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 62377
95 % 2 2 26112 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 2 2 25177
70 % 136 192 130
50 % 136 192 157
40 % 136 192 168
30 % 137 195 183
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 40 857
95 % 32 46 808 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 32 46 840
70 % 32 46 889
50 % 32 46 937
40 % 32 46 962
30 % 32 46 944
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 17737
95 % 4 5 10697 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.9
PDBFlex
90 % 767 846 2
70 % 2440 2700 1
50 % 4970 5489 1
40 % 5574 6196 1
30 % 6894 7674 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 17517
95 % 4 5 10670 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 1.1
PDBFlex
90 % 4 5 10520
70 % 2410 2662 2
50 % 4971 5489 1
40 % 5575 6196 1
30 % 6895 7674 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