3T1H

Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a human anti-codon stem loop (HASL) of transfer RNA lysine 3 (tRNALys3) bound to an mRNA with an AAA-codon in the A-site and Paromomycin


Sequence Similarity Clusters for the Entities in PDB 3T1H

Entity #1 | Chains: A
16s rRNA rna, length: 1513 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | 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 % 175 268 39
95 % 176 269 53 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 1.1
PDBFlex
90 % 176 269 58
70 % 176 269 68
50 % 210 415 26
40 % 210 415 37
30 % 235 517 32
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 176 270 35
95 % 176 270 49
90 % 176 270 54
70 % 176 270 64
50 % 204 409 33
40 % 231 517 19
30 % 231 517 33
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 132 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 118 217 51
95 % 176 277 40 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 176 277 45
70 % 204 416 20
50 % 204 426 24
40 % 204 426 35
30 % 204 426 54
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 % 176 271 33
95 % 176 271 47 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 176 271 52
70 % 176 271 62
50 % 207 413 32
40 % 207 413 44
30 % 232 515 36
Entity #14 | Chains: N
30S ribosomal protein S14 type Z protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 176 269 38
95 % 176 269 54 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 176 269 59
70 % 176 275 58
50 % 176 275 91
40 % 176 275 113
30 % 176 275 125
Entity #15 | 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 % 176 273 30
95 % 180 278 38 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 180 278 43
70 % 180 278 54
50 % 211 422 25
40 % 211 427 34
30 % 211 427 53
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 % 176 265 41
95 % 176 270 51 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 176 270 56
70 % 176 270 66
50 % 176 277 90
40 % 176 277 112
30 % 207 410 63
Entity #17 | 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 % 42 87 251
95 % 175 264 56 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 176 268 60
70 % 176 268 69
50 % 176 268 93
40 % 176 268 116
30 % 176 268 127
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 % 22 51 700
95 % 159 235 65 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 0.9
PDBFlex
90 % 159 235 70
70 % 159 235 83
50 % 159 235 110
40 % 159 235 134
30 % 159 235 143
Entity #19 | 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 % 177 273 29
95 % 177 273 42 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 177 273 48
70 % 177 273 59
50 % 205 415 28
40 % 205 418 38
30 % 205 418 56
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 % 176 270 31
95 % 176 271 44 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.7
PDBFlex
90 % 176 271 50
70 % 176 271 60
50 % 204 404 35
40 % 204 409 43
30 % 204 409 61
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 % 18 51 497
95 % 176 269 52 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 176 269 57
70 % 176 269 67
50 % 176 269 92
40 % 176 269 115
30 % 176 269 126
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 176 260 43
95 % 176 260 59 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 176 260 63
70 % 176 260 74
50 % 176 260 97
40 % 176 260 120
30 % 176 260 130
Entity #22 | Chains: W
mRNA A-site fragment rna, length: 3 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #23 | Chains: X
tRNA ASL human Lys3 rna, length: 11 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
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 % 159 234 48
95 % 159 234 66 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 159 234 71
70 % 159 234 84
50 % 165 307 84
40 % 165 307 102
30 % 165 307 115
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 174 263 42
95 % 176 271 45
90 % 176 271 51
70 % 176 271 61
50 % 204 410 31
40 % 204 415 39
30 % 204 415 58
Entity #5 | 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 % 176 270 34
95 % 176 270 48 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 176 270 53
70 % 176 270 63
50 % 205 414 29
40 % 205 414 40
30 % 205 416 59
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 % 178 275 27
95 % 184 281 37 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 0.9
PDBFlex
90 % 184 281 41
70 % 184 281 52
50 % 184 281 87
40 % 184 281 107
30 % 208 350 92
Entity #7 | 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 % 177 274 28
95 % 177 275 41 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.8
PDBFlex
90 % 177 275 46
70 % 177 275 56
50 % 204 350 67
40 % 204 355 83
30 % 204 355 94
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 % 176 270 32
95 % 176 270 46 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 177 274 47
70 % 177 274 57
50 % 207 415 27
40 % 208 421 36
30 % 235 530 30
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 % 45 91 217
95 % 176 270 50 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 176 270 55
70 % 176 270 65
50 % 204 408 34
40 % 204 408 45
30 % 229 514 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.