Sequence Similarity Clusters for the Entities in PDB 4JM2

Entity #1 | Chains: A
PGT 135 Heavy chain protein, length: 236 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 3 30752
95 % 3 3 25900 Flexibility: Low
Max RMSD: 2.6, Avg RMSD: 1.8
PDBFlex
90 % 3 3 27756
70 % 2287 2773 1
50 % 2398 2914 1
40 % 2398 2914 1
30 % 4800 5831 1
Entity #2 | Chains: B
PGT 135 Light chain protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 3 30751
95 % 3 3 25899 Flexibility: Low
Max RMSD: 2.5, Avg RMSD: 1.7
PDBFlex
90 % 3 3 27755
70 % 1893 2262 2
50 % 2371 2875 2
40 % 2371 2875 2
30 % 4801 5831 1
Entity #3 | Chains: C
17b Light chain protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 17 22 1399
95 % 20 26 1546 Flexibility: Low
Max RMSD: 3.5, Avg RMSD: 0.7
PDBFlex
90 % 187 228 80
70 % 1894 2262 2
50 % 2372 2875 2
40 % 2372 2875 2
30 % 4802 5831 1
Entity #4 | Chains: D
17b Heavy chain protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 17 22 1400
95 % 20 26 1542 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 20 26 1574
70 % 2288 2773 1
50 % 2399 2914 1
40 % 2399 2914 1
30 % 4803 5831 1
Entity #5 | Chains: E
gp120 protein, length: 321 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 1 71118
95 % 1 1 51011
90 % 1 2 34168
70 % 27 31 1441
50 % 27 32 1459
40 % 27 32 1508
30 % 27 34 1476
Entity #6 | Chains: F
T-cell surface glycoprotein CD4 protein, length: 185 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 23 39 769
95 % 30 46 831 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 30 46 869
70 % 30 46 920
50 % 30 46 978
40 % 30 46 1016
30 % 30 46 1055

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