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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 286 Members. Sequence cutoff: 95% Cluster size: 104 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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1 1TWF 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
2 3S14 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
3 3CQZ 7 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
4 3PO2 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
5 3RZO 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
6 3PO3 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
7 3S1M 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
8 4A3E 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
9 3S1R 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
10 4A3D 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
11 3S1N 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
12 4A3F 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
13 4A93 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
14 1K83 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
15 1I50 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
16 4BY7 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
17 3S2D 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
18 4A3C 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
19 4A3K 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
20 3S15 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
21 4A3L 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
22 4BXX 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
23 3S1Q 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
24 3S16 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
25 3S17 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
26 4A3G 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
27 4A3B 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
28 4BBR 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
29 2NVQ 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
30 3RZD 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
31 4A3J 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
32 3S2H 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
33 3M3Y 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
34 4A3I 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
35 4BY1 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
36 4A3M 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
37 4Y7N 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
38 1I3Q 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
39 4BBS 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
40 1TWC 7 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
41 4Y52 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
42 3HOU 9 I, U DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
43 3HOY 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
44 3HOV 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
45 1TWA 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
46 2NVT 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
47 3HOZ 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
48 3HOW 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
49 3HOX 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
50 1I6H 9 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
51 2R92 11 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
52 2R7Z 12 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
53 1R9T 10 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
54 3I4M 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
55 3H3V 9 J DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
56 1TWH 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
57 2NVY 7 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
58 2E2J 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
59 2VUM 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932   2.7.7.6   
60 3M4O 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
61 2R93 10 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
62 1TWG 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
63 3GTM 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
64 3I4N 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
65 2E2I 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
66 3GTL 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
67 4BXZ 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932   2.7.7.6   
68 3GTK 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
69 3K1F 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
70 3GTJ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
71 3GTG 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
72 2YU9 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
73 1WCM 9 I DNA-DIRECTED RNA POLYMERASE II 14.2 KDA POLYPEPTIDE 4932   2.7.7.6   
74 2JA7 12 I, U DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
75 4X6A 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
76 4X67 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
77 1Y1W 12 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
78 3K7A 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
79 2JA8 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
80 2JA5 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
81 2NVX 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
82 2B63 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
83 3GTQ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
84 3GTP 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
85 1Y1V 9 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
86 3GTO 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
87 3FKI 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
88 1Y1Y 11 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
89 1SFO 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
90 2E2H 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
91 2JA6 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
92 2NVZ 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
93 1Y77 12 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
94 1NIK 9 I DNA-directed RNA polymerase II, chain RPB9 4932   2.7.7.6   
95 1R9S 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
96 1R5U 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
97 2B8K 9 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
98 4V1M 7 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
99 4V1N 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
100 4V1O 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
101 3J1N 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
102 3J0K 9 I DNA-directed RNA polymerase II subunit 9 9606   2.7.7.6   
103 1PQV 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
104 1NT9 9 I DNA-directed RNA polymerase II 14.2 kDa 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% 16 103 204
95% 16 103 287
90% 16 103 301
70% 16 103 323
50% 16 104 347
40% 16 104 377
30% 16 104 380
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% 18 110 289
50% 18 118 273
40% 18 118 310
30% 18 118 319
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% 16 105 200
95% 16 105 285
90% 16 105 296
70% 16 105 318
50% 16 105 350
40% 16 106 367
30% 16 106 372
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% 18 108 361
30% 18 108 363
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 22993
95% 1 3 19210
90% 1 3 18630
70% 1 3 17148
50% 1 3 15001
40% 1 3 13444
30% 1 3 11533
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% 16 104 201
95% 16 105 283
90% 16 105 295
70% 16 105 317
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% 16 103 205
95% 16 103 288
90% 16 103 302
70% 16 103 324
50% 16 104 349
40% 16 104 379
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 51 459
95% 7 51 666
90% 7 51 699
70% 7 52 747
50% 7 52 838
40% 7 52 859
30% 7 52 860
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% 19 111 352
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% 18 109 357
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 53 433
95% 8 53 632
90% 8 53 663
70% 8 53 714
50% 9 55 712
40% 9 55 740
30% 9 55 740
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 53203
95% 18 110 257
90% 18 110 269
70% 18 110 293
50% 18 110 318
40% 18 110 350
30% 18 112 349
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% 16 104 203
95% 16 104 286
90% 16 104 300
70% 16 104 322
50% 16 105 343
40% 16 105 374
30% 16 105 377
 

Documentation

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