Sequence Similarity Clusters for the Entities in PDB 2VDO

Entity #1 | Chains: A
INTEGRIN ALPHA-IIB protein, length: 452 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 25 1137
95 % 6 26 1447 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.3
PDBFlex
90 % 6 26 1484
70 % 6 26 1507
50 % 6 26 1551
40 % 8 30 1459
30 % 8 30 1494
Entity #2 | Chains: B
INTEGRIN BETA-3 protein, length: 461 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 26 1050
95 % 6 26 1435 Flexibility: Medium
Max RMSD: 10.5, Avg RMSD: 4.9
PDBFlex
90 % 6 26 1459
70 % 6 26 1499
50 % 6 32 1343
40 % 9 43 1019
30 % 9 43 1062
Entity #3 | Chains: C
FIBRINOGEN, GAMMA POLYPEPTIDE protein, length: 12 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #4 | Chains: H
MONOCLONAL ANTIBODY 10E5 HEAVY CHAIN protein, length: 221 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 24 1265
95 % 6 24 1684 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.5
PDBFlex
90 % 7 30 1445
70 % 1002 2883 1
50 % 1062 3028 1
40 % 1062 3028 1
30 % 2109 6055 1
Entity #5 | Chains: L
MONOCLONAL ANTIBODY 10E5 LIGHT CHAIN protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 24 1272
95 % 8 29 1444 Flexibility: Low
Max RMSD: 4.3, Avg RMSD: 0.8
PDBFlex
90 % 9 31 1374
70 % 812 2352 2
50 % 1034 2983 2
40 % 1034 2983 2
30 % 2110 6055 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