 4X67 2 B DNA-directed RNA polymerase II subunit RPB2 559292   2.7.7.6   
82 1Y1W 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
83 3QT1 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
84 3K7A 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
85 2JA8 2 B DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932   2.7.7.6   
86 2JA5 2 B DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932   2.7.7.6   
87 2NVX 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
88 2B63 3 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
89 3GTQ 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
90 3GTP 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
91 1Y1V 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
92 3GTO 2 B DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
93 3H0G 2 B, N DNA-directed RNA polymerase II subunit RPB2 284812   2.7.7.6   
94 3FKI 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
95 1Y1Y 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
96 1SFO 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
97 2Y0S 2 B, R DNA-DIRECTED RNA POLYMERASE 2286   2.7.7.6   
98 2E2H 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
99 2JA6 2 B DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE 4932   2.7.7.6   
100 2NVZ 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
101 2WB1 2 B, R DNA-DIRECTED RNA POLYMERASE RPO2 SUBUNIT 2286   2.7.7.6   
102 4V8S 7 AR, BB DNA-DIRECTED RNA POLYMERASE RPO2 523848   2.7.7.6   
103 1Y77 5 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
104 1NIK 2 B ORF YOR151c 4932   2.7.7.6   
105 1R9S 4 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
106 1R5U 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
107 2B8K 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
108 4V1M 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
109 4V1N 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
110 4V1O 2 B DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 4932   2.7.7.6   
111 3J1N 2 B DNA-directed RNA polymerase II subunit RPB2 4932   2.7.7.6   
112 3J0K 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 9606   2.7.7.6   
113 1PQV 2 B DNA-directed RNA polymerase II 140 kDa polypeptide 4932   2.7.7.6   
114 1NT9 2 B DNA-directed polymerase II SECOND LARGEST SUBUNIT 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.