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 Structural variation in cluster
100 % 1 1 61074
95 % 2 2 25510 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 2 2 24620
70 % 135 185 132
50 % 135 185 159
40 % 135 185 171
30 % 136 188 189
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 % 28 38 888
95 % 32 43 914 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 32 43 947
70 % 32 43 974
50 % 32 43 1027
40 % 32 43 1039
30 % 32 43 1025
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 17281
95 % 4 5 10377 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.9
PDBFlex
90 % 739 811 2
70 % 2384 2621 1
50 % 4850 5323 1
40 % 5435 6003 1
30 % 6744 7460 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 17074
95 % 4 5 10352 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 1.1
PDBFlex
90 % 4 5 10215
70 % 2351 2580 2
50 % 4851 5323 1
40 % 5436 6003 1
30 % 6745 7460 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