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elongating RNA Polymerase II-Bye1 TLD complex
Sequence Clustering and Redundancy Reduction Results
4BY7
Cluster # 328 Members. Sequence cutoff: 50% Cluster size: 110 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 5C3E 9 I DNA-directed RNA polymerase II subunit RPB9 559292  
47 2NVT 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
48 3HOZ 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
49 3HOW 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
50 3HOX 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
51 1I6H 9 I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE 4932   2.7.7.6   
52 2R92 11 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
53 2R7Z 12 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
54 1R9T 10 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
55 3I4M 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
56 3H3V 9 J DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
57 1TWH 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
58 2NVY 7 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
59 2E2J 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
60 5C4X 9 I DNA-directed RNA polymerase II subunit RPB9 559292  
61 2VUM 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932   2.7.7.6   
62 5C44 9 I DNA-directed RNA polymerase II subunit RPB9 559292  
63 3M4O 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
64 5C4J 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
65 2R93 10 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
66 1TWG 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
67 3GTM 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
68 3I4N 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
69 2E2I 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
70 3GTL 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
71 4BXZ 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932   2.7.7.6   
72 3GTK 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
73 5C4A 9 I DNA-directed RNA polymerase II subunit RPB9 559292  
74 3K1F 9 I DNA-directed RNA polymerase II subunit RPB9 4932   2.7.7.6   
75 3GTJ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
76 3GTG 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
77 2YU9 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
78 1WCM 9 I DNA-DIRECTED RNA POLYMERASE II 14.2 KDA POLYPEPTIDE 4932   2.7.7.6   
79 2JA7 12 I, U DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
80 4X6A 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
81 4X67 7 I DNA-directed RNA polymerase II subunit RPB9 559292  
82 1Y1W 12 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
83 3K7A 7 I DNA-directed RNA polymerase II subunit RPB9 4932  
84 2JA8 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
85 2JA5 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
86 2NVX 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
87 2B63 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
88 3GTQ 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
89 3GTP 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
90 1Y1V 9 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
91 3GTO 7 I DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit 9 4932  
92 3H0G 9 I, U DNA-directed RNA polymerase II subunit RPB9 284812  
93 3FKI 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
94 1Y1Y 11 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
95 1SFO 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
96 2E2H 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
97 2JA6 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 4932   2.7.7.6   
98 2NVZ 10 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
99 1Y77 12 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
100 1NIK 9 I DNA-directed RNA polymerase II, chain RPB9 4932   2.7.7.6   
101 1R9S 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
102 1R5U 7 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
103 2B8K 9 I DNA-directed RNA polymerase II subunit 9 4932   2.7.7.6   
104 4V1M 7 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
105 4V1N 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
106 4V1O 9 I DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 4932  
107 3J1N 9 I DNA-directed RNA polymerase II subunit RPB9 4932  
108 3J0K 9 I DNA-directed RNA polymerase II subunit 9 9606   2.7.7.6   
109 1PQV 9 I DNA-directed RNA polymerase II 14.2 kDa polypeptide 4932   2.7.7.6   
110 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% 16 108 198
95% 16 108 273
90% 16 108 287
70% 16 108 308
50% 16 109 329
40% 16 109 359
30% 16 109 365
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% 18 114 183
95% 18 114 251
90% 18 114 261
70% 18 115 272
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% 16 110 270
90% 16 110 283
70% 16 110 304
50% 16 110 333
40% 16 111 353
30% 16 111 362
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% 18 113 253
90% 18 113 264
70% 18 113 290
50% 18 113 317
40% 18 113 349
30% 18 113 356
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 23272
95% 1 3 19441
90% 1 3 18839
70% 1 3 17318
50% 1 3 15145
40% 1 3 13571
30% 1 3 11646
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% 16 110 265
90% 16 110 278
70% 16 110 301
50% 16 111 320
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% 16 108 310
50% 16 109 330
40% 16 109 363
30% 16 109 367
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 55 430
95% 7 55 619
90% 7 55 651
70% 7 56 689
50% 7 56 776
40% 7 56 803
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% 19 115 170
95% 19 115 239
90% 19 115 249
70% 19 115 277
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% 18 112 255
90% 18 112 267
70% 18 112 293
50% 18 114 312
40% 18 114 340
30% 18 114 350
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 57 402
95% 8 57 589
90% 8 57 619
70% 8 57 670
50% 9 59 672
40% 9 59 703
30% 9 59 703
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 53678
95% 18 115 241
90% 18 115 251
70% 18 115 280
50% 18 115 313
40% 18 115 341
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% 16 109 272
90% 16 109 286
70% 16 109 307
50% 16 110 328
40% 16 110 358
30% 16 110 364
 

Documentation

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