Sequence Similarity Clusters for the Entities in PDB 1NDM

Entity #1 | Chains: A
antibody kappa light chain protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 12 4538
95 % 15 31 1388 Flexibility: Low
Max RMSD: 3.8, Avg RMSD: 1.7
PDBFlex
90 % 18 39 1076
70 % 750 2474 1
50 % 1538 5011 1
40 % 1538 5011 1
30 % 1758 5941 1
Entity #2 | Chains: B
immunoglobulin gamma 1 chain protein, length: 210 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 1 63055
95 % 5 11 6042 Flexibility: Low
Max RMSD: 1.1, Avg RMSD: 0.6
PDBFlex
90 % 6 12 5371
70 % 742 2424 2
50 % 1539 5011 1
40 % 1539 5011 1
30 % 1759 5941 1
Entity #3 | Chains: C
Lysozyme C protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 552 668 3
95 % 603 721 4 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 0.5
PDBFlex
90 % 614 738 5
70 % 823 961 7
50 % 828 969 8
40 % 849 1003 11
30 % 849 1003 20

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