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 % 175 267 40
95 % 176 268 54 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 1.1
PDBFlex
90 % 176 268 58
70 % 176 268 69
50 % 210 412 26
40 % 210 412 37
30 % 235 514 32
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 % 176 269 37
95 % 176 269 50 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 176 269 54
70 % 176 269 64
50 % 204 406 33
40 % 231 514 19
30 % 231 514 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 % 119 217 50
95 % 176 276 40 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 176 276 45
70 % 204 415 20
50 % 204 423 24
40 % 204 423 35
30 % 204 423 55
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 % 176 270 35
95 % 176 270 47 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 176 270 52
70 % 176 270 62
50 % 207 410 32
40 % 207 410 44
30 % 232 512 36
Entity #14 | Chains: N
RIBOSOMAL PROTEIN S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 176 268 38
95 % 176 268 55
90 % 176 268 59
70 % 176 272 59
50 % 176 272 91
40 % 176 272 112
30 % 176 272 125
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 % 176 272 30
95 % 180 277 39 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 180 277 44
70 % 180 277 55
50 % 211 419 25
40 % 211 424 34
30 % 211 424 53
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 % 176 264 41
95 % 176 269 52 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 176 269 56
70 % 176 269 66
50 % 176 274 90
40 % 176 274 111
30 % 207 407 63
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 % 43 87 250
95 % 175 263 57 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 176 267 60
70 % 176 267 70
50 % 176 267 94
40 % 176 267 115
30 % 176 267 127
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 % 137 183 56
95 % 159 234 65 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 0.9
PDBFlex
90 % 159 234 70
70 % 159 234 82
50 % 159 234 109
40 % 159 234 134
30 % 159 234 143
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 % 177 272 29
95 % 177 272 43 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 177 272 49
70 % 177 272 58
50 % 205 412 29
40 % 205 415 38
30 % 205 415 57
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 % 176 269 33
95 % 176 270 44 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.7
PDBFlex
90 % 176 270 50
70 % 176 270 60
50 % 204 401 36
40 % 204 406 43
30 % 204 406 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 51 493
95 % 176 268 53 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 176 268 57
70 % 176 268 68
50 % 176 268 93
40 % 176 268 114
30 % 176 268 126
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 % 176 259 43
95 % 176 259 59 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 176 259 63
70 % 176 259 75
50 % 176 259 98
40 % 176 259 120
30 % 176 259 131
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 % 159 233 48
95 % 159 233 66 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 159 233 71
70 % 159 233 83
50 % 165 306 84
40 % 165 306 102
30 % 165 306 114
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 % 174 262 42
95 % 176 270 45 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 176 270 51
70 % 176 270 61
50 % 204 407 31
40 % 204 412 39
30 % 204 412 58
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 % 176 269 36
95 % 176 269 49 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 176 269 53
70 % 176 269 63
50 % 205 411 30
40 % 205 411 42
30 % 205 413 59
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 % 178 274 27
95 % 184 280 37 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 0.9
PDBFlex
90 % 184 280 41
70 % 184 280 52
50 % 184 280 87
40 % 184 280 106
30 % 208 347 92
Entity #7 | Chains: G
RIBOSOMAL PROTEIN S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 177 273 28
95 % 177 274 41
90 % 177 274 46
70 % 177 274 56
50 % 204 347 68
40 % 204 352 83
30 % 204 352 95
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 % 176 269 34
95 % 176 269 46 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 177 273 47
70 % 177 273 57
50 % 207 412 27
40 % 208 418 36
30 % 235 527 30
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 % 46 91 215
95 % 176 269 51 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 176 269 55
70 % 176 269 65
50 % 204 405 34
40 % 204 405 45
30 % 229 511 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.