Sequence Similarity Clusters for the Entities in PDB 1P3F

Entity #1 | Chains: I,J
Palindromic 146bp Human Alpha-Satellite DNA fragment dna, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #2 | Chains: A,E
Histone H3 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 8 3904
95 % 96 171 74 Flexibility: Low
Max RMSD: 11.4, Avg RMSD: 1.1
PDBFlex
90 % 96 174 78
70 % 97 175 94
50 % 99 179 124
40 % 99 179 144
30 % 99 179 157
Entity #3 | Chains: B,F
Histone H4 protein, length: 102 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 100 181 54
95 % 103 184 68 Flexibility: Low
Max RMSD: 13.3, Avg RMSD: 1.2
PDBFlex
90 % 104 188 71
70 % 104 188 87
50 % 104 188 117
40 % 104 188 139
30 % 104 188 148
Entity #4 | Chains: C,G
Histone H2A protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 48 88 161
95 % 87 165 77 Flexibility: Low
Max RMSD: 6.8, Avg RMSD: 0.5
PDBFlex
90 % 91 173 74
70 % 93 179 89
50 % 100 190 109
40 % 100 190 131
30 % 100 190 143
Entity #5 | Chains: D,H
Histone H2B protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 42 73 195
95 % 84 160 88 Flexibility: No
Max RMSD: 9.7, Avg RMSD: 0.5
PDBFlex
90 % 84 160 92
70 % 90 172 101
50 % 90 172 133
40 % 90 172 150
30 % 90 172 165

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