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An Information Portal to 105097 Biological Macromolecular Structures

RNA POLYMERASE II INITIAL TRANSCRIBING COMPLEX WITH A 4NT DNA-RNA HYBRID AND SOAKED WITH AMPCPP
Sequence Clustering and Redundancy Reduction Results
4A3M
Sequence Clusters for the Sequence Entities in PDB 4A3M
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% 36 96 208
95% 36 96 292
90% 36 96 309
70% 36 96 326
50% 36 97 351
40% 36 97 376
30% 36 97 387
Entity #10: Chains: J - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC5 protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 38 102 190
95% 38 102 269
90% 38 102 281
70% 38 103 295
50% 38 111 276
40% 38 111 305
30% 38 111 318
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% 36 98 204
95% 36 98 287
90% 36 98 304
70% 36 98 319
50% 36 98 360
40% 36 99 372
30% 36 99 381
Entity #12: Chains: L - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC4 protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 38 101 192
95% 38 101 274
90% 38 101 287
70% 38 101 304
50% 38 101 341
40% 38 101 366
30% 38 101 376
Entity #13: Chains: N - 5'-D(*AP*AP*GP*TP*AP*CP*TP)-3' dna, length: 14 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #14: Chains: P - 5'-R(*AP*GP*GP*A)-3' rna, length: 4 [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*TP*CP*CP*BRUP*GP*GP*TP*CP*AP*TP*T)-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% 35 97 205
95% 36 98 284
90% 36 98 300
70% 36 98 317
50% 36 99 344
40% 36 107 316
30% 36 107 328
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% 36 96 210
95% 36 96 294
90% 36 96 311
70% 36 96 327
50% 36 97 354
40% 36 97 379
30% 36 97 389
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% 18 49 464
95% 18 49 660
90% 18 49 695
70% 18 50 736
50% 18 50 821
40% 18 50 840
30% 18 50 842
Entity #5: Chains: E - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC1 protein, length: 215 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 39 103 184
95% 39 103 263
90% 39 103 275
70% 39 103 298
50% 39 104 322
40% 39 104 346
30% 39 104 355
Entity #6: Chains: F - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC2 protein, length: 155 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 38 100 194
95% 38 100 278
90% 38 100 291
70% 38 100 310
50% 38 102 332
40% 38 102 356
30% 38 102 368
Entity #7: Chains: G - DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 protein, length: 171 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 19 51 422
95% 19 51 615
90% 19 51 648
70% 19 51 698
50% 20 53 683
40% 20 53 715
30% 20 53 714
Entity #8: Chains: H - DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3 protein, length: 146 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 37 102 187
95% 38 103 265
90% 38 103 277
70% 38 103 299
50% 38 103 333
40% 38 103 357
30% 38 105 350
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% 36 97 206
95% 36 97 290
90% 36 97 307
70% 36 97 323
50% 36 98 350
40% 36 98 375
30% 36 98 386
 

Documentation

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