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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% 78 101 204
95% 78 101 289
90% 78 101 304
70% 78 101 321
50% 78 102 348
40% 78 102 374
30% 78 102 380
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% 82 107 188
95% 82 107 263
90% 82 107 275
70% 82 108 287
50% 87 116 274
40% 87 116 304
30% 87 116 319
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% 78 103 200
95% 78 103 283
90% 78 103 298
70% 78 103 317
50% 78 103 352
40% 78 104 368
30% 78 104 374
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% 82 106 190
95% 82 106 265
90% 82 106 279
70% 82 106 298
50% 82 106 327
40% 82 106 355
30% 82 106 363
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% 77 102 201
95% 78 103 280
90% 78 103 294
70% 78 103 314
50% 78 104 339
40% 83 112 317
30% 83 112 327
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% 78 101 205
95% 78 101 291
90% 78 101 306
70% 78 101 323
50% 78 102 350
40% 78 102 377
30% 78 102 384
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 51 450
95% 38 51 652
90% 38 51 684
70% 38 52 726
50% 38 52 816
40% 38 52 835
30% 38 52 841
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% 83 108 186
95% 83 108 257
90% 83 108 270
70% 83 108 289
50% 83 109 308
40% 83 109 335
30% 83 109 347
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% 82 105 193
95% 82 105 274
90% 82 105 286
70% 82 105 305
50% 82 107 318
40% 82 107 349
30% 82 107 354
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 53 426
95% 40 53 622
90% 40 53 652
70% 40 53 701
50% 41 55 692
40% 41 55 717
30% 41 55 719
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% 81 107 187
95% 82 108 258
90% 82 108 271
70% 82 108 290
50% 82 108 319
40% 82 108 350
30% 82 110 345
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% 77 102 203
95% 77 102 288
90% 77 102 303
70% 77 102 320
50% 77 103 346
40% 77 103 372
30% 77 103 378
 

Documentation

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