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 25312
95 % 1 2 21551 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.9
PDBFlex
90 % 1 2 20927
70 % 1 2 19205
50 % 1 2 16662
40 % 1 2 14846
30 % 1 2 12699
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 25312
95 % 2 2 21551 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.9
PDBFlex
90 % 2 2 20927
70 % 2 2 19205
50 % 2 2 16662
40 % 2 2 14846
30 % 2 2 12699

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