Sequence Similarity Clusters for the Entities in PDB 2NY1

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 53598
95 % 5 15 3877 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 5 15 3911
70 % 26 126 179
50 % 26 126 218
40 % 26 126 240
30 % 26 129 245
Entity #2 | Chains: B
T-cell surface glycoprotein CD4 protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 6 37 719
95 % 7 42 851
90 % 7 42 886
70 % 7 42 919
50 % 7 42 971
40 % 7 42 991
30 % 7 42 967
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 % 5 21 1218
95 % 5 24 1484 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 162 676 3
70 % 449 1822 2
50 % 1137 4489 1
40 % 1137 4489 1
30 % 1263 5290 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 % 5 21 1216
95 % 5 24 1482 Flexibility: Low
Max RMSD: 2.3, Avg RMSD: 0.8
PDBFlex
90 % 5 24 1509
70 % 549 2172 1
50 % 1138 4489 1
40 % 1138 4489 1
30 % 1264 5290 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.