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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% 27 101 206
95% 27 101 290
90% 27 101 305
70% 27 101 324
50% 27 102 350
40% 27 102 377
30% 27 102 382
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% 29 107 188
95% 29 107 267
90% 29 107 279
70% 29 108 289
50% 29 116 276
40% 29 116 306
30% 29 116 321
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% 27 103 201
95% 27 103 286
90% 27 103 301
70% 27 103 318
50% 27 103 354
40% 27 104 372
30% 27 104 377
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% 29 106 190
95% 29 106 269
90% 29 106 283
70% 29 106 301
50% 29 106 330
40% 29 106 360
30% 29 106 367
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% 27 102 203
95% 27 103 283
90% 27 103 297
70% 27 103 316
50% 27 104 342
40% 27 112 320
30% 27 112 330
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% 27 101 207
95% 27 101 291
90% 27 101 306
70% 27 101 325
50% 27 102 352
40% 27 102 380
30% 27 102 386
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 51 452
95% 13 51 656
90% 13 51 689
70% 13 52 733
50% 13 52 823
40% 13 52 844
30% 13 52 849
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% 30 108 186
95% 30 108 259
90% 30 108 272
70% 30 108 291
50% 30 109 310
40% 30 109 338
30% 30 109 349
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% 29 105 194
95% 29 105 278
90% 29 105 290
70% 29 105 308
50% 29 107 320
40% 29 107 352
30% 29 107 357
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 53 429
95% 14 53 625
90% 14 53 655
70% 14 53 705
50% 15 55 701
40% 15 55 731
30% 15 55 732
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% 28 107 187
95% 29 108 260
90% 29 108 273
70% 29 108 292
50% 29 108 321
40% 29 108 353
30% 29 110 347
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% 27 102 205
95% 27 102 289
90% 27 102 304
70% 27 102 323
50% 27 103 348
40% 27 103 375
30% 27 103 380
 

Documentation

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