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RNA POLYMERASE II INITIAL TRANSCRIBING COMPLEX WITH A 6NT DNA-RNA HYBRID AND SOAKED WITH AMPCPP
Sequence Clustering and Redundancy Reduction Results
4A3F
Sequence Clusters for the Sequence Entities in PDB 4A3F
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% 12 101 204
95% 12 101 288
90% 12 101 302
70% 12 101 318
50% 12 102 348
40% 12 102 374
30% 12 102 380
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% 14 107 186
95% 14 107 262
90% 14 107 274
70% 14 108 284
50% 14 116 274
40% 14 116 302
30% 14 116 319
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% 12 103 200
95% 12 103 282
90% 12 103 296
70% 12 103 313
50% 12 103 353
40% 12 104 368
30% 12 104 374
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% 14 106 189
95% 14 106 264
90% 14 106 278
70% 14 106 296
50% 14 106 328
40% 14 106 354
30% 14 106 362
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*CP*AP*GP*GP*AP)-3' rna, length: 6 [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*DTP *TP*TP*CP*C 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% 12 102 201
95% 12 103 278
90% 12 103 291
70% 12 103 310
50% 12 104 340
40% 12 112 314
30% 12 112 325
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% 12 101 205
95% 12 101 290
90% 12 101 304
70% 12 101 320
50% 12 102 350
40% 12 102 377
30% 12 102 384
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% 5 51 445
95% 5 51 645
90% 5 51 678
70% 5 52 724
50% 5 52 813
40% 5 52 831
30% 5 52 837
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% 15 108 183
95% 15 108 255
90% 15 108 267
70% 15 108 287
50% 15 109 306
40% 15 109 331
30% 15 109 346
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% 14 105 193
95% 14 105 273
90% 14 105 285
70% 14 105 302
50% 14 107 318
40% 14 107 346
30% 14 107 353
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% 6 53 422
95% 6 53 612
90% 6 53 641
70% 6 53 696
50% 7 55 686
40% 7 55 711
30% 7 55 711
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% 14 107 185
95% 14 108 256
90% 14 108 269
70% 14 108 288
50% 14 108 319
40% 14 108 347
30% 14 110 344
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% 12 102 203
95% 12 102 287
90% 12 102 301
70% 12 102 317
50% 12 103 346
40% 12 103 372
30% 12 103 378
 

Documentation

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