1N36

Structure of the Thermus thermophilus 30S ribosomal subunit in the presence of crystallographically disordered codon and near-cognate transfer RNA anticodon stem-loop mismatched at the second codon position


Sequence Similarity Clusters for the Entities in PDB 1N36

Entity #1 | Chains: A
16S RIBOSOMAL RNA rna, length: 1522 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: J
30S RIBOSOMAL PROTEIN S10 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 243 292 40
95 % 243 292 49 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 243 292 54
70 % 243 292 65
50 % 285 462 25
40 % 323 577 20
30 % 323 579 33
Entity #11 | 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 % 243 293 38
95 % 243 293 46 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 243 293 50
70 % 243 293 63
50 % 279 456 32
40 % 319 583 19
30 % 319 583 32
Entity #12 | 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 % 212 261 49
95 % 243 300 37 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 243 300 41
70 % 279 470 15
50 % 279 473 24
40 % 279 473 39
30 % 279 473 57
Entity #13 | 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 % 243 294 35
95 % 243 294 42 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 243 294 47
70 % 243 294 60
50 % 282 460 30
40 % 282 460 43
30 % 320 580 37
Entity #14 | Chains: N
30S RIBOSOMAL PROTEIN S14 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 243 292 39
95 % 243 292 48 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 243 292 53
70 % 243 296 56
50 % 243 305 91
40 % 243 305 112
30 % 243 305 127
Entity #15 | Chains: O
30S RIBOSOMAL PROTEIN S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 244 298 28
95 % 247 301 36 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 247 301 40
70 % 247 301 51
50 % 286 468 26
40 % 286 473 38
30 % 286 473 56
Entity #16 | 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 % 243 288 43
95 % 243 293 44 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 243 293 48
70 % 243 293 61
50 % 243 303 92
40 % 282 458 45
30 % 282 458 61
Entity #17 | Chains: Q
30S RIBOSOMAL PROTEIN S17 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 18 26 1689
95 % 241 290 51 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 241 290 56
70 % 241 290 68
50 % 241 290 97
40 % 241 290 119
30 % 241 290 133
Entity #18 | 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 % 207 241 54
95 % 210 247 64 Flexibility: Low
Max RMSD: 3.4, Avg RMSD: 0.8
PDBFlex
90 % 210 247 69
70 % 210 247 86
50 % 210 247 116
40 % 210 247 140
30 % 210 247 152
Entity #19 | Chains: S
30S RIBOSOMAL PROTEIN S19 protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 244 296 31
95 % 244 296 39 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 244 296 44
70 % 244 296 55
50 % 280 462 28
40 % 280 465 41
30 % 280 465 58
Entity #2 | 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 % 243 293 34
95 % 243 294 41 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 243 294 46
70 % 243 294 59
50 % 279 446 36
40 % 279 452 48
30 % 279 452 64
Entity #20 | 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 % 215 253 50
95 % 243 292 50 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 243 292 55
70 % 243 292 66
50 % 243 292 94
40 % 243 292 117
30 % 243 292 132
Entity #21 | 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 % 242 283 45
95 % 242 283 55 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 242 283 60
70 % 242 283 72
50 % 242 283 100
40 % 242 283 123
30 % 242 283 135
Entity #3 | 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 % 210 246 52
95 % 210 246 65 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 210 246 70
70 % 210 246 87
50 % 224 321 87
40 % 224 321 106
30 % 224 321 121
Entity #4 | Chains: D
30S RIBOSOMAL PROTEIN S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 243 294 33
95 % 243 294 40 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 243 294 45
70 % 243 294 57
50 % 279 456 29
40 % 279 462 42
30 % 279 462 59
Entity #5 | Chains: E
30S RIBOSOMAL PROTEIN S5 protein, length: 161 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 243 293 37
95 % 243 293 45 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 243 293 49
70 % 243 293 62
50 % 280 457 31
40 % 280 457 44
30 % 280 459 60
Entity #6 | 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 % 245 298 29
95 % 251 304 35 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 0.8
PDBFlex
90 % 251 304 39
70 % 251 304 50
50 % 251 304 90
40 % 251 304 111
30 % 275 393 86
Entity #7 | Chains: G
30S RIBOSOMAL PROTEIN S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 244 298 30
95 % 244 298 38 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 0.8
PDBFlex
90 % 244 298 42
70 % 244 298 53
50 % 272 395 58
40 % 272 401 67
30 % 272 401 83
Entity #8 | 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 % 242 293 36
95 % 242 293 43 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 244 297 43
70 % 244 297 54
50 % 282 461 27
40 % 323 596 18
30 % 323 596 31
Entity #9 | 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 % 70 94 239
95 % 243 293 47 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 243 293 51
70 % 243 293 64
50 % 279 450 35
40 % 279 451 49
30 % 317 580 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