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 52370
95 % 2 2 21018 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 2 2 20438
70 % 114 126 179
50 % 114 126 218
40 % 114 126 240
30 % 115 129 245
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 37 719
95 % 32 42 851 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.1
PDBFlex
90 % 32 42 886
70 % 32 42 919
50 % 32 42 971
40 % 32 42 991
30 % 32 42 967
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 14769
95 % 140 159 71 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.3
PDBFlex
90 % 626 676 3
70 % 1703 1822 2
50 % 4162 4489 1
40 % 4162 4489 1
30 % 4925 5290 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 14707
95 % 4 5 8935 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 1.1
PDBFlex
90 % 4 5 8851
70 % 2014 2172 1
50 % 4163 4489 1
40 % 4163 4489 1
30 % 4926 5290 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.