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 14
95 % 238 252 23 Flexibility: No
Max RMSD: 3.5, Avg RMSD: 0.3
PDBFlex
90 % 238 252 24
70 % 238 252 34
50 % 255 280 44
40 % 1027 1139 3
30 % 1789 1980 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 17
95 % 237 251 28 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.3
PDBFlex
90 % 237 251 29
70 % 237 251 39
50 % 237 251 71
40 % 254 279 56
30 % 254 279 73
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 79
95 % 197 199 56 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.4
PDBFlex
90 % 197 199 62
70 % 249 252 27
50 % 249 253 58
40 % 249 253 75
30 % 528 556 12
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 24
95 % 238 252 24 Flexibility: No
Max RMSD: 0.8, Avg RMSD: 0.3
PDBFlex
90 % 238 252 25
70 % 238 252 35
50 % 238 252 70
40 % 255 279 55
30 % 255 280 70
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 9
95 % 238 252 17 Flexibility: No
Max RMSD: 1.1, Avg RMSD: 0.2
PDBFlex
90 % 238 252 19
70 % 238 252 29
50 % 238 252 69
40 % 255 270 59
30 % 255 270 76
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 15
95 % 238 252 26 Flexibility: No
Max RMSD: 0.6, Avg RMSD: 0.2
PDBFlex
90 % 238 252 27
70 % 238 252 37
50 % 255 270 49
40 % 255 270 60
30 % 529 556 12
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 11
95 % 238 252 20 Flexibility: No
Max RMSD: 2.6, Avg RMSD: 0.4
PDBFlex
90 % 238 252 21
70 % 238 252 31
50 % 255 280 43
40 % 1028 1139 3
30 % 1790 1980 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 12
95 % 238 252 21 Flexibility: No
Max RMSD: 2.8, Avg RMSD: 0.3
PDBFlex
90 % 238 252 22
70 % 238 252 32
50 % 255 279 46
40 % 1029 1139 3
30 % 1791 1980 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 10
95 % 238 252 18 Flexibility: No
Max RMSD: 2.2, Avg RMSD: 0.2
PDBFlex
90 % 239 253 18
70 % 239 253 28
50 % 256 281 40
40 % 1030 1139 3
30 % 1792 1980 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 18
95 % 238 252 25 Flexibility: No
Max RMSD: 0.9, Avg RMSD: 0.2
PDBFlex
90 % 238 252 26
70 % 238 252 36
50 % 255 279 45
40 % 255 279 54
30 % 1793 1980 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 36 419
95 % 36 36 588 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.3
PDBFlex
90 % 36 36 619
70 % 36 36 658
50 % 53 64 318
40 % 53 64 340
30 % 1794 1980 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 13
95 % 238 252 22 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.2
PDBFlex
90 % 238 252 23
70 % 238 252 33
50 % 255 279 47
40 % 255 280 52
30 % 1795 1980 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 23
95 % 238 252 19 Flexibility: No
Max RMSD: 1.0, Avg RMSD: 0.3
PDBFlex
90 % 238 252 20
70 % 238 252 30
50 % 255 280 41
40 % 255 280 50
30 % 255 280 69
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 16
95 % 238 252 27 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.2
PDBFlex
90 % 238 252 28
70 % 238 252 38
50 % 255 279 48
40 % 255 280 53
30 % 255 280 71

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.