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 % 95 269 39
95 % 95 270 53
90 % 95 270 58
70 % 95 270 68
50 % 122 421 26
40 % 122 421 38
30 % 136 528 32
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 271 35
95 % 95 271 49
90 % 95 271 54
70 % 95 271 64
50 % 116 415 32
40 % 132 537 19
30 % 132 537 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 51
95 % 95 278 39
90 % 95 278 44
70 % 116 422 19
50 % 116 432 24
40 % 116 432 35
30 % 116 432 55
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 272 33
95 % 95 272 46
90 % 95 272 51
70 % 95 272 62
50 % 117 419 31
40 % 117 419 43
30 % 131 527 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 % 95 270 36
95 % 95 270 54
90 % 95 270 59
70 % 95 279 54
50 % 95 279 90
40 % 95 279 113
30 % 95 279 123
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 274 30
95 % 99 279 38
90 % 99 279 43
70 % 99 279 53
50 % 123 428 25
40 % 123 433 34
30 % 123 433 54
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 266 41
95 % 95 271 51
90 % 95 271 56
70 % 95 271 66
50 % 95 278 91
40 % 95 278 114
30 % 117 413 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 87 258
95 % 95 265 56
90 % 95 269 60
70 % 95 269 69
50 % 95 269 94
40 % 95 269 117
30 % 95 269 128
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 5778
95 % 9 37 861
90 % 9 37 892
70 % 9 37 927
50 % 9 37 983
40 % 9 37 1006
30 % 9 37 977
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 274 29
95 % 96 274 42
90 % 96 274 48
70 % 96 274 58
50 % 117 421 28
40 % 117 424 40
30 % 117 424 57
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 234 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 271 31
95 % 95 272 43
90 % 95 272 49
70 % 95 272 59
50 % 116 409 36
40 % 116 414 45
30 % 116 414 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 51 524
95 % 95 270 52
90 % 95 270 57
70 % 95 270 67
50 % 95 270 93
40 % 95 270 116
30 % 95 270 127
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 261 43
95 % 95 261 59
90 % 95 261 63
70 % 95 261 74
50 % 95 261 98
40 % 95 261 121
30 % 95 261 133
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 % 9 36 660
95 % 9 36 896
90 % 9 36 930
70 % 9 36 962
50 % 26 100 345
40 % 26 105 347
30 % 26 105 355
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 264 42
95 % 95 272 44
90 % 95 272 50
70 % 95 272 60
50 % 116 416 29
40 % 116 421 41
30 % 116 421 58
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 95 271 34
95 % 95 271 48
90 % 95 271 53
70 % 95 271 63
50 % 117 417 30
40 % 117 417 42
30 % 117 419 60
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 276 27
95 % 103 282 37
90 % 103 282 42
70 % 103 282 51
50 % 103 282 88
40 % 103 282 110
30 % 122 355 95
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 275 28
95 % 96 276 41
90 % 96 276 46
70 % 96 276 56
50 % 115 356 66
40 % 115 361 84
30 % 115 361 96
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 271 32
95 % 96 271 45
90 % 96 275 47
70 % 96 275 57
50 % 119 421 27
40 % 120 427 37
30 % 135 542 30
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 12 91 220
95 % 95 271 50
90 % 95 271 55
70 % 95 271 65
50 % 116 411 35
40 % 116 411 48
30 % 130 526 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.