Sequence Similarity Clusters for the Entities in PDB 2NY2

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 54066
95 % 2 15 3918 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 2 15 3954
70 % 20 126 179
50 % 20 126 220
40 % 20 126 240
30 % 20 129 246
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 % 3 38 686
95 % 3 43 826 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.1
PDBFlex
90 % 3 43 854
70 % 3 43 890
50 % 3 43 931
40 % 3 43 955
30 % 3 43 930
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 % 2 21 1250
95 % 2 25 1368 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 144 685 3
70 % 402 1845 2
50 % 1017 4545 1
40 % 1017 4545 1
30 % 1115 5350 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 % 2 21 1248
95 % 2 25 1366 Flexibility: Low
Max RMSD: 2.3, Avg RMSD: 0.8
PDBFlex
90 % 2 25 1387
70 % 493 2201 1
50 % 1018 4545 1
40 % 1018 4545 1
30 % 1116 5350 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.