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 54565
95 % 2 2 21971
90 % 2 2 21344
70 % 116 128 181
50 % 116 128 223
40 % 116 128 241
30 % 117 131 249
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 38 715
95 % 32 43 854 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 32 43 884
70 % 32 43 915
50 % 32 43 958
40 % 32 43 985
30 % 32 43 962
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 15445
95 % 152 171 68 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.2
PDBFlex
90 % 676 729 3
70 % 2178 2362 1
50 % 4414 4781 1
40 % 4414 4781 1
30 % 5230 5635 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 15384
95 % 4 5 9328 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 1.0
PDBFlex
90 % 4 5 9228
70 % 2133 2311 2
50 % 4415 4781 1
40 % 4415 4781 1
30 % 5231 5635 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