1N34

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


Sequence Similarity Clusters for the Entities in PDB 1N34

Entity #1 | Chains: A
16S RIBOSOMAL RNA rna, length: 1522 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | 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 % 62 91 220
95 % 217 271 50 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 217 271 55
70 % 217 271 66
50 % 251 417 33
40 % 251 417 46
30 % 284 535 34
Entity #11 | 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 % 216 269 39
95 % 217 270 53 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 1.1
PDBFlex
90 % 217 270 58
70 % 217 270 69
50 % 257 428 26
40 % 257 428 38
30 % 290 535 32
Entity #12 | 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 % 217 271 35
95 % 217 271 49 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 217 271 54
70 % 217 271 65
50 % 251 422 32
40 % 286 546 19
30 % 286 546 31
Entity #13 | 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 % 157 217 52
95 % 217 278 39 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 217 278 44
70 % 251 426 18
50 % 251 439 24
40 % 251 439 36
30 % 251 439 56
Entity #14 | 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 % 217 272 33
95 % 217 272 46 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 217 272 51
70 % 217 272 62
50 % 254 426 31
40 % 254 426 44
30 % 287 535 35
Entity #15 | 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 % 217 270 36
95 % 217 270 54 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.8
PDBFlex
90 % 217 270 59
70 % 217 283 53
50 % 217 283 91
40 % 217 283 112
30 % 217 283 124
Entity #16 | 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 % 217 274 30
95 % 221 279 38 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 221 279 43
70 % 221 279 54
50 % 258 435 25
40 % 258 440 35
30 % 258 440 55
Entity #17 | 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 % 217 266 41
95 % 217 271 51 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 217 271 56
70 % 217 271 67
50 % 217 281 92
40 % 217 281 114
30 % 254 419 63
Entity #18 | 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 % 58 87 259
95 % 215 265 56 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 217 269 60
70 % 217 269 70
50 % 217 269 95
40 % 217 269 117
30 % 217 269 128
Entity #19 | 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 % 31 51 724
95 % 194 236 65 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 0.9
PDBFlex
90 % 194 236 69
70 % 194 236 81
50 % 194 236 114
40 % 194 236 137
30 % 194 236 145
Entity #2 | Chains: Z
A-SITE MESSENGER RNA FRAGMENT rna, length: 6 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | 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 % 218 274 29
95 % 218 274 42 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 218 274 48
70 % 218 274 58
50 % 252 428 28
40 % 252 431 40
30 % 252 431 57
Entity #21 | 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 % 188 219 51
95 % 217 270 52 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 217 270 57
70 % 217 270 68
50 % 217 270 94
40 % 217 270 116
30 % 217 270 127
Entity #22 | Chains: V
30S RIBOSOMAL PROTEIN THX protein, length: 26 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 261 43
95 % 216 261 59
90 % 216 261 63
70 % 216 261 74
50 % 216 261 100
40 % 216 261 122
30 % 216 261 135
Entity #3 | 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 % 217 271 31
95 % 217 272 43 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 217 272 49
70 % 217 272 59
50 % 251 415 34
40 % 251 420 45
30 % 251 420 61
Entity #4 | 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 % 194 235 49
95 % 194 235 66 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 194 235 70
70 % 194 235 82
50 % 206 309 85
40 % 206 309 103
30 % 206 309 118
Entity #5 | 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 % 215 264 42
95 % 217 272 44 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 217 272 50
70 % 217 272 60
50 % 251 423 29
40 % 251 428 42
30 % 251 428 58
Entity #6 | 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 % 217 271 34
95 % 217 271 48 Flexibility: Low
Max RMSD: 4.7, Avg RMSD: 0.6
PDBFlex
90 % 217 271 53
70 % 217 271 64
50 % 252 423 30
40 % 252 423 43
30 % 252 425 60
Entity #7 | 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 % 219 276 27
95 % 225 282 37 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 0.8
PDBFlex
90 % 225 282 42
70 % 225 282 52
50 % 225 282 90
40 % 225 282 111
30 % 249 362 93
Entity #8 | 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 % 218 275 28
95 % 218 276 41 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.9
PDBFlex
90 % 218 276 46
70 % 218 276 56
50 % 246 363 66
40 % 246 368 82
30 % 246 368 95
Entity #9 | Chains: H
30S RIBOSOMAL PROTEIN S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 216 271 32
95 % 216 271 45
90 % 218 275 47
70 % 218 275 57
50 % 254 428 27
40 % 255 434 37
30 % 290 551 30

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.