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 42399
95 % 1 2 35656 Flexibility: Low
Max RMSD: 1.7, Avg RMSD: 1.7
PDBFlex
90 % 1 2 34054
70 % 1 2 30309
50 % 1 2 25866
40 % 1 2 22710
30 % 1 2 18957
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 8533
95 % 2 5 8585 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 1.2
PDBFlex
90 % 2 5 8510
70 % 1694 2593 2
50 % 3505 5348 1
40 % 3975 6031 1
30 % 4927 7494 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 8532
95 % 2 5 8584 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.8
PDBFlex
90 % 2 5 8509
70 % 1723 2634 1
50 % 3506 5348 1
40 % 3976 6031 1
30 % 4928 7494 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