Sequence Similarity Clusters for the Entities in PDB 1R4M

Entity #1 | Chains: A,C,E,G
amyloid beta precursor protein-binding protein 1 protein, length: 529 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 5 6 2643
95 % 8 9 2554 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.8
PDBFlex
90 % 8 9 2619
70 % 8 9 2658
50 % 8 9 2677
40 % 8 9 2694
30 % 8 9 2650
Entity #2 | Chains: B,D,F,H
ubiquitin-activating enzyme E1C protein, length: 431 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 3 6501
95 % 7 8 2663 Flexibility: Low
Max RMSD: 2.7, Avg RMSD: 1.6
PDBFlex
90 % 7 8 2730
70 % 7 8 2698
50 % 7 8 2701
40 % 7 8 2722
30 % 7 8 2677
Entity #3 | Chains: I,J,K,L
Ubiquitin-like protein NEDD8 protein, length: 76 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 10 13 2023
95 % 8 11 3346 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 1.2
PDBFlex
90 % 8 11 3418
70 % 14 18 1615
50 % 394 536 11
40 % 394 540 16
30 % 404 556 21

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


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 4FBJ 2 B NEDD8 9606
2 1NDD 1 A, B, C, D PROTEIN (UBIQUITIN-LIKE PROTEIN NEDD8) HUMAN NEDD8 UBIQUITIN-LIKE PROTEIN MONOMER WITH 4 MOLECULES IN THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT 9606
3 2BKR 2 B NEDDYLIN 9606
4 4F8C 2 B, D NEDD8 9606
5 1XT9 2 B Neddylin 9606
6 4HCP 2 B NEDD8 unp residues 1-76 9606
7 3GZN 3 I, J NEDD8 9606
8 1R4M 3 I, J, K, L Ubiquitin-like protein NEDD8 9606
9 1R4N 3 I, J, K, L Ubiquitin-like protein NEDD8 9606
10 2N7K 1 A NEDD8 9606
11 2KO3 1 A NEDD8 9606