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 % 96 254 36
95 % 96 255 49
90 % 96 255 54
70 % 96 255 64
50 % 124 366 28
40 % 124 366 38
30 % 137 440 36
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 256 34
95 % 96 256 45
90 % 96 256 50
70 % 96 256 59
50 % 118 360 35
40 % 133 442 20
30 % 133 443 33
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 61 208 46
95 % 96 263 36
90 % 96 263 41
70 % 118 371 21
50 % 118 372 27
40 % 118 372 37
30 % 118 372 57
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 257 32
95 % 96 257 43
90 % 96 257 48
70 % 96 257 57
50 % 120 365 32
40 % 120 365 44
30 % 133 441 39
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 % 96 255 35
95 % 96 255 50
90 % 96 255 55
70 % 96 256 62
50 % 96 256 88
40 % 96 256 108
30 % 96 256 120
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 259 29
95 % 100 264 35
90 % 100 264 40
70 % 100 264 50
50 % 125 373 26
40 % 125 374 36
30 % 125 374 56
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 251 37
95 % 96 256 47
90 % 96 256 52
70 % 96 256 61
50 % 96 256 87
40 % 96 257 107
30 % 120 363 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 87 225
95 % 96 250 51
90 % 96 254 56
70 % 96 254 66
50 % 96 254 90
40 % 96 254 112
30 % 96 254 124
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 5165
95 % 11 37 749
90 % 11 37 786
70 % 11 37 837
50 % 11 37 876
40 % 11 37 905
30 % 11 37 898
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 259 27
95 % 97 259 38
90 % 97 259 44
70 % 97 259 53
50 % 119 363 31
40 % 119 363 42
30 % 119 363 59
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 234 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 256 30
95 % 96 257 39
90 % 96 257 45
70 % 96 257 54
50 % 118 359 34
40 % 118 360 45
30 % 118 360 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 51 384
95 % 96 255 48
90 % 96 255 53
70 % 96 255 63
50 % 96 255 89
40 % 96 255 111
30 % 96 255 123
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 246 39
95 % 96 246 54
90 % 96 246 59
70 % 96 246 69
50 % 96 246 96
40 % 96 246 119
30 % 96 246 133
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 36 563
95 % 11 36 781
90 % 11 36 818
70 % 11 36 861
50 % 29 79 343
40 % 29 80 371
30 % 29 80 377
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 249 38
95 % 96 257 40
90 % 96 257 46
70 % 96 257 55
50 % 118 360 33
40 % 118 361 43
30 % 118 361 60
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 256 33
95 % 96 256 44
90 % 96 256 49
70 % 96 256 58
50 % 119 364 30
40 % 119 364 41
30 % 119 366 58
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 98 261 25
95 % 104 267 34
90 % 104 267 37
70 % 104 267 46
50 % 104 267 84
40 % 104 267 103
30 % 124 313 82
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 260 26
95 % 97 261 37
90 % 97 261 42
70 % 97 261 51
50 % 118 313 56
40 % 118 314 74
30 % 118 314 95
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 256 31
95 % 97 256 42
90 % 97 260 43
70 % 97 260 52
50 % 121 366 29
40 % 122 368 39
30 % 136 447 31
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 13 91 198
95 % 96 256 46
90 % 96 256 51
70 % 96 256 60
50 % 118 360 36
40 % 118 360 46
30 % 131 437 40

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.