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 % 106 115 223
95 % 106 115 316 Flexibility: Low
Max RMSD: 6.7, Avg RMSD: 1.6
PDBFlex
90 % 106 115 334
70 % 108 120 353
50 % 109 131 365
40 % 109 131 386
30 % 109 131 395
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 % 111 142 172
95 % 111 142 233 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 111 142 248
70 % 114 158 251
50 % 122 166 247
40 % 122 166 264
30 % 122 166 271
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
100 % 106 117 218
95 % 106 117 309
90 % 106 117 327
70 % 106 117 363
50 % 108 122 410
40 % 109 124 426
30 % 109 124 428
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 % 109 138 179
95 % 109 138 242 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 109 138 256
70 % 109 138 286
50 % 111 143 309
40 % 111 143 322
30 % 111 143 335
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 Structural variation in cluster
100 % 105 116 220
95 % 106 117 306 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 106 117 323
70 % 109 124 334
50 % 109 133 352
40 % 117 141 323
30 % 117 144 330
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 % 104 112 228
95 % 104 112 320 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 104 112 339
70 % 104 112 374
50 % 105 114 435
40 % 105 114 464
30 % 105 114 466
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 61 562
95 % 53 61 779 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 53 61 807
70 % 53 62 832
50 % 56 69 749
40 % 56 69 779
30 % 56 69 775
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 % 112 143 169
95 % 112 143 231 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 112 143 246
70 % 114 148 268
50 % 115 150 289
40 % 115 159 285
30 % 115 159 293
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 % 109 137 182
95 % 109 137 245 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 109 137 259
70 % 109 137 290
50 % 112 154 281
40 % 112 154 297
30 % 112 154 308
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 59345
95 % 1 1 41590
90 % 1 1 39619
70 % 1 1 35013
50 % 1 1 29874
40 % 1 1 26356
30 % 1 1 22340
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 % 110 142 171
95 % 111 143 232 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 111 143 247
70 % 111 143 277
50 % 113 148 293
40 % 113 148 307
30 % 114 160 292
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 % 105 116 222
95 % 105 116 315 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 105 116 333
70 % 107 121 352
50 % 108 123 402
40 % 108 123 431
30 % 108 126 421

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.