Sequence Similarity Clusters for the Entities in PDB 4LAJ

Entity #1 | Chains: A,B,F,J
HIV-1 YU2 gp120 envelope glycoprotein protein, length: 376 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 5 8 4405
95 % 5 8 5203 Flexibility: Low
Max RMSD: 1.1, Avg RMSD: 0.7
PDBFlex
90 % 5 8 5253
70 % 26 101 318
50 % 26 101 377
40 % 26 101 395
30 % 26 102 404
Entity #2 | Chains: C,D,G,K
CD4-mimetic miniprotein M48U1 protein, length: 28 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 10 2649
95 % 5 14 2330 Flexibility: No
Max RMSD: 2.4, Avg RMSD: 0.5
PDBFlex
90 % 5 14 2404
70 % 5 16 2048
50 % 5 16 2121
40 % 5 16 2120
30 % 5 16 2119
Entity #3 | Chains: H,I,L,M
Llama single domain antibody, JM4 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 1 24046
95 % 1 1 23654 Flexibility: No
Max RMSD: 0.3, Avg RMSD: 0.3
PDBFlex
90 % 1 1 22954
70 % 185 478 8
50 % 260 727 7
40 % 260 738 7
30 % 391 1117 6

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