Sequence Similarity Clusters for the Entities in PDB 4I3R

Entity #1 | Chains: G
Outer domain of HIV-1 gp120 (KER2018 OD4.2.2) protein, length: 190 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 41751
95 % 1 2 35106 Flexibility: Low
Max RMSD: 1.7, Avg RMSD: 1.7
PDBFlex
90 % 1 2 33542
70 % 1 2 29891
50 % 1 2 25495
40 % 1 2 22380
30 % 1 2 18665
Entity #2 | Chains: H
Heavy chain of VRC-PG04 Fab protein, length: 228 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 5 8414
95 % 2 5 8451 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 1.2
PDBFlex
90 % 2 5 8382
70 % 1668 2550 2
50 % 3454 5263 1
40 % 3919 5933 1
30 % 4868 7388 1
Entity #3 | Chains: L
Light chain of VRC-PG04 Fab protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 5 8413
95 % 2 5 8450 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.8
PDBFlex
90 % 2 5 8381
70 % 1698 2593 1
50 % 3455 5263 1
40 % 3920 5933 1
30 % 4869 7388 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