4GKJ

Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a human mitochondrial anticodon stem loop (ASL) of transfer RNA Methionine (TRNAMET) bound to an mRNA with an AUG-codon in the A-site and paromomycin.


Sequence Similarity Clusters for the Entities in PDB 4GKJ

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: 98 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 267 38
95 % 97 268 54
90 % 97 268 57
70 % 97 268 69
50 % 125 399 26
40 % 125 399 37
30 % 138 498 32
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 269 36
95 % 97 269 50
90 % 97 269 53
70 % 97 269 64
50 % 119 392 35
40 % 134 497 19
30 % 134 497 33
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 61 217 50
95 % 97 276 40
90 % 97 276 44
70 % 119 405 22
50 % 119 410 25
40 % 119 410 35
30 % 119 410 55
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 270 34
95 % 97 270 47
90 % 97 270 51
70 % 97 270 61
50 % 121 397 33
40 % 121 397 46
30 % 134 498 36
Entity #14 | Chains: N
30S ribosomal protein S14 type Z protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 268 37
95 % 97 268 55
90 % 97 268 58
70 % 97 270 62
50 % 97 270 90
40 % 97 270 112
30 % 97 270 123
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 272 30
95 % 101 277 39
90 % 101 277 43
70 % 101 277 55
50 % 126 405 27
40 % 126 408 36
30 % 126 408 56
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 264 39
95 % 97 269 52
90 % 97 269 55
70 % 97 269 66
50 % 97 271 89
40 % 97 271 110
30 % 121 393 64
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 20 87 246
95 % 97 263 56
90 % 97 267 59
70 % 97 267 70
50 % 97 267 94
40 % 97 267 115
30 % 97 267 127
Entity #18 | Chains: R
30S ribosomal protein S18 protein, length: 73 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 7 5517
95 % 11 37 834
90 % 11 37 864
70 % 11 37 900
50 % 11 37 947
40 % 11 37 966
30 % 11 37 946
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 98 272 29
95 % 98 272 43
90 % 98 272 48
70 % 98 272 58
50 % 120 397 30
40 % 120 400 41
30 % 120 400 58
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 234 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 269 32
95 % 97 270 44
90 % 97 270 49
70 % 97 270 59
50 % 119 391 34
40 % 119 394 45
30 % 119 394 62
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 99 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 9 51 487
95 % 97 268 53
90 % 97 268 56
70 % 97 268 68
50 % 97 268 92
40 % 97 268 113
30 % 97 268 124
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 259 43
95 % 97 259 59
90 % 97 259 63
70 % 97 259 75
50 % 97 259 97
40 % 97 259 120
30 % 97 259 130
Entity #22 | Chains: W
mRNA A-site fragment rna, length: 6 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #23 | Chains: X
tRNA ASL human mitochondrial Met rna, length: 17 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #3 | Chains: C
30S ribosomal protein S3 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 11 36 641
95 % 11 36 868
90 % 11 36 900
70 % 11 36 929
50 % 29 87 372
40 % 29 90 382
30 % 29 90 383
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 262 40
95 % 97 270 45
90 % 97 270 50
70 % 97 270 60
50 % 119 393 32
40 % 119 396 43
30 % 119 396 61
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 269 35
95 % 97 269 49
90 % 97 269 52
70 % 97 269 63
50 % 120 397 31
40 % 120 397 44
30 % 120 399 59
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 99 274 27
95 % 105 280 36
90 % 105 280 41
70 % 105 280 52
50 % 105 280 87
40 % 105 280 106
30 % 125 334 90
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 98 273 28
95 % 98 274 41
90 % 98 274 45
70 % 98 274 56
50 % 119 338 71
40 % 119 341 79
30 % 119 341 93
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 98 269 33
95 % 98 269 46
90 % 98 273 46
70 % 98 273 57
50 % 122 398 29
40 % 123 402 38
30 % 137 510 30
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 13 91 211
95 % 97 269 51
90 % 97 269 54
70 % 97 269 65
50 % 119 392 36
40 % 119 392 47
30 % 132 497 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.