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RNA POLYMERASE II INITIAL TRANSCRIBING COMPLEX WITH A 7NT DNA-RNA HYBRID AND SOAKED WITH AMPCPP
Sequence Clustering and Redundancy Reduction Results
4A3L
Sequence Clusters for the Sequence Entities in PDB 4A3L
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% 21 101 202
95% 21 101 285
90% 21 101 299
70% 21 101 315
50% 21 102 345
40% 21 102 369
30% 21 102 376
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% 23 107 178
95% 23 107 253
90% 23 107 265
70% 23 108 270
50% 23 116 274
40% 23 116 302
30% 23 116 317
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% 21 103 197
95% 21 103 278
90% 21 103 292
70% 21 103 309
50% 21 103 350
40% 21 104 363
30% 21 104 371
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% 23 106 185
95% 23 106 261
90% 23 106 275
70% 23 106 292
50% 23 106 325
40% 23 106 349
30% 23 106 357
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*CP*CP*AP*GP*GP*AP)-3' rna, length: 7 [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*BRU*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% 21 102 199
95% 21 103 274
90% 21 103 287
70% 21 103 306
50% 21 104 337
40% 21 112 313
30% 21 112 322
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% 21 101 203
95% 21 101 287
90% 21 101 301
70% 21 101 317
50% 21 102 347
40% 21 102 372
30% 21 102 380
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% 10 51 437
95% 10 51 636
90% 10 51 669
70% 10 52 715
50% 10 52 802
40% 10 52 823
30% 10 52 828
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% 24 108 167
95% 24 108 239
90% 24 108 251
70% 24 108 274
50% 24 109 302
40% 24 109 325
30% 24 109 342
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% 23 105 190
95% 23 105 269
90% 23 105 281
70% 23 105 297
50% 23 107 312
40% 23 107 339
30% 23 107 348
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% 11 53 414
95% 11 53 602
90% 11 53 632
70% 11 53 688
50% 12 55 673
40% 12 55 701
30% 12 55 701
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% 22 107 172
95% 23 108 240
90% 23 108 253
70% 23 108 275
50% 23 108 313
40% 23 108 340
30% 23 110 341
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% 21 102 201
95% 21 102 284
90% 21 102 298
70% 21 102 314
50% 21 103 343
40% 21 103 367
30% 21 103 374
 

Documentation

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