Sequence Similarity Clusters for the Entities in PDB 1NVP

Entity #1 | Chains: E
5'-D(*GP*GP*GP*GP*GP*GP*GP*CP*TP*AP*TP*AP*AP*AP*AP*GP*G)-3' dna, length: 17 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #2 | Chains: F
5'-D(*CP*CP*TP*TP*TP*TP*AP*TP*AP*GP*CP*CP*CP*CP*CP*CP*C)-3' dna, length: 17 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #3 | Chains: A
TATA box binding protein protein, length: 181 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 3 8 4429
95 % 4 9 4888 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.5
PDBFlex
90 % 4 9 4910
70 % 18 33 973
50 % 20 37 908
40 % 22 41 847
30 % 23 42 788
Entity #4 | Chains: B
Transcription initiation factor IIA alpha chain protein, length: 57 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 1 73863
95 % 1 1 51275
90 % 1 1 48636
70 % 1 1 42632
50 % 1 1 36352
40 % 1 1 31988
30 % 1 1 27018
Entity #5 | Chains: C
Transcription initiation factor IIA beta chain protein, length: 76 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 1 72581
95 % 1 1 50280
90 % 1 1 47679
70 % 1 1 41789
50 % 1 1 35641
40 % 2 3 16965
30 % 2 3 14536
Entity #6 | Chains: D
Transcription initiation factor IIA gamma chain protein, length: 108 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 9 7578
95 % 1 9 8140
90 % 1 9 8086
70 % 1 9 7820
50 % 1 9 7200
40 % 1 9 6692
30 % 2 17 3376

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