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 29 980
95 % 39 55 532 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.8
PDBFlex
90 % 39 55 568
70 % 71 126 179
50 % 71 126 219
40 % 71 126 240
30 % 71 129 246
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 20263
95 % 3 4 7537 Flexibility: Low
Max RMSD: 3.3, Avg RMSD: 1.9
PDBFlex
90 % 12 15 3084
70 % 1271 2197 1
50 % 2623 4537 1
40 % 2623 4537 1
30 % 3013 5342 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 8873
95 % 13 19 2444 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.6
PDBFlex
90 % 389 683 3
70 % 1065 1841 2
50 % 2624 4537 1
40 % 2624 4537 1
30 % 3014 5342 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.