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CPD LESION CONTAINING RNA POLYMERASE II ELONGATION COMPLEX D
Sequence Clustering and Redundancy Reduction Results
2JA8
Sequence Clusters for the Sequence Entities in PDB 2JA8
Entity #1: Chains: A - DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT protein, length: 1733 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 78 101 202
95% 78 101 285
90% 78 101 299
70% 78 101 315
50% 78 102 346
40% 78 102 369
30% 78 102 376
Entity #10: Chains: J - DNA-DIRECTED RNA POLYMERASES I/II/III SUBUNIT 10 protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 82 107 178
95% 82 107 253
90% 82 107 265
70% 82 108 270
50% 87 116 274
40% 87 116 302
30% 87 116 317
Entity #11: Chains: K - DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE protein, length: 120 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 78 103 197
95% 78 103 278
90% 78 103 292
70% 78 103 309
50% 78 103 351
40% 78 104 364
30% 78 104 371
Entity #12: Chains: L - DNA-DIRECTED RNA POLYMERASES I, II, AND III 7.7 KDA POLYPEPTIDE protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 82 106 185
95% 82 106 261
90% 82 106 275
70% 82 106 292
50% 82 106 325
40% 82 106 349
30% 82 106 358
Entity #13: Chains: N - 5'-D(*TP*AP*AP*GP*TP*AP*CP*TP*TP*GP *AP*GP*CP*T)-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*AP*UP)-3' rna, length: 11 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #15: Chains: T - 5'-D(*AP*GP*CP*TP*CP*AP*AP*GP*TP*AP *CP*TP*TP*TP*TP*TTP*CP*BRUP*GP*GP*TP*CP*AP*TP*T)-3' dna, length: 25 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #2: Chains: B - DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE protein, length: 1224 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 77 102 199
95% 78 103 274
90% 78 103 287
70% 78 103 306
50% 78 104 338
40% 83 112 313
30% 83 112 322
Entity #3: Chains: C - DNA-DIRECTED RNA POLYMERASE II 45KDA POLYPEPTIDE protein, length: 318 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 78 101 203
95% 78 101 287
90% 78 101 301
70% 78 101 317
50% 78 102 348
40% 78 102 372
30% 78 102 380
Entity #4: Chains: D - DNA-DIRECTED RNA POLYMERASE II 32KDA POLYPEPTIDE protein, length: 221 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 38 51 440
95% 38 51 639
90% 38 51 672
70% 38 52 717
50% 38 52 804
40% 38 52 825
30% 38 52 830
Entity #5: Chains: E - DNA-DIRECTED RNA POLYMERASES I, II, AND III 27 KDA POLYPEPTIDE protein, length: 215 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 83 108 167
95% 83 108 240
90% 83 108 252
70% 83 108 274
50% 83 109 302
40% 83 109 325
30% 83 109 342
Entity #6: Chains: F - DNA-DIRECTED RNA POLYMERASES I, II, AND III 23 KDA POLYPEPTIDE protein, length: 155 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 82 105 190
95% 82 105 269
90% 82 105 281
70% 82 105 297
50% 82 107 312
40% 82 107 339
30% 82 107 348
Entity #7: Chains: G - DNA-DIRECTED RNA POLYMERASE II 19KDA POLYPEPTIDE protein, length: 171 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 40 53 418
95% 40 53 605
90% 40 53 635
70% 40 53 690
50% 41 55 677
40% 41 55 705
30% 41 55 703
Entity #8: Chains: H - DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE protein, length: 146 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 81 107 172
95% 82 108 241
90% 82 108 254
70% 82 108 275
50% 82 108 313
40% 82 108 340
30% 82 110 341
Entity #9: Chains: I - DNA-DIRECTED RNA POLYMERASE II SUBUNIT 9 protein, length: 122 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 77 102 201
95% 77 102 284
90% 77 102 298
70% 77 102 314
50% 77 103 344
40% 77 103 367
30% 77 103 374
 

Documentation

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