Sequence Similarity Clusters for the Entities in PDB 3SE9

Entity #1 | Chains: G
HIV-1 Clade AE strain 93TH057 gp120 protein, length: 353 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 7 29 1286
95 % 12 59 560 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.8
PDBFlex
90 % 12 60 583
70 % 19 183 133
50 % 19 183 162
40 % 19 183 174
30 % 19 186 190
Entity #2 | Chains: H
Heavy chain of antibody VRC-PG04 protein, length: 228 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 5 8414
95 % 1 5 8451 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 1.2
PDBFlex
90 % 1 5 8382
70 % 571 2550 2
50 % 1179 5263 1
40 % 1397 5933 1
30 % 1703 7388 1
Entity #3 | Chains: L
Light chain of antibody VRC-PG04 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 5 8413
95 % 1 5 8450 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.8
PDBFlex
90 % 1 5 8381
70 % 569 2593 1
50 % 1180 5263 1
40 % 1398 5933 1
30 % 1704 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