Sequence Similarity Clusters for the Entities in PDB 3JWO

Entity #1 | Chains: A
HIV-1 GP120 ENVELOPE GLYCOPROTEIN protein, length: 357 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 1 54890
95 % 2 2 22109
90 % 2 2 21477
70 % 117 129 182
50 % 117 129 223
40 % 117 129 241
30 % 118 132 248
Entity #2 | Chains: C
T-cell surface glycoprotein CD4 protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 27 38 716
95 % 32 43 858 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 32 43 890
70 % 32 43 919
50 % 32 43 963
40 % 32 43 988
30 % 32 43 965
Entity #3 | Chains: L
FAB 48D LIGHT CHAIN protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 4 15576
95 % 161 182 64 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.2
PDBFlex
90 % 687 742 3
70 % 2198 2385 1
50 % 4454 4827 1
40 % 4454 4827 1
30 % 5277 5688 1
Entity #4 | Chains: H
FAB 48D Heavy CHAIN protein, length: 220 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 4 15514
95 % 4 5 9380 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 1.0
PDBFlex
90 % 4 5 9278
70 % 2153 2334 2
50 % 4455 4827 1
40 % 4455 4827 1
30 % 5278 5688 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