Sequence Similarity Clusters for the Entities in PDB 1L9Z

Entity #1 | Chains: U
nontemplate DNA strand dna, length: 35 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #2 | Chains: T
template DNA strand dna, length: 30 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #3 | Chains: A,B
RNA POLYMERASE, ALPHA SUBUNIT protein, length: 314 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 9 10 1287
95 % 12 13 1405 Flexibility: Low
Max RMSD: 2.5, Avg RMSD: 1.6
PDBFlex
90 % 12 13 1426
70 % 56 57 229
50 % 56 57 252
40 % 92 93 157
30 % 93 94 167
Entity #4 | Chains: C
RNA POLYMERASE, BETA SUBUNIT protein, length: 1118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 24982
95 % 12 13 3261 Flexibility: Low
Max RMSD: 4.3, Avg RMSD: 2.6
PDBFlex
90 % 56 57 496
70 % 56 57 532
50 % 70 71 494
40 % 70 71 535
30 % 70 71 531
Entity #5 | Chains: D
RNA POLYMERASE, BETA-PRIME SUBUNIT protein, length: 1524 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 8 9 2978
95 % 9 10 3375 Flexibility: Medium
Max RMSD: 11.1, Avg RMSD: 4.4
PDBFlex
90 % 53 54 505
70 % 53 54 540
50 % 53 54 579
40 % 53 54 616
30 % 53 54 601
Entity #6 | Chains: E
RNA POLYMERASE, OMEGA SUBUNIT protein, length: 99 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 11 12 2962
95 % 11 12 3653 Flexibility: Low
Max RMSD: 1.8, Avg RMSD: 1.1
PDBFlex
90 % 55 56 510
70 % 55 56 546
50 % 55 56 585
40 % 55 56 619
30 % 55 56 605
Entity #7 | Chains: H
SIGMA FACTOR SIGA protein, length: 438 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 1 52766
95 % 1 1 38634
90 % 1 1 36902
70 % 36 36 994
50 % 36 36 1036
40 % 50 50 852
30 % 50 50 834

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