Sequence Similarity Clusters for the Entities in PDB 3IDY

Entity #1 | Chains: A,G
HIV-1 HxBc2 gp120 core protein, length: 317 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 4 15475
95 % 15 15 4188 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 6.3
PDBFlex
90 % 15 15 4230
70 % 94 130 184
50 % 94 130 225
40 % 94 130 242
30 % 94 133 251
Entity #2 | Chains: B,H
Fab b13 heavy chain protein, length: 231 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 28403
95 % 2 2 23674 Flexibility: Low
Max RMSD: 0.7, Avg RMSD: 0.5
PDBFlex
90 % 2 2 22941
70 % 1853 2424 2
50 % 3843 5011 1
40 % 3843 5011 1
30 % 4576 5941 1
Entity #3 | Chains: C,L
Fab b13 light chain protein, length: 215 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 28749
95 % 2 2 23931 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.3
PDBFlex
90 % 610 788 2
70 % 1895 2474 1
50 % 3844 5011 1
40 % 3844 5011 1
30 % 4577 5941 1

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