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 4548
95 % 4 9 5011 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.5
PDBFlex
90 % 4 9 5036
70 % 18 33 991
50 % 20 37 919
40 % 22 41 862
30 % 23 42 809
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 75167
95 % 1 1 52124
90 % 1 1 49405
70 % 1 1 43284
50 % 1 1 36886
40 % 1 1 32458
30 % 1 1 27403
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 73875
95 % 1 1 51121
90 % 1 1 48442
70 % 1 1 42434
50 % 1 1 36166
40 % 2 3 17221
30 % 2 3 14750
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 7750
95 % 1 9 8320
90 % 1 9 8261
70 % 1 9 7982
50 % 1 9 7352
40 % 1 9 6825
30 % 2 17 3444

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