1IBL

STRUCTURE OF THE THERMUS THERMOPHILUS 30S RIBOSOMAL SUBUNIT IN COMPLEX WITH A MESSENGER RNA FRAGMENT AND COGNATE TRANSFER RNA ANTICODON STEM-LOOP BOUND AT THE A SITE AND WITH THE ANTIBIOTIC PAROMOMYCIN


Sequence Similarity Clusters for the Entities in PDB 1IBL

Entity #1 | Chains: A
16S RIBOSOMAL RNA rna, length: 1522 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: G
30S RIBOSOMAL PROTEIN S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 156 288 27
95 % 156 289 38 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 0.8
PDBFlex
90 % 156 289 44
70 % 156 289 53
50 % 183 380 64
40 % 183 385 75
30 % 183 385 90
Entity #11 | Chains: H
30S RIBOSOMAL PROTEIN S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 155 284 31
95 % 155 284 43 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 156 288 45
70 % 156 288 54
50 % 186 446 28
40 % 187 452 39
30 % 213 577 32
Entity #12 | Chains: I
30S RIBOSOMAL PROTEIN S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 30 93 224
95 % 155 284 48 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 155 284 53
70 % 155 284 63
50 % 183 435 35
40 % 183 435 47
30 % 207 561 35
Entity #13 | Chains: J
30S RIBOSOMAL PROTEIN S10 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 155 282 38
95 % 155 283 51 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 155 283 56
70 % 155 283 67
50 % 189 446 27
40 % 189 446 40
30 % 213 560 34
Entity #14 | Chains: K
30S RIBOSOMAL PROTEIN S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 155 284 35
95 % 155 284 47 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 155 284 52
70 % 155 284 62
50 % 183 440 34
40 % 209 572 19
30 % 209 572 33
Entity #15 | Chains: L
30S RIBOSOMAL PROTEIN S12 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 93 220 54
95 % 155 291 37 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 155 291 43
70 % 183 444 18
50 % 183 457 24
40 % 183 457 37
30 % 183 457 57
Entity #16 | Chains: M
30S RIBOSOMAL PROTEIN S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 155 285 32
95 % 155 285 44 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 155 285 49
70 % 155 285 59
50 % 186 444 33
40 % 186 444 45
30 % 210 561 36
Entity #17 | Chains: N
30S RIBOSOMAL PROTEIN S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 155 283 36
95 % 155 283 52 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 155 283 57
70 % 155 296 50
50 % 155 296 90
40 % 155 296 112
30 % 155 296 124
Entity #18 | Chains: O
30S RIBOSOMAL PROTEIN S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 155 287 29
95 % 159 292 36 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 159 292 41
70 % 159 292 51
50 % 190 453 26
40 % 190 458 36
30 % 190 458 55
Entity #19 | Chains: P
30S RIBOSOMAL PROTEIN S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 155 279 39
95 % 155 284 49 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 155 284 54
70 % 155 284 64
50 % 155 294 91
40 % 155 294 114
30 % 186 437 64
Entity #2 | Chains: X
P-SITE MESSENGER RNA FRAGMENT rna, length: 6 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: Q
30S RIBOSOMAL PROTEIN S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 37 91 263
95 % 154 278 53
90 % 155 282 58
70 % 155 282 68
50 % 155 282 96
40 % 155 282 119
30 % 155 282 128
Entity #21 | Chains: R
30S RIBOSOMAL PROTEIN S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 17 51 749
95 % 136 241 66
90 % 136 241 69
70 % 136 241 84
50 % 136 241 114
40 % 136 241 139
30 % 136 241 146
Entity #22 | Chains: S
30S RIBOSOMAL PROTEIN S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 156 287 28
95 % 156 287 39 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 156 287 46
70 % 156 287 55
50 % 184 446 29
40 % 184 449 41
30 % 184 449 59
Entity #23 | Chains: T
30S RIBOSOMAL PROTEIN S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 139 231 50
95 % 155 283 50 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 155 283 55
70 % 155 283 66
50 % 155 283 95
40 % 155 283 118
30 % 155 283 127
Entity #24 | Chains: V
30S RIBOSOMAL PROTEIN THX protein, length: 26 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 153 272 43
95 % 153 272 58 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 153 272 63
70 % 153 272 73
50 % 153 272 99
40 % 153 272 124
30 % 153 272 131
Entity #3 | Chains: Y
ANTICODON STEM-LOOP OF PHENYLALANINE TRANSFER RNA rna, length: 15 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #4 | Chains: Z
A-SITE MESSENGER RNA FRAGMENT rna, length: 4 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #5 | Chains: B
30S RIBOSOMAL PROTEIN S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 155 284 30
95 % 155 285 41 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 155 285 47
70 % 155 285 56
50 % 183 433 36
40 % 183 438 46
30 % 183 438 62
Entity #6 | Chains: C
30S RIBOSOMAL PROTEIN S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 135 240 46
95 % 135 240 67 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 135 240 70
70 % 135 240 85
50 % 141 315 86
40 % 141 315 104
30 % 141 315 118
Entity #7 | Chains: D
30S RIBOSOMAL PROTEIN S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 153 277 40
95 % 155 285 42 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 155 285 48
70 % 155 285 57
50 % 183 441 30
40 % 183 446 42
30 % 183 446 60
Entity #8 | Chains: E
30S RIBOSOMAL PROTEIN S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 155 284 34
95 % 155 284 46
90 % 155 284 51
70 % 155 284 61
50 % 184 441 32
40 % 184 441 44
30 % 184 443 61
Entity #9 | Chains: F
30S RIBOSOMAL PROTEIN S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 157 289 26
95 % 163 295 35 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 0.8
PDBFlex
90 % 163 295 39
70 % 163 295 48
50 % 163 295 88
40 % 163 295 110
30 % 187 378 86

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