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
100 % 1 1 55770
95 % 14 15 4046
90 % 14 15 4088
70 % 77 128 181
50 % 77 128 223
40 % 77 128 241
30 % 77 131 248
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 38 712
95 % 23 43 847 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 23 43 880
70 % 23 43 911
50 % 23 43 956
40 % 23 43 983
30 % 23 43 958
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 1303
95 % 19 32 1132 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 445 724 3
70 % 1446 2346 1
50 % 2939 4752 1
40 % 2939 4752 1
30 % 3412 5606 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 1301
95 % 17 25 1415 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 17 25 1441
70 % 1420 2299 2
50 % 2940 4752 1
40 % 2940 4752 1
30 % 3413 5606 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.