Sequence Similarity Clusters for the Entities in PDB 4DV1

Entity #1 | Chains: A
16S rRNA rna, length: 1522 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: J
ribosomal protein S10 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 128 290 34
95 % 128 291 49 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 128 291 54
70 % 128 291 65
50 % 159 455 25
40 % 159 455 40
30 % 176 572 34
Entity #11 | Chains: K
ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 128 292 32
95 % 128 292 45 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 128 292 50
70 % 128 292 60
50 % 153 449 33
40 % 172 584 19
30 % 172 584 33
Entity #12 | Chains: L
ribosomal protein S12 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 48 71 325
95 % 128 299 37 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 128 299 41
70 % 153 453 17
50 % 153 466 24
40 % 153 466 38
30 % 153 466 57
Entity #13 | Chains: M
ribosomal protein S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 128 293 30
95 % 128 293 43 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 128 293 47
70 % 128 293 58
50 % 156 453 32
40 % 156 453 46
30 % 173 573 37
Entity #14 | Chains: N
ribosomal protein S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 128 291 33
95 % 128 291 50 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 128 291 55
70 % 128 304 49
50 % 128 304 89
40 % 128 304 110
30 % 128 304 122
Entity #15 | Chains: O
ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 128 295 27
95 % 132 300 36 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 132 300 40
70 % 132 300 50
50 % 160 461 26
40 % 160 466 37
30 % 160 466 56
Entity #16 | Chains: P
ribosomal protein S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 128 287 35
95 % 128 292 47
90 % 128 292 52
70 % 128 292 62
50 % 128 302 90
40 % 128 308 107
30 % 156 451 64
Entity #17 | Chains: Q
ribosomal protein S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 29 91 276
95 % 128 285 51 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 128 289 56
70 % 128 289 66
50 % 128 289 94
40 % 128 289 117
30 % 128 289 127
Entity #18 | Chains: R
ribosomal protein S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 102 195 59
95 % 113 246 65 Flexibility: Low
Max RMSD: 3.4, Avg RMSD: 0.8
PDBFlex
90 % 113 246 68
70 % 113 246 84
50 % 113 246 113
40 % 113 246 138
30 % 113 246 143
Entity #19 | Chains: S
ribosomal protein S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 129 295 26
95 % 129 295 39 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 129 295 44
70 % 129 295 54
50 % 154 455 28
40 % 154 458 42
30 % 154 458 58
Entity #2 | Chains: B
ribosomal protein S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 128 292 28
95 % 128 293 40 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 128 293 45
70 % 128 293 55
50 % 153 441 35
40 % 153 447 47
30 % 153 447 63
Entity #20 | Chains: T
ribosomal protein S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 116 238 47
95 % 128 291 48 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 128 291 53
70 % 128 291 64
50 % 128 291 93
40 % 128 291 116
30 % 128 291 126
Entity #21 | Chains: U
ribosomal protein THX protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 128 282 41
95 % 128 282 55 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 128 282 61
70 % 128 282 71
50 % 128 282 98
40 % 128 282 121
30 % 128 282 129
Entity #3 | Chains: C
ribosomal protein S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 112 245 46
95 % 112 245 66 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 112 245 69
70 % 112 245 85
50 % 116 320 86
40 % 116 320 104
30 % 116 320 116
Entity #4 | Chains: D
ribosomal protein S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 127 285 38
95 % 128 293 41 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 128 293 46
70 % 128 293 57
50 % 153 449 29
40 % 153 455 43
30 % 153 455 59
Entity #5 | Chains: E
ribosomal protein S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 128 292 31
95 % 128 292 44 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 128 292 49
70 % 128 292 59
50 % 154 450 31
40 % 154 450 45
30 % 154 452 61
Entity #6 | Chains: F
ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 130 297 24
95 % 136 303 35 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 0.8
PDBFlex
90 % 136 303 39
70 % 136 303 48
50 % 136 303 88
40 % 136 303 109
30 % 159 386 88
Entity #7 | Chains: G
ribosomal protein S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 129 296 25
95 % 129 297 38 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 0.8
PDBFlex
90 % 129 297 42
70 % 129 297 51
50 % 154 388 60
40 % 154 394 71
30 % 154 394 87
Entity #8 | Chains: H
ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 129 292 29
95 % 129 292 42 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 129 296 43
70 % 129 296 52
50 % 156 454 27
40 % 157 461 39
30 % 176 589 32
Entity #9 | Chains: I
ribosomal protein S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 111 198 63
95 % 128 292 46 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 128 292 51
70 % 128 292 61
50 % 153 443 34
40 % 153 444 48
30 % 170 573 36

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