Sequence Similarity Clusters for the Entities in PDB 2NY3

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 55136
95 % 4 15 3994 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.8
PDBFlex
90 % 4 15 4031
70 % 24 126 178
50 % 24 126 223
40 % 24 126 242
30 % 24 129 248
Entity #2 | Chains: B
T-cell surface glycoprotein CD4 protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 38 704
95 % 6 43 836
90 % 6 43 867
70 % 6 43 900
50 % 6 43 948
40 % 6 43 972
30 % 6 43 945
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 % 4 21 1274
95 % 6 32 1118 Flexibility: Low
Max RMSD: 4.0, Avg RMSD: 0.9
PDBFlex
90 % 161 701 3
70 % 548 2287 1
50 % 1130 4633 1
40 % 1130 4633 1
30 % 1254 5461 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 % 4 21 1272
95 % 4 25 1398 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 4 25 1422
70 % 547 2244 2
50 % 1131 4633 1
40 % 1131 4633 1
30 % 1255 5461 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.