Sequence Similarity Clusters for the Entities in PDB 1IBM

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 % 205 300 29
95 % 205 300 38 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 0.8
PDBFlex
90 % 205 300 42
70 % 205 300 52
50 % 232 397 54
40 % 232 403 67
30 % 232 403 81
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 % 204 295 35
95 % 204 295 43 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 205 299 43
70 % 205 299 53
50 % 235 463 27
40 % 269 598 18
30 % 269 598 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 % 52 96 229
95 % 204 295 47 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 204 295 51
70 % 204 295 63
50 % 232 452 34
40 % 232 453 48
30 % 263 582 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 % 204 294 40
95 % 204 294 49 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 204 294 53
70 % 204 294 64
50 % 238 464 25
40 % 269 579 20
30 % 269 581 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 % 204 295 37
95 % 204 295 46 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 204 295 50
70 % 204 295 62
50 % 232 458 32
40 % 265 585 19
30 % 265 585 32
Entity #15 | Chains: L
30S RIBOSOMAL PROTEIN S12 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 180 263 49
95 % 204 302 37
90 % 204 302 41
70 % 232 472 15
50 % 232 475 24
40 % 232 475 38
30 % 232 475 55
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 % 204 296 34
95 % 204 296 42 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 204 296 47
70 % 204 296 59
50 % 235 462 30
40 % 235 462 43
30 % 266 582 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 % 204 294 39
95 % 204 294 48 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 204 294 52
70 % 204 298 55
50 % 204 307 91
40 % 204 307 112
30 % 204 307 126
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 % 205 300 27
95 % 208 303 36 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 208 303 40
70 % 208 303 51
50 % 239 470 26
40 % 239 475 37
30 % 239 475 54
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 % 204 290 41
95 % 204 295 44 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 204 295 48
70 % 204 295 60
50 % 204 305 92
40 % 235 460 45
30 % 235 460 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 Structural variation in cluster
100 % 191 266 46
95 % 203 292 51 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 203 292 55
70 % 203 292 67
50 % 203 292 95
40 % 203 292 117
30 % 203 292 132
Entity #21 | Chains: R
30S RIBOSOMAL PROTEIN S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 180 243 54
95 % 181 249 64 Flexibility: Low
Max RMSD: 3.4, Avg RMSD: 0.8
PDBFlex
90 % 181 249 68
70 % 181 249 85
50 % 181 249 116
40 % 181 249 138
30 % 181 249 150
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 % 205 298 30
95 % 205 298 39 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 205 298 44
70 % 205 298 54
50 % 233 464 28
40 % 233 467 41
30 % 233 467 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 % 186 255 50
95 % 204 294 50 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 204 294 54
70 % 204 294 65
50 % 204 294 94
40 % 204 294 116
30 % 204 294 131
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 % 204 285 44
95 % 204 285 54 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 204 285 59
70 % 204 285 71
50 % 204 285 100
40 % 204 285 121
30 % 204 285 135
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 % 204 295 33
95 % 204 296 41 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 204 296 46
70 % 204 296 58
50 % 232 448 36
40 % 232 454 47
30 % 232 454 63
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 % 181 248 51
95 % 181 248 65 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 181 248 69
70 % 181 248 87
50 % 187 323 87
40 % 187 323 105
30 % 187 323 120
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 % 204 296 32
95 % 204 296 40 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 204 296 45
70 % 204 296 57
50 % 232 458 29
40 % 232 464 42
30 % 232 464 59
Entity #8 | Chains: E
30S RIBOSOMAL PROTEIN S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 204 295 36
95 % 204 295 45 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 204 295 49
70 % 204 295 61
50 % 233 459 31
40 % 233 459 44
30 % 233 461 60
Entity #9 | Chains: F
30S RIBOSOMAL PROTEIN S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 206 300 28
95 % 212 306 35
90 % 212 306 39
70 % 212 306 50
50 % 212 306 90
40 % 212 306 111
30 % 236 395 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