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An Information Portal to 111558 Biological Macromolecular Structures

Complete RNA Polymerase II elongation complex with substrate analogue GMPCPP
Sequence Clustering and Redundancy Reduction Results
1Y77
Sequence Clusters for the Sequence Entities in PDB 1Y77
Entity #1: Chains: T - 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*T*CP*GP*CP*CP*TP*GP*GP*TP*CP*TP*G)-3' dna, length: 19 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #10: Chains: G - DNA-directed RNA polymerase II 19 kDa polypeptide protein, length: 171 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 51 57 402
95% 51 57 589
90% 51 57 619
70% 51 57 670
50% 53 59 672
40% 53 59 703
30% 53 59 703
Entity #11: Chains: H - DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide protein, length: 146 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 102 114 179
95% 103 115 241
90% 103 115 251
70% 103 115 280
50% 103 115 313
40% 103 115 341
30% 104 117 336
Entity #12: Chains: I - DNA-directed RNA polymerase II subunit 9 protein, length: 122 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 98 109 196
95% 98 109 272
90% 98 109 286
70% 98 109 307
50% 99 110 328
40% 99 110 358
30% 99 110 364
Entity #13: Chains: J - DNA-directed RNA polymerases I/II/III subunit 10 protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 103 114 183
95% 103 114 251
90% 103 114 261
70% 104 115 272
50% 112 123 270
40% 112 123 296
30% 112 123 311
Entity #14: Chains: K - DNA-directed RNA polymerase II 13.6 kDa polypeptide protein, length: 120 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 99 110 194
95% 99 110 270
90% 99 110 283
70% 99 110 304
50% 99 110 333
40% 100 111 353
30% 100 111 362
Entity #15: Chains: L - DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide protein, length: 70 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 103 113 187
95% 103 113 253
90% 103 113 264
70% 103 113 290
50% 103 113 317
40% 103 113 349
30% 103 113 356
Entity #2: Chains: N - 5'-D(*AP*AP*GP*TP*AP*CP*T)-3' dna, length: 7 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #3: Chains: P - 5'-R(*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3' rna, length: 10 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
Entity #4: Chains: A - DNA-directed RNA polymerase II largest subunit protein, length: 1733 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 99 108 198
95% 99 108 273
90% 99 108 287
70% 99 108 308
50% 100 109 329
40% 100 109 359
30% 100 109 365
Entity #5: Chains: B - DNA-directed RNA polymerase II 140 kDa polypeptide protein, length: 1224 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 98 109 195
95% 99 110 265
90% 99 110 278
70% 99 110 301
50% 100 111 320
40% 108 119 308
30% 108 119 319
Entity #6: Chains: C - DNA-directed RNA polymerase II 45 kDa polypeptide protein, length: 318 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 99 108 200
95% 99 108 277
90% 99 108 291
70% 99 108 310
50% 100 109 330
40% 100 109 363
30% 100 109 367
Entity #7: Chains: D - DNA-directed RNA polymerase II 32 kDa polypeptide protein, length: 221 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 49 55 430
95% 49 55 619
90% 49 55 651
70% 49 56 689
50% 49 56 776
40% 49 56 803
30% 49 56 804
Entity #8: Chains: E - DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide protein, length: 215 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 104 115 170
95% 104 115 239
90% 104 115 249
70% 104 115 277
50% 105 116 305
40% 105 116 335
30% 105 116 342
Entity #9: Chains: F - DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide protein, length: 155 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 103 112 188
95% 103 112 255
90% 103 112 267
70% 103 112 293
50% 104 114 312
40% 104 114 340
30% 104 114 350
 

Documentation

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