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 55138
95 % 14 15 3994 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.8
PDBFlex
90 % 14 15 4031
70 % 76 126 178
50 % 76 126 223
40 % 76 126 242
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 38 704
95 % 23 43 836 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.1
PDBFlex
90 % 23 43 867
70 % 23 43 900
50 % 23 43 948
40 % 23 43 972
30 % 23 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 % 15 21 1274
95 % 19 32 1118 Flexibility: Low
Max RMSD: 4.0, Avg RMSD: 0.9
PDBFlex
90 % 428 701 3
70 % 1405 2287 1
50 % 2856 4633 1
40 % 2856 4633 1
30 % 3314 5461 1
Entity #4 | Chains: D
ANTIBODY 17B, HEAVY CHAIN protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 15 21 1272
95 % 17 25 1398
90 % 17 25 1422
70 % 1382 2244 2
50 % 2857 4633 1
40 % 2857 4633 1
30 % 3315 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.