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 1250
95 % 40 59 544 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.8
PDBFlex
90 % 41 60 559
70 % 73 179 134
50 % 73 179 164
40 % 73 179 178
30 % 73 182 195
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 18361
95 % 3 4 7948 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.9
PDBFlex
90 % 12 15 3381
70 % 1426 2478 2
50 % 2944 5107 1
40 % 3358 5756 1
30 % 4129 7175 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 % 11 16 2692
95 % 13 19 2560 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.6
PDBFlex
90 % 440 762 2
70 % 1443 2519 1
50 % 2945 5107 1
40 % 3359 5756 1
30 % 4130 7175 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