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RNA POLYMERASE II INITIAL TRANSCRIBING COMPLEX WITH A 4NT DNA-RNA HYBRID
Sequence Clustering and Redundancy Reduction Results
4A3B
Sequence Clusters for the Sequence Entities in PDB 4A3B
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% 27 96 202
95% 27 96 286
90% 27 96 299
70% 27 96 315
50% 27 97 336
40% 27 97 359
30% 27 97 372
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% 29 102 180
95% 29 102 258
90% 29 102 268
70% 29 103 278
50% 29 103 310
40% 29 111 294
30% 29 111 311
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% 27 98 199
95% 27 98 281
90% 27 98 294
70% 27 98 310
50% 27 98 345
40% 27 99 353
30% 27 99 365
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% 29 101 185
95% 29 101 266
90% 29 101 277
70% 29 101 294
50% 29 101 325
40% 29 101 348
30% 29 101 359
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(*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 - TEMPLATE DNA 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% 27 97 200
95% 27 98 278
90% 27 98 291
70% 27 98 308
50% 27 99 329
40% 27 107 301
30% 27 107 319
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% 27 96 204
95% 27 96 287
90% 27 96 300
70% 27 96 317
50% 27 97 339
40% 27 97 361
30% 27 97 374
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% 13 49 441
95% 13 49 639
90% 13 49 672
70% 13 50 695
50% 13 50 753
40% 13 50 765
30% 13 50 772
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% 30 103 175
95% 30 103 248
90% 30 103 259
70% 30 103 285
50% 30 104 301
40% 30 104 327
30% 30 104 339
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% 29 100 187
95% 29 100 270
90% 29 100 281
70% 29 100 300
50% 29 102 315
40% 29 102 337
30% 29 102 349
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% 14 51 410
95% 14 51 597
90% 14 51 631
70% 14 51 664
50% 15 53 633
40% 15 53 659
30% 15 53 659
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% 28 102 178
95% 29 103 249
90% 29 103 261
70% 29 103 286
50% 29 103 316
40% 29 103 338
30% 29 105 336
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% 27 97 201
95% 27 97 285
90% 27 97 298
70% 27 97 314
50% 27 98 333
40% 27 98 356
30% 27 98 369
 

Documentation

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