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 37
95 % 97 268 51
90 % 97 268 54
70 % 97 268 65
50 % 125 394 25
40 % 125 394 37
30 % 138 490 29
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 35
95 % 97 269 47
90 % 97 269 50
70 % 97 269 60
50 % 119 388 34
40 % 134 487 18
30 % 134 487 31
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 48
95 % 97 276 36
90 % 97 276 40
70 % 119 401 20
50 % 119 403 23
40 % 119 403 34
30 % 119 403 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 33
95 % 97 270 44
90 % 97 270 48
70 % 97 270 57
50 % 121 393 32
40 % 121 393 44
30 % 134 491 32
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 36
95 % 97 268 52
90 % 97 268 55
70 % 97 270 58
50 % 97 270 87
40 % 97 270 108
30 % 97 270 120
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 28
95 % 101 277 35
90 % 101 277 39
70 % 101 277 50
50 % 126 401 24
40 % 126 404 33
30 % 126 404 54
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 38
95 % 97 269 49
90 % 97 269 52
70 % 97 269 62
50 % 97 271 86
40 % 97 271 106
30 % 121 389 63
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 20 87 234
95 % 97 263 53
90 % 97 267 56
70 % 97 267 66
50 % 97 267 90
40 % 97 267 111
30 % 97 267 123
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 5360
95 % 11 37 790
90 % 11 37 822
70 % 11 37 866
50 % 11 37 911
40 % 11 37 934
30 % 11 37 922
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 27
95 % 98 272 40
90 % 98 272 45
70 % 98 272 54
50 % 120 393 28
40 % 120 393 39
30 % 120 393 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 31
95 % 97 270 41
90 % 97 270 46
70 % 97 270 55
50 % 119 387 33
40 % 119 390 42
30 % 119 390 61
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 99 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 9 51 460
95 % 97 268 50
90 % 97 268 53
70 % 97 268 64
50 % 97 268 89
40 % 97 268 110
30 % 97 268 122
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 41
95 % 97 259 56
90 % 97 259 59
70 % 97 259 69
50 % 97 259 94
40 % 97 259 116
30 % 97 259 129
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 36 597
95 % 11 36 823
90 % 11 36 859
70 % 11 36 894
50 % 29 87 338
40 % 29 90 354
30 % 29 90 358
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 39
95 % 97 270 42
90 % 97 270 47
70 % 97 270 56
50 % 119 389 31
40 % 119 392 40
30 % 119 392 60
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 34
95 % 97 269 46
90 % 97 269 49
70 % 97 269 59
50 % 120 393 29
40 % 120 393 41
30 % 120 395 57
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 24
95 % 105 280 33
90 % 105 280 38
70 % 105 280 49
50 % 105 280 83
40 % 105 280 102
30 % 125 334 87
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 26
95 % 98 274 37
90 % 98 274 41
70 % 98 274 51
50 % 119 336 65
40 % 119 339 75
30 % 119 339 89
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 32
95 % 98 269 43
90 % 98 273 42
70 % 98 273 52
50 % 122 394 26
40 % 123 398 36
30 % 137 500 28
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 13 91 202
95 % 97 269 48
90 % 97 269 51
70 % 97 269 61
50 % 119 388 35
40 % 119 388 45
30 % 132 488 33

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.