Sequence Similarity Clusters for the Entities in PDB 3NGB

Entity #1 | Chains: A,D,G,I
Envelope glycoprotein gp160 protein, length: 353 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 21 29 1260
95 % 40 60 609 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.8
PDBFlex
90 % 40 60 634
70 % 58 101 318
50 % 58 101 377
40 % 58 101 395
30 % 58 102 404
Entity #2 | Chains: B,E,H,J
Antigen binding fragment of heavy chain: Antibody VRC01 protein, length: 224 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 1 20558
95 % 3 4 9276 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.9
PDBFlex
90 % 12 15 3652
70 % 1571 2784 1
50 % 1659 2927 1
40 % 1659 2927 1
30 % 3301 5855 1
Entity #3 | Chains: C,F,K,L
Antigen binding fragment of light chain: Antibody VRC01 protein, length: 210 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 3 10999
95 % 13 19 2860 Flexibility: Low
Max RMSD: 6.6, Avg RMSD: 2.6
PDBFlex
90 % 15 21 2744
70 % 1290 2273 2
50 % 1622 2886 2
40 % 1622 2886 2
30 % 3302 5855 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