Sequence Similarity Clusters for the Entities in PDB 1PQV

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 % 122 123 229
95 % 122 123 319 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.6
PDBFlex
90 % 122 123 333
70 % 127 128 356
50 % 140 141 380
40 % 140 141 401
30 % 140 141 401
Entity #10 | Chains: J
DNA-directed RNA polymerases I, II, and III 8.3 kDa polypeptide protein, length: 70 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 157 158 173
95 % 157 158 234 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 157 158 246
70 % 175 176 229
50 % 183 184 231
40 % 183 184 250
30 % 183 184 260
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 % 124 125 224
95 % 124 125 313 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 124 125 326
70 % 124 125 374
50 % 129 130 421
40 % 131 132 428
30 % 131 132 429
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 % 153 154 177
95 % 153 154 239 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 153 154 251
70 % 153 154 283
50 % 158 159 293
40 % 158 159 315
30 % 158 159 322
Entity #13 | Chains: S
Transcription elongation factor S-II protein, length: 309 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 1 57683
95 % 1 1 41318
90 % 1 1 39429
70 % 1 1 34973
50 % 1 1 29845
40 % 1 1 26346
30 % 7 7 7325
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 % 123 124 225
95 % 124 125 312 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 124 125 324
70 % 131 132 337
50 % 142 143 372
40 % 150 151 340
30 % 161 162 306
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 % 119 120 237
95 % 119 120 325 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 119 120 341
70 % 119 120 383
50 % 121 122 442
40 % 121 122 468
30 % 121 122 461
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
100 % 1 1 61868
95 % 1 1 43438
90 % 1 1 41362
70 % 64 65 829
50 % 71 72 750
40 % 71 72 786
30 % 71 72 781
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
100 % 158 159 170
95 % 158 159 232
90 % 158 159 244
70 % 163 164 255
50 % 165 166 273
40 % 176 177 267
30 % 176 177 277
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 % 152 153 179
95 % 152 153 243 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 152 153 255
70 % 152 153 288
50 % 170 172 263
40 % 170 172 274
30 % 170 172 286
Entity #7 | Chains: G
DNA-directed RNA polymerase II 19 kDa polypeptide protein, length: 171 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 66 67 506
95 % 66 67 694 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.7
PDBFlex
90 % 66 67 724
70 % 66 67 772
50 % 85 86 568
40 % 85 86 603
30 % 85 86 598
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 % 156 158 172
95 % 157 159 233 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 157 159 245
70 % 157 159 274
50 % 162 164 281
40 % 162 164 297
30 % 176 178 276
Entity #9 | Chains: I
DNA-directed RNA polymerase II 14.2 kDa polypeptide protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 123 124 228
95 % 123 124 317 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 123 124 331
70 % 128 129 354
50 % 130 131 413
40 % 130 131 432
30 % 141 142 400

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