4GKK

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 AUA-codon in the A-site and paromomycin


Sequence Similarity Clusters for the Entities in PDB 4GKK

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 % 93 267 37
95 % 93 268 51
90 % 93 268 54
70 % 93 268 65
50 % 120 395 25
40 % 120 395 37
30 % 133 494 30
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 269 35
95 % 93 269 47
90 % 93 269 50
70 % 93 269 60
50 % 114 389 34
40 % 129 491 18
30 % 129 491 31
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 217 48
95 % 93 276 36
90 % 93 276 40
70 % 114 402 20
50 % 114 407 23
40 % 114 407 33
30 % 114 407 54
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 270 33
95 % 93 270 44
90 % 93 270 48
70 % 93 270 57
50 % 115 394 31
40 % 115 394 43
30 % 128 495 33
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 % 93 268 36
95 % 93 268 52
90 % 93 268 55
70 % 93 270 58
50 % 93 270 87
40 % 93 270 108
30 % 93 270 120
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 272 29
95 % 97 277 35
90 % 97 277 39
70 % 97 277 50
50 % 121 402 24
40 % 121 405 34
30 % 121 405 55
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 264 38
95 % 93 269 49
90 % 93 269 52
70 % 93 269 62
50 % 93 271 86
40 % 93 271 106
30 % 115 390 63
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 18 87 235
95 % 93 263 53
90 % 93 267 56
70 % 93 267 66
50 % 93 267 90
40 % 93 267 111
30 % 93 267 123
Entity #18 | Chains: R
30S ribosomal protein S18 protein, length: 73 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 7 5393
95 % 9 37 804
90 % 9 37 834
70 % 9 37 878
50 % 9 37 924
40 % 9 37 947
30 % 9 37 935
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 94 272 28
95 % 94 272 40
90 % 94 272 45
70 % 94 272 54
50 % 115 394 28
40 % 115 397 39
30 % 115 397 56
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 234 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 269 31
95 % 93 270 41
90 % 93 270 46
70 % 93 270 55
50 % 114 388 33
40 % 114 391 42
30 % 114 391 61
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 99 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 8 51 465
95 % 93 268 50
90 % 93 268 53
70 % 93 268 64
50 % 93 268 89
40 % 93 268 110
30 % 93 268 122
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 259 42
95 % 93 259 56
90 % 93 259 60
70 % 93 259 69
50 % 93 259 94
40 % 93 259 116
30 % 93 259 129
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 % 9 36 608
95 % 9 36 838
90 % 9 36 872
70 % 9 36 906
50 % 26 87 360
40 % 26 90 369
30 % 26 90 369
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 262 39
95 % 93 270 42
90 % 93 270 47
70 % 93 270 56
50 % 114 390 30
40 % 114 393 40
30 % 114 393 59
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 269 34
95 % 93 269 46
90 % 93 269 49
70 % 93 269 59
50 % 115 394 29
40 % 115 394 41
30 % 115 396 58
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 274 26
95 % 101 280 33
90 % 101 280 38
70 % 101 280 49
50 % 101 280 84
40 % 101 280 103
30 % 120 334 88
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 94 273 27
95 % 94 274 38
90 % 94 274 42
70 % 94 274 52
50 % 113 336 65
40 % 113 339 76
30 % 113 339 91
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 94 269 32
95 % 94 269 43
90 % 94 273 43
70 % 94 273 53
50 % 117 395 26
40 % 118 399 35
30 % 132 504 28
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 12 91 204
95 % 93 269 48
90 % 93 269 51
70 % 93 269 61
50 % 114 389 35
40 % 114 389 45
30 % 127 492 34

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.