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CPD LESION CONTAINING RNA POLYMERASE II ELONGATION COMPLEX B
Sequence Clustering and Redundancy Reduction Results
2JA6
Sequence Clusters for the Sequence Entities in PDB 2JA6
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% 88 96 203
95% 88 96 287
90% 88 96 300
70% 88 96 316
50% 89 97 338
40% 89 97 361
30% 89 97 374
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% 92 102 181
95% 92 102 259
90% 92 102 270
70% 93 103 280
50% 93 103 311
40% 98 111 294
30% 98 111 311
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% 88 98 200
95% 88 98 282
90% 88 98 295
70% 88 98 311
50% 88 98 347
40% 89 99 356
30% 89 99 367
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% 92 101 186
95% 92 101 267
90% 92 101 278
70% 92 101 295
50% 92 101 327
40% 92 101 351
30% 92 101 362
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*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(*AP*GP*CP*TP*CP*AP*AP*GP*TP*AP *CP*TP*TP*TTP*TP*CP*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% 87 97 201
95% 88 98 279
90% 88 98 292
70% 88 98 309
50% 89 99 331
40% 94 107 301
30% 94 107 319
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% 88 96 205
95% 88 96 288
90% 88 96 301
70% 88 96 318
50% 89 97 341
40% 89 97 363
30% 89 97 376
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% 44 49 444
95% 44 49 642
90% 44 49 675
70% 44 50 698
50% 44 50 757
40% 44 50 769
30% 44 50 776
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% 93 103 176
95% 93 103 250
90% 93 103 261
70% 93 103 287
50% 94 104 301
40% 94 104 328
30% 94 104 339
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% 92 100 188
95% 92 100 271
90% 92 100 282
70% 92 100 301
50% 93 102 316
40% 93 102 339
30% 93 102 350
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% 46 51 413
95% 46 51 605
90% 46 51 636
70% 46 51 667
50% 48 53 638
40% 48 53 664
30% 48 53 664
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% 91 102 180
95% 92 103 251
90% 92 103 263
70% 92 103 288
50% 92 103 317
40% 92 103 340
30% 93 105 336
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% 87 97 202
95% 87 97 286
90% 87 97 299
70% 87 97 315
50% 88 98 335
40% 88 98 358
30% 88 98 371
 

Documentation

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