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 15233
95 % 15 15 4129 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 6.3
PDBFlex
90 % 15 15 4165
70 % 93 129 184
50 % 93 129 226
40 % 93 129 245
30 % 93 132 251
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 28045
95 % 2 2 23379 Flexibility: Low
Max RMSD: 0.7, Avg RMSD: 0.5
PDBFlex
90 % 2 2 22660
70 % 1817 2376 2
50 % 3769 4913 1
40 % 3769 4913 1
30 % 4442 5780 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 28390
95 % 2 2 23636 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.3
PDBFlex
90 % 587 763 2
70 % 1859 2426 1
50 % 3770 4913 1
40 % 3770 4913 1
30 % 4443 5780 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