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
100 % 114 115 230
95 % 114 115 322
90 % 114 115 341
70 % 119 120 357
50 % 131 132 369
40 % 131 132 394
30 % 131 132 399
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 % 141 142 176
95 % 141 142 236 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 141 142 250
70 % 158 159 251
50 % 166 167 247
40 % 166 167 266
30 % 166 167 272
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 % 116 117 224
95 % 116 117 316 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.5
PDBFlex
90 % 116 117 334
70 % 116 117 370
50 % 121 122 416
40 % 123 124 435
30 % 123 124 436
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 % 137 138 185
95 % 137 138 245 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.0
PDBFlex
90 % 137 138 260
70 % 137 138 290
50 % 142 143 313
40 % 142 143 331
30 % 142 143 338
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 55454
95 % 1 1 39771
90 % 1 1 38005
70 % 1 1 33787
50 % 1 1 28861
40 % 1 1 25485
30 % 7 7 7048
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 % 115 116 226
95 % 116 117 314 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.3
PDBFlex
90 % 116 117 331
70 % 123 124 342
50 % 133 134 357
40 % 141 142 327
30 % 144 145 331
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 % 111 112 233
95 % 111 112 328 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 111 112 347
70 % 111 112 380
50 % 113 114 441
40 % 113 114 473
30 % 113 114 472
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
100 % 1 1 59485
95 % 1 1 41817
90 % 1 1 39889
70 % 61 62 835
50 % 68 69 754
40 % 68 69 787
30 % 68 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 % 142 143 173
95 % 142 143 233 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.7
PDBFlex
90 % 142 143 248
70 % 147 148 272
50 % 149 150 291
40 % 159 160 286
30 % 159 160 293
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
100 % 136 137 188
95 % 136 137 248
90 % 136 137 263
70 % 136 137 294
50 % 153 155 279
40 % 153 155 298
30 % 153 155 309
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 % 63 64 525
95 % 63 64 717 Flexibility: Low
Max RMSD: 4.4, Avg RMSD: 0.8
PDBFlex
90 % 63 64 747
70 % 63 64 798
50 % 81 82 570
40 % 81 82 607
30 % 81 82 597
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 % 140 142 175
95 % 141 143 234 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.9
PDBFlex
90 % 141 143 249
70 % 141 143 281
50 % 146 148 299
40 % 146 148 314
30 % 159 161 292
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 % 115 116 228
95 % 115 116 321 Flexibility: Low
Max RMSD: 2.7, Avg RMSD: 0.9
PDBFlex
90 % 115 116 340
70 % 120 121 356
50 % 122 123 407
40 % 122 123 437
30 % 125 126 427

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.