Sequence Similarity Clusters for the Entities in PDB 6BQF

Entity #1 | Chains: A
DNA-directed RNA polymerase II subunit RPB1 protein, length: 1733 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 48 132 265
95 % 48 132 358 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 1.6
PDBFlex
90 % 48 132 375
70 % 49 151 346
50 % 49 153 400
40 % 49 153 428
30 % 49 153 444
Entity #10 | Chains: L
DNA-directed RNA polymerases I, II, and III subunit RPABC4 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 50 180 192
95 % 50 180 249 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 50 180 256
70 % 50 180 292
50 % 51 199 301
40 % 51 199 314
30 % 51 199 336
Entity #11 | Chains: T
DNA (5'-D(P*CP*TP*(3DR)P*CP*TP*CP*TP*TP*GP*AP*TP*G)-3') dna, length: 29 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #12 | Chains: R
RNA (5'-R(*AP*UP*CP*AP*AP*GP*AP*GP*A)-3') rna, length: 9 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #2 | Chains: B
DNA-directed RNA polymerase II subunit RPB2 protein, length: 1224 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 47 133 260
95 % 48 134 347 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.2
PDBFlex
90 % 48 134 360
70 % 49 155 338
50 % 49 170 364
40 % 49 178 357
30 % 49 193 348
Entity #3 | Chains: C
DNA-directed RNA polymerase II subunit RPB3 protein, length: 318 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 46 129 280
95 % 46 129 376 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 46 129 390
70 % 46 129 419
50 % 46 129 470
40 % 46 131 491
30 % 46 131 522
Entity #4 | Chains: E
DNA-directed RNA polymerases I, II, and III subunit RPABC1 protein, length: 215 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 53 185 182
95 % 53 185 240 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 53 185 248
70 % 54 204 255
50 % 54 206 272
40 % 54 221 243
30 % 54 221 258
Entity #5 | Chains: F
DNA-directed RNA polymerases I, II, and III subunit RPABC2 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 50 179 193
95 % 50 179 251 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 50 179 258
70 % 50 179 294
50 % 51 200 297
40 % 51 200 307
30 % 51 200 332
Entity #6 | Chains: H
DNA-directed RNA polymerases I, II, and III subunit RPABC3 protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 51 184 187
95 % 52 185 239 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 52 185 247
70 % 52 185 286
50 % 53 204 284
40 % 53 204 297
30 % 53 220 268
Entity #7 | Chains: I
DNA-directed RNA polymerase II subunit RPB9 protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 48 133 264
95 % 48 133 355 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 48 133 367
70 % 49 152 343
50 % 49 154 396
40 % 49 154 425
30 % 49 169 399
Entity #8 | Chains: J
DNA-directed RNA polymerases I, II, and III subunit RPABC5 protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 52 184 185
95 % 52 184 243 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 52 184 250
70 % 53 220 220
50 % 53 220 232
40 % 53 220 246
30 % 53 220 264
Entity #9 | Chains: K
DNA-directed RNA polymerase II subunit RPB11 protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 48 134 252
95 % 48 134 345 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 48 134 356
70 % 48 134 389
50 % 49 153 404
40 % 49 155 423
30 % 49 155 440

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.

You can also use the structure comparison tool to compare any 2 given structures