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 % 92 252 35
95 % 92 253 47
90 % 92 253 52
70 % 92 253 62
50 % 112 348 28
40 % 112 348 38
30 % 125 418 37
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 254 33
95 % 92 254 43
90 % 92 254 48
70 % 92 254 57
50 % 106 342 36
40 % 121 419 22
30 % 121 420 35
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 206 44
95 % 92 261 35
90 % 92 261 39
70 % 106 353 23
50 % 106 354 27
40 % 106 354 37
30 % 106 354 56
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 255 30
95 % 92 255 41
90 % 92 255 46
70 % 92 255 55
50 % 107 347 33
40 % 107 347 45
30 % 120 419 42
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 % 92 253 34
95 % 92 253 48
90 % 92 253 53
70 % 92 254 60
50 % 92 254 86
40 % 92 254 106
30 % 92 254 118
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 257 27
95 % 96 262 33
90 % 96 262 37
70 % 96 262 48
50 % 113 355 26
40 % 113 356 36
30 % 113 356 55
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 249 36
95 % 92 254 45
90 % 92 254 50
70 % 92 254 59
50 % 92 254 85
40 % 92 255 105
30 % 107 345 62
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 18 87 221
95 % 92 248 50
90 % 92 252 54
70 % 92 252 63
50 % 92 252 88
40 % 92 252 108
30 % 92 252 120
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 4973
95 % 9 37 686
90 % 9 37 723
70 % 9 37 768
50 % 9 37 833
40 % 9 37 869
30 % 9 37 860
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 257 26
95 % 93 257 37
90 % 93 257 43
70 % 93 257 52
50 % 107 345 31
40 % 107 345 42
30 % 107 345 59
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 234 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 254 28
95 % 92 255 38
90 % 92 255 44
70 % 92 255 53
50 % 106 341 35
40 % 106 342 46
30 % 106 342 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 51 366
95 % 92 253 46
90 % 92 253 51
70 % 92 253 61
50 % 92 253 87
40 % 92 253 107
30 % 92 253 119
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 244 38
95 % 92 244 54
90 % 92 244 57
70 % 92 244 67
50 % 92 244 91
40 % 92 244 113
30 % 92 244 126
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 36 496
95 % 9 36 721
90 % 9 36 767
70 % 9 36 806
50 % 19 72 378
40 % 19 73 396
30 % 19 73 404
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 247 37
95 % 92 255 39
90 % 92 255 45
70 % 92 255 54
50 % 106 342 34
40 % 106 343 44
30 % 106 343 60
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 254 32
95 % 92 254 42
90 % 92 254 47
70 % 92 254 56
50 % 107 346 30
40 % 107 346 41
30 % 107 348 57
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 94 259 24
95 % 100 265 21
90 % 100 265 24
70 % 100 265 32
50 % 100 265 79
40 % 100 265 100
30 % 112 304 78
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 258 25
95 % 93 259 36
90 % 93 259 41
70 % 93 259 50
50 % 105 304 51
40 % 105 305 63
30 % 105 305 86
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 254 29
95 % 93 254 40
90 % 93 258 42
70 % 93 258 51
50 % 109 348 29
40 % 110 350 39
30 % 124 423 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 91 192
95 % 92 254 44
90 % 92 254 49
70 % 92 254 58
50 % 106 342 37
40 % 106 342 47
30 % 119 414 44

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.