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 1057
95 % 39 57 550 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.8
PDBFlex
90 % 39 57 577
70 % 71 129 184
50 % 71 129 226
40 % 71 129 245
30 % 71 132 251
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 21468
95 % 3 4 7956 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.9
PDBFlex
90 % 12 15 3274
70 % 1375 2376 2
50 % 2843 4913 1
40 % 2843 4913 1
30 % 3264 5780 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 9355
95 % 13 19 2604 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.6
PDBFlex
90 % 442 763 2
70 % 1395 2426 1
50 % 2844 4913 1
40 % 2844 4913 1
30 % 3265 5780 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