Sequence Similarity Clusters for the Entities in PDB 2B8K

Entity #1 | Chains: A
DNA-directed RNA polymerase II largest subunit protein, length: 1733 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 106 115 230
95 % 106 115 322 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 1.6
PDBFlex
90 % 106 115 341
70 % 108 120 357
50 % 109 132 369
40 % 109 132 394
30 % 109 132 399
Entity #10 | Chains: J
DNA-directed RNA polymerases I/II/III subunit 10 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 111 142 176
95 % 111 142 236 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 111 142 250
70 % 114 159 251
50 % 122 167 247
40 % 122 167 266
30 % 122 167 272
Entity #11 | Chains: K
DNA-directed RNA polymerase II 13.6 kDa polypeptide protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 106 117 224
95 % 106 117 316 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 106 117 334
70 % 106 117 370
50 % 108 122 416
40 % 109 124 435
30 % 109 124 436
Entity #12 | Chains: L
DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 109 138 185
95 % 109 138 245 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 109 138 260
70 % 109 138 290
50 % 111 143 313
40 % 111 143 331
30 % 111 143 338
Entity #2 | Chains: B
DNA-directed RNA polymerase II 140 kDa polypeptide protein, length: 1224 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 105 116 226
95 % 106 117 314
90 % 106 117 331
70 % 109 124 342
50 % 109 134 357
40 % 117 142 327
30 % 117 145 331
Entity #3 | Chains: C
DNA-directed RNA polymerase II 45 kDa polypeptide protein, length: 318 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 104 112 233
95 % 104 112 328 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 104 112 347
70 % 104 112 380
50 % 105 114 441
40 % 105 114 473
30 % 105 114 472
Entity #4 | Chains: D
DNA-directed RNA polymerase II 32 kDa polypeptide protein, length: 221 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 53 61 566
95 % 53 61 782 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 53 61 810
70 % 53 62 835
50 % 56 69 754
40 % 56 69 787
30 % 56 69 780
Entity #5 | Chains: E
DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide protein, length: 215 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 112 143 173
95 % 112 143 233 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 112 143 248
70 % 114 148 272
50 % 115 150 291
40 % 115 160 286
30 % 115 160 293
Entity #6 | Chains: F
DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 109 137 188
95 % 109 137 248 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 109 137 263
70 % 109 137 294
50 % 112 155 279
40 % 112 155 298
30 % 112 155 309
Entity #7 | Chains: G
DNA-directed RNA polymerase II 19 kDa polypeptide protein, length: 215 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 1 60128
95 % 1 1 42150
90 % 1 1 40135
70 % 1 1 35404
50 % 1 1 30169
40 % 1 1 26612
30 % 1 1 22560
Entity #8 | Chains: H
DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 110 142 175
95 % 111 143 234 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.9
PDBFlex
90 % 111 143 249
70 % 111 143 281
50 % 113 148 299
40 % 113 148 314
30 % 114 161 292
Entity #9 | Chains: I
DNA-directed RNA polymerase II subunit 9 protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 105 116 228
95 % 105 116 321 Flexibility: Low
Max RMSD: 2.7, Avg RMSD: 0.9
PDBFlex
90 % 105 116 340
70 % 107 121 356
50 % 108 123 407
40 % 108 123 437
30 % 108 126 427

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.