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 56305
95 % 14 15 4086
90 % 14 15 4123
70 % 77 129 182
50 % 77 129 223
40 % 77 129 241
30 % 77 132 248
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 38 718
95 % 23 43 861 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 23 43 893
70 % 23 43 921
50 % 23 43 966
40 % 23 43 990
30 % 23 43 967
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 % 15 21 1315
95 % 19 32 1148 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 462 746 3
70 % 1480 2392 1
50 % 3006 4843 1
40 % 3006 4843 1
30 % 3486 5705 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 1313
95 % 17 25 1428 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 17 25 1456
70 % 1451 2342 2
50 % 3007 4843 1
40 % 3007 4843 1
30 % 3487 5705 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.

You can also use the structure comparison tool to compare any 2 given structures