Sequence Similarity Clusters for the Entities in PDB 1JD2

Entity #1 | Chains: A,V
PROTEASOME COMPONENT Y7 protein, length: 250 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 238 252 16
95 % 238 252 28 Flexibility: No
Max RMSD: 3.5, Avg RMSD: 0.3
PDBFlex
90 % 238 252 30
70 % 238 252 38
50 % 255 286 47
40 % 1027 1165 3
30 % 1789 2025 3
Entity #10 | Chains: J,Q
PROTEASOME COMPONENT C11 protein, length: 198 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 237 251 19
95 % 237 251 33 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.3
PDBFlex
90 % 237 251 35
70 % 237 251 43
50 % 237 251 81
40 % 254 285 69
30 % 254 285 84
Entity #11 | Chains: K,R
PROTEASOME COMPONENT PRE2 protein, length: 212 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 134 134 94
95 % 197 199 61 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.4
PDBFlex
90 % 197 199 64
70 % 249 254 28
50 % 249 255 75
40 % 249 255 96
30 % 528 562 13
Entity #12 | Chains: L,S
PROTEASOME COMPONENT C5 protein, length: 222 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 205 219 37
95 % 238 252 29 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.3
PDBFlex
90 % 238 252 31
70 % 238 252 39
50 % 238 252 80
40 % 255 285 67
30 % 255 286 79
Entity #13 | Chains: M,T
PROTEASOME COMPONENT PRE4 protein, length: 233 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 238 252 11
95 % 238 252 22 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 238 252 25
70 % 238 252 33
50 % 238 252 79
40 % 255 271 86
30 % 255 271 99
Entity #14 | Chains: N,U
PROTEASOME COMPONENT PRE3 protein, length: 196 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 238 252 17
95 % 238 252 31 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.2
PDBFlex
90 % 238 252 33
70 % 238 252 41
50 % 255 271 64
40 % 255 271 87
30 % 529 562 13
Entity #15 | Chains: 8,9
TMC-95A inhibitor protein, length: 5 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #2 | Chains: B,W
PROTEASOME COMPONENT Y13 protein, length: 244 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 238 252 13
95 % 238 252 25 Flexibility: No
Max RMSD: 2.6, Avg RMSD: 0.4
PDBFlex
90 % 238 252 27
70 % 238 252 35
50 % 255 286 46
40 % 1028 1165 3
30 % 1790 2025 3
Entity #3 | Chains: C,X
PROTEASOME COMPONENT PRE6 protein, length: 241 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 238 252 14
95 % 238 252 26 Flexibility: No
Max RMSD: 2.8, Avg RMSD: 0.3
PDBFlex
90 % 238 252 28
70 % 238 252 36
50 % 255 286 51
40 % 1029 1165 3
30 % 1791 2025 3
Entity #4 | Chains: D,Y
PROTEASOME COMPONENT PUP2 protein, length: 242 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 238 252 12
95 % 238 252 23 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.2
PDBFlex
90 % 239 253 24
70 % 239 253 32
50 % 256 287 44
40 % 1030 1165 3
30 % 1792 2025 3
Entity #5 | Chains: E,Z
PROTEASOME COMPONENT PRE5 protein, length: 233 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 236 250 20
95 % 238 252 30 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.2
PDBFlex
90 % 238 252 32
70 % 238 252 40
50 % 255 286 50
40 % 255 286 66
30 % 1793 2025 3
Entity #6 | Chains: 1,F
PROTEASOME COMPONENT C1 protein, length: 244 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 36 36 462
95 % 36 36 637 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 36 36 666
70 % 36 36 715
50 % 53 70 368
40 % 53 70 384
30 % 1794 2025 3
Entity #7 | Chains: 2,G
PROTEASOME COMPONENT C7-ALPHA protein, length: 243 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 238 252 15
95 % 238 252 27 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.2
PDBFlex
90 % 238 252 29
70 % 238 252 37
50 % 255 285 52
40 % 255 286 63
30 % 1795 2025 3
Entity #8 | Chains: H,O
PROTEASOME COMPONENT PUP1 protein, length: 222 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 215 217 36
95 % 238 252 24 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.3
PDBFlex
90 % 238 252 26
70 % 238 252 34
50 % 255 286 45
40 % 255 286 62
30 % 255 286 78
Entity #9 | Chains: I,P
PROTEASOME COMPONENT PUP3 protein, length: 204 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 238 252 18
95 % 238 252 32 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 238 252 34
70 % 238 252 42
50 % 255 285 53
40 % 255 286 64
30 % 255 286 80

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