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 1022
95 % 39 56 540 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.8
PDBFlex
90 % 39 56 574
70 % 71 127 181
50 % 71 127 226
40 % 71 127 245
30 % 71 130 249
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 20954
95 % 3 4 7794 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.9
PDBFlex
90 % 12 15 3186
70 % 1313 2282 2
50 % 2714 4717 1
40 % 2714 4717 1
30 % 3125 5571 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 9144
95 % 13 19 2529 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.6
PDBFlex
90 % 414 721 3
70 % 1332 2329 1
50 % 2715 4717 1
40 % 2715 4717 1
30 % 3126 5571 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.