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 % 162 298 30
95 % 162 298 38 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 0.8
PDBFlex
90 % 162 298 42
70 % 162 298 53
50 % 189 395 58
40 % 189 401 67
30 % 189 401 83
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 % 161 293 36
95 % 161 293 43 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 162 297 43
70 % 162 297 54
50 % 192 461 27
40 % 220 596 18
30 % 220 596 31
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 94 239
95 % 161 293 47 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 161 293 51
70 % 161 293 64
50 % 189 450 35
40 % 189 451 49
30 % 214 580 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 % 161 292 40
95 % 161 292 49 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 161 292 54
70 % 161 292 65
50 % 195 462 25
40 % 220 577 20
30 % 220 579 33
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 % 161 293 38
95 % 161 293 46 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 161 293 50
70 % 161 293 63
50 % 189 456 32
40 % 216 583 19
30 % 216 583 32
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 % 137 261 49
95 % 161 300 37 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 161 300 41
70 % 189 470 15
50 % 189 473 24
40 % 189 473 39
30 % 189 473 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 % 161 294 35
95 % 161 294 42 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 161 294 47
70 % 161 294 60
50 % 192 460 30
40 % 192 460 43
30 % 217 580 37
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 % 161 292 39
95 % 161 292 48 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 161 292 53
70 % 161 296 56
50 % 161 305 91
40 % 161 305 112
30 % 161 305 127
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 % 162 298 28
95 % 165 301 36 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 165 301 40
70 % 165 301 51
50 % 196 468 26
40 % 196 473 38
30 % 196 473 56
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 % 161 288 43
95 % 161 293 44 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 161 293 48
70 % 161 293 61
50 % 161 303 92
40 % 192 458 45
30 % 192 458 61
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 % 150 264 46
95 % 161 290 51
90 % 161 290 56
70 % 161 290 68
50 % 161 290 97
40 % 161 290 119
30 % 161 290 133
Entity #21 | Chains: R
30S RIBOSOMAL PROTEIN S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 140 241 54
95 % 141 247 64
90 % 141 247 69
70 % 141 247 86
50 % 141 247 116
40 % 141 247 140
30 % 141 247 152
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 % 162 296 31
95 % 162 296 39 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 162 296 44
70 % 162 296 55
50 % 190 462 28
40 % 190 465 41
30 % 190 465 58
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 % 146 253 50
95 % 161 292 50 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 161 292 55
70 % 161 292 66
50 % 161 292 94
40 % 161 292 117
30 % 161 292 132
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 % 161 283 45
95 % 161 283 55 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 161 283 60
70 % 161 283 72
50 % 161 283 100
40 % 161 283 123
30 % 161 283 135
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 % 161 293 34
95 % 161 294 41 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 161 294 46
70 % 161 294 59
50 % 189 446 36
40 % 189 452 48
30 % 189 452 64
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 % 140 246 52
95 % 140 246 65 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 140 246 70
70 % 140 246 87
50 % 146 321 87
40 % 146 321 106
30 % 146 321 121
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 % 161 294 33
95 % 161 294 40 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 161 294 45
70 % 161 294 57
50 % 189 456 29
40 % 189 462 42
30 % 189 462 59
Entity #8 | Chains: E
30S RIBOSOMAL PROTEIN S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 161 293 37
95 % 161 293 45
90 % 161 293 49
70 % 161 293 62
50 % 190 457 31
40 % 190 457 44
30 % 190 459 60
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 % 163 298 29
95 % 169 304 35 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 0.8
PDBFlex
90 % 169 304 39
70 % 169 304 50
50 % 169 304 90
40 % 169 304 111
30 % 193 393 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