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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% 80 103 205
95% 80 103 288
90% 80 103 301
70% 80 103 323
50% 80 104 347
40% 80 104 378
30% 80 104 381
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% 84 109 189
95% 84 109 263
90% 84 109 276
70% 84 110 290
50% 89 118 274
40% 89 118 310
30% 89 118 320
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% 80 105 201
95% 80 105 286
90% 80 105 296
70% 80 105 319
50% 80 105 350
40% 80 106 368
30% 80 106 374
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% 84 108 191
95% 84 108 266
90% 84 108 280
70% 84 108 300
50% 84 108 328
40% 84 108 362
30% 84 108 365
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% 79 104 202
95% 80 105 284
90% 80 105 295
70% 80 105 318
50% 80 106 334
40% 85 114 320
30% 85 114 329
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% 80 103 206
95% 80 103 289
90% 80 103 302
70% 80 103 324
50% 80 104 349
40% 80 104 380
30% 80 104 384
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 51 464
95% 38 51 673
90% 38 51 708
70% 38 52 753
50% 38 52 843
40% 38 52 864
30% 38 52 864
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% 85 110 184
95% 85 110 256
90% 85 110 268
70% 85 110 292
50% 85 111 310
40% 85 111 344
30% 85 111 353
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% 84 107 192
95% 84 107 272
90% 84 107 285
70% 84 107 305
50% 84 109 317
40% 84 109 349
30% 84 109 358
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 53 437
95% 40 53 638
90% 40 53 670
70% 40 53 721
50% 41 55 712
40% 41 55 740
30% 41 55 741
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% 83 109 188
95% 84 110 257
90% 84 110 269
70% 84 110 293
50% 84 110 318
40% 84 110 350
30% 84 112 350
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% 79 104 204
95% 79 104 287
90% 79 104 300
70% 79 104 322
50% 79 105 343
40% 79 105 375
30% 79 105 379
 

Documentation

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