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 % 117 118 251
95 % 117 118 326 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.6
PDBFlex
90 % 117 118 342
70 % 122 123 364
50 % 134 135 384
40 % 134 135 417
30 % 134 135 425
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 % 152 153 185
95 % 152 153 238 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 152 153 245
70 % 169 170 242
50 % 177 178 234
40 % 177 178 262
30 % 177 178 275
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 % 119 120 240
95 % 119 120 319 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 119 120 333
70 % 119 120 377
50 % 124 125 419
40 % 126 127 438
30 % 126 127 450
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 % 148 149 192
95 % 148 149 243 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 148 149 250
70 % 148 149 286
50 % 153 154 298
40 % 153 154 328
30 % 153 154 334
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 53262
95 % 1 1 43773
90 % 1 1 41694
70 % 1 1 36799
50 % 1 1 31271
40 % 1 1 27380
30 % 7 7 6944
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 % 119 120 243
95 % 119 120 320 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 119 120 335
70 % 126 127 347
50 % 136 137 373
40 % 144 145 359
30 % 283 286 148
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 % 114 115 256
95 % 114 115 332 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 114 115 349
70 % 114 115 388
50 % 114 115 452
40 % 114 115 499
30 % 114 115 499
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 54229
95 % 1 1 44520
90 % 1 1 42391
70 % 66 67 777
50 % 71 72 745
40 % 71 72 780
30 % 71 72 780
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
100 % 153 154 184
95 % 153 154 237
90 % 153 154 243
70 % 158 159 265
50 % 160 161 278
40 % 170 171 286
30 % 170 171 301
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 % 147 148 194
95 % 147 148 244 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.6
PDBFlex
90 % 147 148 251
70 % 147 148 288
50 % 164 166 268
40 % 164 166 297
30 % 164 166 312
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 67 547
95 % 66 67 685 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.7
PDBFlex
90 % 66 67 713
70 % 66 67 753
50 % 84 85 569
40 % 84 85 610
30 % 84 85 604
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 % 151 153 188
95 % 152 154 236 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 1.0
PDBFlex
90 % 152 154 244
70 % 152 154 278
50 % 157 159 286
40 % 157 159 318
30 % 170 172 298
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 % 118 119 245
95 % 118 119 322 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.0
PDBFlex
90 % 118 119 337
70 % 123 124 363
50 % 125 126 413
40 % 125 126 447
30 % 136 137 410

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