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 18619
95 % 2 2 16593 Flexibility: Medium
Max RMSD: 6.7, Avg RMSD: 4.6
PDBFlex
90 % 9 12 2769
70 % 95 126 177
50 % 95 126 221
40 % 95 126 240
30 % 95 129 248
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 38 694
95 % 26 43 829 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 26 43 858
70 % 26 43 891
50 % 26 43 937
40 % 26 43 963
30 % 26 43 940
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 20802
95 % 2 2 18083 Flexibility: Low
Max RMSD: 1.1, Avg RMSD: 0.8
PDBFlex
90 % 568 693 3
70 % 1839 2265 1
50 % 3733 4589 1
40 % 3733 4589 1
30 % 4395 5394 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 20283
95 % 2 2 17717 Flexibility: Low
Max RMSD: 1.7, Avg RMSD: 1.2
PDBFlex
90 % 2 2 17343
70 % 1805 2223 2
50 % 3734 4589 1
40 % 3734 4589 1
30 % 4396 5394 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.