Sequence Similarity Clusters for the Entities in PDB 2NY6

Entity #1 | Chains: A
ENVELOPE GLYCOPROTEIN GP120 protein, length: 317 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 1 54421
95 % 14 15 3960 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 6.4
PDBFlex
90 % 14 15 3997
70 % 76 126 177
50 % 76 126 221
40 % 76 126 240
30 % 76 129 248
Entity #2 | Chains: B
T-cell surface glycoprotein CD4 protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 19 38 694
95 % 23 43 829 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 23 43 858
70 % 23 43 891
50 % 23 43 937
40 % 23 43 963
30 % 23 43 940
Entity #3 | Chains: C
ANTIBODY 17B, LIGHT CHAIN protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 15 21 1259
95 % 17 25 1384 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 424 693 3
70 % 1393 2264 1
50 % 2833 4587 1
40 % 2833 4587 1
30 % 3280 5394 1
Entity #4 | Chains: D
ANTIBODY 17B, HEAVY CHAIN protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 15 21 1257
95 % 17 25 1382 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 17 25 1405
70 % 1371 2222 2
50 % 2834 4587 1
40 % 2834 4587 1
30 % 3281 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.