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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% 76 96 208
95% 76 96 292
90% 76 96 309
70% 76 96 326
50% 76 97 351
40% 76 97 376
30% 76 97 387
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% 80 102 190
95% 80 102 269
90% 80 102 281
70% 80 103 295
50% 85 111 276
40% 85 111 305
30% 85 111 318
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% 76 98 204
95% 76 98 287
90% 76 98 304
70% 76 98 319
50% 76 98 360
40% 76 99 372
30% 76 99 381
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% 80 101 192
95% 80 101 274
90% 80 101 287
70% 80 101 304
50% 80 101 341
40% 80 101 366
30% 80 101 376
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% 75 97 205
95% 76 98 284
90% 76 98 300
70% 76 98 317
50% 76 99 344
40% 81 107 316
30% 81 107 328
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% 76 96 210
95% 76 96 294
90% 76 96 311
70% 76 96 327
50% 76 97 354
40% 76 97 379
30% 76 97 389
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 49 464
95% 38 49 660
90% 38 49 695
70% 38 50 736
50% 38 50 821
40% 38 50 840
30% 38 50 842
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% 81 103 184
95% 81 103 263
90% 81 103 275
70% 81 103 298
50% 81 104 322
40% 81 104 346
30% 81 104 355
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% 80 100 194
95% 80 100 278
90% 80 100 291
70% 80 100 310
50% 80 102 332
40% 80 102 356
30% 80 102 368
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 51 422
95% 40 51 615
90% 40 51 648
70% 40 51 698
50% 41 53 683
40% 41 53 715
30% 41 53 714
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% 79 102 187
95% 80 103 265
90% 80 103 277
70% 80 103 299
50% 80 103 333
40% 80 103 357
30% 80 105 350
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% 75 97 206
95% 75 97 290
90% 75 97 307
70% 75 97 323
50% 75 98 350
40% 75 98 375
30% 75 98 386
 

Documentation

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