Sequence Similarity Clusters for the Entities in PDB 2QAD

Entity #1 | Chains: A,E
Envelope glycoprotein gp160 protein, length: 322 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 19148
95 % 2 2 17055 Flexibility: Medium
Max RMSD: 6.7, Avg RMSD: 4.6
PDBFlex
90 % 10 13 2725
70 % 97 128 181
50 % 97 128 223
40 % 97 128 241
30 % 97 131 249
Entity #2 | Chains: B,F
T-cell surface glycoprotein CD4 protein, length: 181 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 22 38 715
95 % 26 43 854 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 26 43 884
70 % 26 43 915
50 % 26 43 958
40 % 26 43 985
30 % 26 43 962
Entity #3 | Chains: C,G
anti-HIV-1 antibody 412d light chain protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 21401
95 % 2 2 18596 Flexibility: Low
Max RMSD: 1.1, Avg RMSD: 0.8
PDBFlex
90 % 598 729 3
70 % 1914 2362 1
50 % 3881 4781 1
40 % 3881 4781 1
30 % 4587 5635 1
Entity #4 | Chains: D,H
anti-HIV-1 antibody 412d heavy chain protein, length: 231 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 20863
95 % 2 2 18219 Flexibility: Low
Max RMSD: 1.7, Avg RMSD: 1.2
PDBFlex
90 % 2 2 17842
70 % 1871 2311 2
50 % 3882 4781 1
40 % 3882 4781 1
30 % 4588 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