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 % 92 245 34
95 % 92 246 47
90 % 92 246 52
70 % 92 246 63
50 % 113 340 29
40 % 113 340 39
30 % 126 406 41
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 247 32
95 % 92 247 43
90 % 92 247 48
70 % 92 247 57
50 % 107 334 37
40 % 122 407 27
30 % 122 408 40
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 57 200 45
95 % 92 254 35
90 % 92 254 40
70 % 107 345 23
50 % 107 346 28
40 % 107 346 38
30 % 107 346 57
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 248 30
95 % 92 248 41
90 % 92 248 46
70 % 92 248 55
50 % 109 339 34
40 % 109 339 46
30 % 122 407 44
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 % 92 246 33
95 % 92 246 48
90 % 92 246 53
70 % 92 247 60
50 % 92 247 85
40 % 92 247 107
30 % 92 247 119
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 250 27
95 % 96 255 33
90 % 96 255 38
70 % 96 255 48
50 % 114 347 27
40 % 114 348 37
30 % 114 348 56
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 242 35
95 % 92 247 45
90 % 92 247 50
70 % 92 247 59
50 % 92 247 84
40 % 92 248 105
30 % 109 337 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 84 229
95 % 92 241 49
90 % 92 245 54
70 % 92 245 64
50 % 92 245 87
40 % 92 245 109
30 % 92 245 121
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 4929
95 % 11 37 656
90 % 11 37 688
70 % 11 37 743
50 % 11 37 824
40 % 11 37 860
30 % 11 37 848
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 250 26
95 % 93 250 37
90 % 93 250 43
70 % 93 250 52
50 % 108 337 33
40 % 108 337 44
30 % 108 337 59
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 234 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 247 28
95 % 92 248 38
90 % 92 248 44
70 % 92 248 53
50 % 107 333 36
40 % 107 334 47
30 % 107 334 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 50 380
95 % 92 246 46
90 % 92 246 51
70 % 92 246 62
50 % 92 246 86
40 % 92 246 108
30 % 92 246 120
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 237 39
95 % 92 237 55
90 % 92 237 59
70 % 92 237 69
50 % 92 237 93
40 % 92 237 115
30 % 92 237 130
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 36 473
95 % 11 36 689
90 % 11 36 723
70 % 11 36 776
50 % 22 72 375
40 % 22 73 395
30 % 22 73 399
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 240 36
95 % 92 248 39
90 % 92 248 45
70 % 92 248 54
50 % 107 334 35
40 % 107 335 45
30 % 107 335 60
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 247 31
95 % 92 247 42
90 % 92 247 47
70 % 92 247 56
50 % 108 338 32
40 % 108 338 43
30 % 108 340 58
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 94 252 24
95 % 100 258 32
90 % 100 258 36
70 % 100 258 47
50 % 100 258 82
40 % 100 258 101
30 % 113 297 79
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 251 25
95 % 93 252 36
90 % 93 252 41
70 % 93 252 50
50 % 107 297 49
40 % 107 298 62
30 % 107 298 86
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 247 29
95 % 93 247 40
90 % 93 251 42
70 % 93 251 51
50 % 110 340 31
40 % 111 342 40
30 % 125 411 39
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 13 90 194
95 % 92 247 44
90 % 92 247 49
70 % 92 247 58
50 % 107 334 38
40 % 107 334 48
30 % 120 402 45

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.