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 % 92 254 36
95 % 92 255 49
90 % 92 255 54
70 % 92 255 64
50 % 119 362 28
40 % 119 362 38
30 % 132 436 36
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 256 34
95 % 92 256 45
90 % 92 256 50
70 % 92 256 59
50 % 113 356 35
40 % 128 438 20
30 % 128 439 34
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 208 46
95 % 92 263 36
90 % 92 263 41
70 % 113 367 22
50 % 113 368 27
40 % 113 368 37
30 % 113 368 57
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 257 32
95 % 92 257 43
90 % 92 257 48
70 % 92 257 57
50 % 114 361 32
40 % 114 361 43
30 % 127 437 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 % 92 255 35
95 % 92 255 50
90 % 92 255 55
70 % 92 256 62
50 % 92 256 88
40 % 92 256 108
30 % 92 256 120
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 259 29
95 % 96 264 35
90 % 96 264 40
70 % 96 264 50
50 % 120 369 26
40 % 120 370 36
30 % 120 370 56
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 251 37
95 % 92 256 47
90 % 92 256 52
70 % 92 256 61
50 % 92 256 87
40 % 92 257 107
30 % 114 359 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 87 225
95 % 92 250 51
90 % 92 254 56
70 % 92 254 66
50 % 92 254 90
40 % 92 254 111
30 % 92 254 123
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 5151
95 % 9 37 749
90 % 9 37 786
70 % 9 37 837
50 % 9 37 876
40 % 9 37 904
30 % 9 37 896
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 259 27
95 % 93 259 38
90 % 93 259 44
70 % 93 259 53
50 % 114 359 31
40 % 114 359 41
30 % 114 359 59
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 234 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 256 30
95 % 92 257 39
90 % 92 257 45
70 % 92 257 54
50 % 113 355 34
40 % 113 356 44
30 % 113 356 62
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 99 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 8 51 384
95 % 92 255 48
90 % 92 255 53
70 % 92 255 63
50 % 92 255 89
40 % 92 255 110
30 % 92 255 122
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 246 39
95 % 92 246 54
90 % 92 246 59
70 % 92 246 69
50 % 92 246 95
40 % 92 246 118
30 % 92 246 131
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 36 563
95 % 9 36 781
90 % 9 36 818
70 % 9 36 861
50 % 26 79 343
40 % 26 80 371
30 % 26 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 % 92 249 38
95 % 92 257 40
90 % 92 257 46
70 % 92 257 55
50 % 113 356 33
40 % 113 357 42
30 % 113 357 61
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 256 33
95 % 92 256 44
90 % 92 256 49
70 % 92 256 58
50 % 114 360 30
40 % 114 360 40
30 % 114 362 58
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 94 261 25
95 % 100 267 34
90 % 100 267 37
70 % 100 267 46
50 % 100 267 84
40 % 100 267 103
30 % 119 313 77
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 260 26
95 % 93 261 37
90 % 93 261 42
70 % 93 261 51
50 % 112 313 54
40 % 112 314 68
30 % 112 314 89
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 256 31
95 % 93 256 42
90 % 93 260 43
70 % 93 260 52
50 % 116 362 29
40 % 117 364 39
30 % 131 443 33
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 12 91 198
95 % 92 256 46
90 % 92 256 51
70 % 92 256 60
50 % 113 356 36
40 % 113 356 46
30 % 126 433 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.