Sequence Similarity Clusters for the Entities in PDB 2NXY

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 57355
95 % 1 15 4188 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 6.3
PDBFlex
90 % 1 15 4230
70 % 18 130 184
50 % 18 130 225
40 % 18 130 242
30 % 18 133 251
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 % 2 38 733
95 % 2 43 881 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 2 43 915
70 % 2 43 944
50 % 2 43 976
40 % 2 43 1006
30 % 2 43 990
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 % 1 21 1354
95 % 2 32 1175 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.8
PDBFlex
90 % 162 788 2
70 % 489 2474 1
50 % 1003 5011 1
40 % 1003 5011 1
30 % 1131 5941 1
Entity #4 | Chains: D
ANTIBODY 17B, HEAVY CHAIN protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 21 1352
95 % 1 25 1467
90 % 1 25 1493
70 % 488 2424 2
50 % 1004 5011 1
40 % 1004 5011 1
30 % 1132 5941 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