Sequence Similarity Clusters for the Entities in PDB 1CD3

Entity #1 | Chains: 1,2,3,4
PROTEIN (SCAFFOLDING PROTEIN GPD) protein, length: 152 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 4 4116
95 % 2 4 4891 Flexibility: Medium
Max RMSD: 11.1, Avg RMSD: 5.8
PDBFlex
90 % 2 4 4914
70 % 2 4 4793
50 % 2 4 4599
40 % 2 4 4369
30 % 2 4 4011
Entity #2 | Chains: F
PROTEIN (CAPSID PROTEIN GPF) protein, length: 426 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 1 52975
95 % 2 3 21823 Flexibility: Low
Max RMSD: 2.7, Avg RMSD: 1.7
PDBFlex
90 % 2 3 21202
70 % 4 6 10665
50 % 4 7 8680
40 % 4 7 7956
30 % 4 7 7034
Entity #3 | Chains: G
PROTEIN (SPIKE PROTEIN GPG) protein, length: 175 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 3 28484
95 % 2 3 23691 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.3
PDBFlex
90 % 2 3 22902
70 % 2 3 20884
50 % 2 3 18070
40 % 2 3 16109
30 % 4 7 7278
Entity #4 | Chains: B
PROTEIN (SCAFFOLDING PROTEIN GPB) protein, length: 120 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 46194
95 % 1 2 34585 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 2.1
PDBFlex
90 % 1 2 33036
70 % 1 2 29389
50 % 1 2 25090
40 % 1 2 22077
30 % 1 2 18691

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