Sequence Similarity Clusters for the Entities in PDB 1MDY

Entity #1 | Chains: E,F,G,H
DNA (5'-D(*TP*CP*AP*AP*CP*AP*GP*CP*TP*GP*TP*TP*GP*A)-3') dna, length: 14 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #2 | Chains: A
PROTEIN (MYOD BHLH DOMAIN) protein, length: 68 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 24969
95 % 1 2 21271 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.9
PDBFlex
90 % 1 2 20664
70 % 1 2 18974
50 % 1 2 16472
40 % 1 2 14684
30 % 1 2 12561
Entity #3 | Chains: B,C,D
PROTEIN (MYOD BHLH DOMAIN) protein, length: 62 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 24969
95 % 2 2 21271 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.9
PDBFlex
90 % 2 2 20664
70 % 2 2 18974
50 % 2 2 16472
40 % 2 2 14684
30 % 2 2 12561

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