Sequence Similarity Clusters for the Entities in PDB 2HMI

Entity #1 | Chains: E
DNA (5'-D(*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*C)-3') dna, length: 19 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #2 | Chains: F
DNA (5'-D(*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*CP*GP*CP*CP*A)-3') dna, length: 18 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #3 | Chains: A
SUBUNIT OF V-1 REVERSE TRANSCRIPTASE protein, length: 558 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 19 26 1140
95 % 200 238 104
90 % 200 238 109
70 % 200 238 124
50 % 201 239 152
40 % 201 239 170
30 % 201 239 184
Entity #4 | Chains: B
HISUBUNIT OF V-1 REVERSE TRANSCRIPTASE protein, length: 430 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 77 95 213
95 % 195 232 115 Flexibility: Low
Max RMSD: 13.7, Avg RMSD: 1.6
PDBFlex
90 % 195 232 118
70 % 195 232 135
50 % 196 233 161
40 % 196 233 178
30 % 196 233 192
Entity #5 | Chains: C
FAB FRAGMENT OF MONOCLONAL ANTIBODY 28 protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 39916
95 % 1 3 22567 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.5
PDBFlex
90 % 55 67 366
70 % 1903 2264 1
50 % 3862 4587 1
40 % 3862 4587 1
30 % 4563 5392 1
Entity #6 | Chains: D
FAB FRAGMENT OF MONOCLONAL ANTIBODY 28 protein, length: 220 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 3 26913
95 % 3 8 9053 Flexibility: Low
Max RMSD: 0.7, Avg RMSD: 0.6
PDBFlex
90 % 3 8 8971
70 % 1869 2222 2
50 % 3863 4587 1
40 % 3863 4587 1
30 % 4564 5392 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.