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 55134
95 % 5 15 3994 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.8
PDBFlex
90 % 5 15 4031
70 % 26 126 178
50 % 26 126 223
40 % 26 126 242
30 % 26 129 248
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 % 6 38 704
95 % 7 43 836 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.1
PDBFlex
90 % 7 43 867
70 % 7 43 900
50 % 7 43 948
40 % 7 43 972
30 % 7 43 945
Entity #3 | Chains: C
ANTIBODY 17B, LIGHT CHAIN protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 5 21 1274
95 % 7 32 1118
90 % 165 701 3
70 % 566 2287 1
50 % 1163 4633 1
40 % 1163 4633 1
30 % 1296 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 % 5 21 1272
95 % 5 25 1398 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 5 25 1422
70 % 562 2244 2
50 % 1164 4633 1
40 % 1164 4633 1
30 % 1297 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.