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 % 80 237 25
95 % 80 238 38
90 % 80 238 43
70 % 80 238 53
50 % 100 330 30
40 % 100 330 40
30 % 113 396 41
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 239 23
95 % 80 239 34
90 % 80 239 39
70 % 80 239 48
50 % 94 324 38
40 % 109 397 27
30 % 109 398 39
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 49 194 42
95 % 80 246 22
90 % 80 246 27
70 % 94 335 23
50 % 94 336 29
40 % 94 336 39
30 % 94 336 56
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 240 20
95 % 80 240 32
90 % 80 240 37
70 % 80 240 46
50 % 95 329 35
40 % 95 329 46
30 % 108 397 46
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 % 80 238 24
95 % 80 238 39
90 % 80 238 44
70 % 80 239 51
50 % 80 239 82
40 % 80 239 108
30 % 80 239 124
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 242 16
95 % 84 247 21
90 % 84 247 26
70 % 84 247 37
50 % 101 337 27
40 % 101 338 38
30 % 101 338 54
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 234 26
95 % 80 239 36
90 % 80 239 41
70 % 80 239 50
50 % 80 239 81
40 % 80 240 106
30 % 95 327 65
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 18 84 225
95 % 80 233 40
90 % 80 237 45
70 % 80 237 54
50 % 80 237 87
40 % 80 237 113
30 % 80 237 128
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 4816
95 % 8 36 650
90 % 8 36 685
70 % 8 36 740
50 % 8 36 824
40 % 8 36 852
30 % 8 36 843
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 81 242 15
95 % 81 242 26
90 % 81 242 31
70 % 81 242 42
50 % 95 327 34
40 % 95 327 44
30 % 95 327 60
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 234 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 239 17
95 % 80 240 27
90 % 80 240 33
70 % 80 240 43
50 % 94 323 37
40 % 94 324 47
30 % 94 324 63
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 99 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 8 50 370
95 % 80 238 37
90 % 80 238 42
70 % 80 238 52
50 % 80 238 83
40 % 80 238 110
30 % 80 238 126
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 229 39
95 % 80 229 54
90 % 80 229 58
70 % 80 229 69
50 % 80 229 97
40 % 80 229 118
30 % 80 229 133
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 % 8 35 473
95 % 8 35 690
90 % 8 35 726
70 % 8 35 773
50 % 18 71 370
40 % 18 72 396
30 % 18 72 406
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 232 27
95 % 80 240 28
90 % 80 240 34
70 % 80 240 44
50 % 94 324 36
40 % 94 325 45
30 % 94 325 62
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 239 22
95 % 80 239 33
90 % 80 239 38
70 % 80 239 47
50 % 95 328 33
40 % 95 328 43
30 % 95 330 59
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 82 244 13
95 % 88 250 20
90 % 88 250 25
70 % 88 250 35
50 % 88 250 70
40 % 88 250 94
30 % 100 289 80
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 81 243 14
95 % 81 244 25
90 % 81 244 29
70 % 81 244 40
50 % 93 289 50
40 % 93 290 62
30 % 93 290 83
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 81 239 19
95 % 81 239 31
90 % 81 243 30
70 % 81 243 41
50 % 97 330 31
40 % 98 332 41
30 % 112 401 37
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 12 90 190
95 % 80 239 35
90 % 80 239 40
70 % 80 239 49
50 % 94 324 39
40 % 94 324 49
30 % 107 392 47

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.