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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% 85 108 198
95% 85 108 273
90% 85 108 287
70% 85 108 308
50% 85 109 329
40% 85 109 359
30% 85 109 365
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% 89 114 183
95% 89 114 251
90% 89 114 261
70% 89 115 272
50% 94 123 270
40% 94 123 296
30% 94 123 311
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% 85 110 194
95% 85 110 270
90% 85 110 283
70% 85 110 304
50% 85 110 333
40% 85 111 353
30% 85 111 362
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% 89 113 187
95% 89 113 253
90% 89 113 264
70% 89 113 290
50% 89 113 317
40% 89 113 349
30% 89 113 356
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% 84 109 195
95% 85 110 265
90% 85 110 278
70% 85 110 301
50% 85 111 320
40% 90 119 308
30% 90 119 319
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% 85 108 200
95% 85 108 277
90% 85 108 291
70% 85 108 310
50% 85 109 330
40% 85 109 363
30% 85 109 367
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% 42 55 430
95% 42 55 619
90% 42 55 651
70% 42 56 689
50% 42 56 776
40% 42 56 803
30% 42 56 804
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% 90 115 170
95% 90 115 239
90% 90 115 249
70% 90 115 277
50% 90 116 305
40% 90 116 335
30% 90 116 342
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% 89 112 188
95% 89 112 255
90% 89 112 267
70% 89 112 293
50% 89 114 312
40% 89 114 340
30% 89 114 350
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% 44 57 402
95% 44 57 589
90% 44 57 619
70% 44 57 670
50% 45 59 672
40% 45 59 703
30% 45 59 703
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% 88 114 179
95% 89 115 241
90% 89 115 251
70% 89 115 280
50% 89 115 313
40% 89 115 341
30% 89 117 336
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% 84 109 196
95% 84 109 272
90% 84 109 286
70% 84 109 307
50% 84 110 328
40% 84 110 358
30% 84 110 364
 

Documentation

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