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 17227
95 % 2 2 15961 Flexibility: Medium
Max RMSD: 6.7, Avg RMSD: 4.6
PDBFlex
90 % 10 13 2820
70 % 104 179 134
50 % 104 179 164
40 % 104 179 178
30 % 104 182 195
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 % 24 38 857
95 % 26 43 877 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 26 43 910
70 % 26 43 937
50 % 26 43 984
40 % 26 43 999
30 % 26 43 996
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 % 3 4 8378
95 % 150 187 66 Flexibility: Low
Max RMSD: 1.1, Avg RMSD: 0.8
PDBFlex
90 % 623 762 2
70 % 2027 2519 1
50 % 4118 5107 1
40 % 4634 5756 1
30 % 5777 7175 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 17889
95 % 2 2 22117 Flexibility: Low
Max RMSD: 1.7, Avg RMSD: 1.2
PDBFlex
90 % 2 2 21444
70 % 1994 2478 2
50 % 4119 5107 1
40 % 4635 5756 1
30 % 5778 7175 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