Sequence Similarity Clusters for the Entities in PDB 2NY4

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 53727
95 % 3 15 3888 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 3 15 3925
70 % 23 126 179
50 % 23 126 219
40 % 23 126 241
30 % 23 129 246
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 % 4 37 721
95 % 5 42 855 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.1
PDBFlex
90 % 5 42 890
70 % 5 42 922
50 % 5 42 972
40 % 5 42 992
30 % 5 42 968
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 % 3 21 1224
95 % 3 24 1485 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 156 676 3
70 % 435 1828 2
50 % 1096 4501 1
40 % 1096 4501 1
30 % 1212 5303 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 % 3 21 1222
95 % 3 24 1483 Flexibility: Low
Max RMSD: 2.3, Avg RMSD: 0.8
PDBFlex
90 % 3 24 1510
70 % 530 2178 1
50 % 1097 4501 1
40 % 1097 4501 1
30 % 1213 5303 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.