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RNA POLYMERASE II INITIAL TRANSCRIBING COMPLEX WITH A 5NT DNA-RNA HYBRID AND SOAKED WITH AMPCPP
Sequence Clustering and Redundancy Reduction Results
4A3E
Sequence Clusters for the Sequence Entities in PDB 4A3E
Entity #1: Chains: A - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 protein, length: 1732 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 8 96 208
95% 8 96 292
90% 8 96 309
70% 8 96 326
50% 8 97 353
40% 8 97 377
30% 8 97 388
Entity #10: Chains: J - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 5 protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 9 102 190
95% 9 102 269
90% 9 102 282
70% 9 103 295
50% 9 111 277
40% 9 111 306
30% 9 111 319
Entity #11: Chains: K - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 protein, length: 120 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 8 98 205
95% 8 98 289
90% 8 98 306
70% 8 98 321
50% 8 98 362
40% 8 99 372
30% 8 99 381
Entity #12: Chains: L - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 4 protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 9 101 192
95% 9 101 274
90% 9 101 287
70% 9 101 304
50% 9 101 341
40% 9 101 367
30% 9 101 377
Entity #13: Chains: N - NON TEMPLATE DNA 5'-D(*TP*AP*AP*GP*TP*AP*CP*TP*TP*GP*AP *GP*CP*TP)-3' dna, length: 14 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #14: Chains: P - TRANSCRIPT RNA 5'-R(*CP*AP*GP*GP*AP)-3' rna, length: 5 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #15: Chains: T - TEMPLATE DNA 5'-D(*AP*GP*CP*TP*CP*AP*AP*GP*TP*AP*CP*TP*TP *TP*TP*TP*CP*CP*BRU*GP*GP*TP*CP*AP*TP*TP)-3' dna, length: 26 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #2: Chains: B - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 protein, length: 1224 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 8 97 206
95% 8 98 286
90% 8 98 302
70% 8 98 319
50% 8 99 346
40% 8 107 317
30% 8 107 330
Entity #3: Chains: C - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 protein, length: 318 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 8 96 210
95% 8 96 294
90% 8 96 311
70% 8 96 327
50% 8 97 356
40% 8 97 380
30% 8 97 390
Entity #4: Chains: D - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 protein, length: 221 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 3 49 465
95% 3 49 661
90% 3 49 696
70% 3 50 735
50% 3 50 821
40% 3 50 840
30% 3 50 844
Entity #5: Chains: E - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 1 protein, length: 215 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 10 103 186
95% 10 103 263
90% 10 103 275
70% 10 103 298
50% 10 104 323
40% 10 104 347
30% 10 104 356
Entity #6: Chains: F - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 2 protein, length: 155 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 9 100 194
95% 9 100 279
90% 9 100 292
70% 9 100 311
50% 9 102 332
40% 9 102 357
30% 9 102 370
Entity #7: Chains: G - RPB7, DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 protein, length: 171 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 4 51 422
95% 4 51 615
90% 4 51 648
70% 4 51 697
50% 5 53 682
40% 5 53 714
30% 5 53 714
Entity #8: Chains: H - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 protein, length: 146 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 9 102 189
95% 9 103 265
90% 9 103 277
70% 9 103 299
50% 9 103 333
40% 9 103 358
30% 9 105 352
Entity #9: Chains: I - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 protein, length: 122 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 8 97 207
95% 8 97 291
90% 8 97 308
70% 8 97 324
50% 8 98 351
40% 8 98 375
30% 8 98 386
 

Documentation

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