Sequence Similarity Clusters for the Entities in PDB 2UXD

Entity #1 | Chains: A
16S RIBOSOMAL RNA rna, length: 1523 (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 % 186 282 38
95 % 187 283 51 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 187 283 56
70 % 187 283 67
50 % 221 446 27
40 % 221 446 40
30 % 251 560 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 % 187 284 35
95 % 187 284 47 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 187 284 52
70 % 187 284 62
50 % 215 440 34
40 % 247 572 19
30 % 247 572 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 % 121 220 54
95 % 187 291 37 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 187 291 43
70 % 215 444 18
50 % 215 457 24
40 % 215 457 37
30 % 215 457 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 % 187 285 32
95 % 187 285 44 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 187 285 49
70 % 187 285 59
50 % 218 444 33
40 % 218 444 45
30 % 248 561 36
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 % 187 283 36
95 % 187 283 52 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 187 283 57
70 % 187 296 50
50 % 187 296 90
40 % 187 296 112
30 % 187 296 124
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 % 187 287 29
95 % 191 292 36 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 191 292 41
70 % 191 292 51
50 % 222 453 26
40 % 222 458 36
30 % 222 458 55
Entity #16 | Chains: P
RIBOSOMAL PROTEIN S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 187 279 39
95 % 187 284 49 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 187 284 54
70 % 187 284 64
50 % 187 294 91
40 % 187 294 114
30 % 218 437 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 % 44 91 263
95 % 186 278 53 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 187 282 58
70 % 187 282 68
50 % 187 282 96
40 % 187 282 119
30 % 187 282 128
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 % 143 190 61
95 % 165 241 66 Flexibility: Low
Max RMSD: 3.4, Avg RMSD: 0.8
PDBFlex
90 % 165 241 69
70 % 165 241 84
50 % 165 241 114
40 % 165 241 139
30 % 165 241 146
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 % 188 287 28
95 % 188 287 39 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 188 287 46
70 % 188 287 55
50 % 216 446 29
40 % 216 449 41
30 % 216 449 59
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 % 187 284 30
95 % 187 285 41 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 187 285 47
70 % 187 285 56
50 % 215 433 36
40 % 215 438 46
30 % 215 438 62
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 % 19 52 515
95 % 187 283 50 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 187 283 55
70 % 187 283 66
50 % 187 283 95
40 % 187 283 118
30 % 187 283 127
Entity #21 | Chains: V
RIBOSOMAL PROTEIN THX protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 185 272 43
95 % 185 272 58 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 185 272 63
70 % 185 272 73
50 % 185 272 99
40 % 185 272 124
30 % 185 272 131
Entity #22 | Chains: X
ANTICODON STEM-LOOP OF TRANSFER RNA WITH ANTICODON CCCG rna, length: 4 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #23 | Chains: Y
A-SITE MESSENGER RNA FRAGMENT CGGG rna, length: 18 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
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 % 165 240 46
95 % 165 240 67 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 165 240 70
70 % 165 240 85
50 % 171 315 86
40 % 171 315 104
30 % 171 315 118
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 % 185 277 40
95 % 187 285 42 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 187 285 48
70 % 187 285 57
50 % 215 441 30
40 % 215 446 42
30 % 215 446 60
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 % 187 284 34
95 % 187 284 46 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 187 284 51
70 % 187 284 61
50 % 216 441 32
40 % 216 441 44
30 % 216 443 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 % 189 289 26
95 % 195 295 35 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 0.8
PDBFlex
90 % 195 295 39
70 % 195 295 48
50 % 195 295 88
40 % 195 295 110
30 % 219 378 86
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 % 188 288 27
95 % 188 289 38 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 0.8
PDBFlex
90 % 188 289 44
70 % 188 289 53
50 % 215 380 64
40 % 215 385 75
30 % 215 385 90
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 % 187 284 31
95 % 187 284 43 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 188 288 45
70 % 188 288 54
50 % 218 446 28
40 % 219 452 39
30 % 251 577 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 % 47 93 224
95 % 187 284 48 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 187 284 53
70 % 187 284 63
50 % 215 435 35
40 % 215 435 47
30 % 245 561 35

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