Sequence Similarity Clusters for the Entities in PDB 1YYM

Entity #1 | Chains: G,P
Exterior membrane glycoprotein(GP120),Exterior membrane glycoprotein(GP120),Exterior membrane glycoprotein(GP120) protein, length: 313 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 9 2955
95 % 1 9 3684 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.9
PDBFlex
90 % 1 12 2802
70 % 46 126 178
50 % 46 126 223
40 % 46 126 242
30 % 46 129 248
Entity #2 | Chains: L,Q
antibody 17b light chain protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 8 21 1274
95 % 10 32 1118
90 % 239 701 3
70 % 814 2287 1
50 % 1666 4633 1
40 % 1666 4633 1
30 % 1869 5461 1
Entity #3 | Chains: H,R
antibody 17b heavy chain protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 8 21 1272
95 % 8 25 1398 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 8 25 1422
70 % 803 2244 2
50 % 1667 4633 1
40 % 1667 4633 1
30 % 1870 5461 1
Entity #4 | Chains: M,S
F23, scorpion-toxin mimic of CD4 protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 24582
95 % 1 2 20992 Flexibility: Low
Max RMSD: 0.8, Avg RMSD: 0.6
PDBFlex
90 % 1 2 20398
70 % 6 15 1866
50 % 6 15 1888
40 % 6 15 1892
30 % 6 15 1832

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.