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An Information Portal to 105025 Biological Macromolecular Structures

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 96 206
95% 21 96 290
90% 21 96 307
70% 21 96 324
50% 21 97 348
40% 21 97 372
30% 21 97 385
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% 23 102 189
95% 23 102 266
90% 23 102 278
70% 23 103 290
50% 23 112 274
40% 23 112 303
30% 23 112 318
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% 21 98 203
95% 21 98 286
90% 21 98 303
70% 21 98 318
50% 21 98 358
40% 21 99 367
30% 21 99 378
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% 23 101 191
95% 23 101 271
90% 23 101 283
70% 23 101 301
50% 23 101 338
40% 23 101 360
30% 23 101 373
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 97 204
95% 21 98 282
90% 21 98 298
70% 21 98 315
50% 21 99 341
40% 21 108 311
30% 21 108 328
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% 21 96 208
95% 21 96 291
90% 21 96 308
70% 21 96 325
50% 21 97 351
40% 21 97 374
30% 21 97 387
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 49 457
95% 10 49 658
90% 10 49 693
70% 10 50 732
50% 10 50 819
40% 10 50 834
30% 10 50 834
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% 24 103 183
95% 24 103 260
90% 24 103 272
70% 24 103 294
50% 24 104 316
40% 24 104 342
30% 24 104 352
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% 23 100 193
95% 23 100 275
90% 23 100 287
70% 23 100 307
50% 23 102 329
40% 23 102 352
30% 23 102 363
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 51 420
95% 11 51 613
90% 11 51 646
70% 11 51 696
50% 12 53 683
40% 12 53 713
30% 12 53 713
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% 22 102 186
95% 23 103 261
90% 23 103 274
70% 23 103 295
50% 23 103 330
40% 23 103 353
30% 23 105 346
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 97 205
95% 21 97 289
90% 21 97 306
70% 21 97 322
50% 21 98 346
40% 21 98 370
30% 21 98 383
 

Documentation

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