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 % 92 253 35
95 % 92 254 48
90 % 92 254 53
70 % 92 254 63
50 % 119 359 28
40 % 119 359 38
30 % 132 432 35
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 119 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 255 33
95 % 92 255 43
90 % 92 255 48
70 % 92 255 57
50 % 113 353 35
40 % 128 434 20
30 % 128 435 33
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 59 207 46
95 % 92 262 35
90 % 92 262 40
70 % 113 364 22
50 % 113 365 27
40 % 113 365 37
30 % 113 365 56
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 125 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 256 31
95 % 92 256 41
90 % 92 256 46
70 % 92 256 55
50 % 114 358 32
40 % 114 358 43
30 % 127 433 38
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 % 92 254 34
95 % 92 254 49
90 % 92 254 54
70 % 92 255 60
50 % 92 255 86
40 % 92 255 107
30 % 92 255 120
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 258 27
95 % 96 263 34
90 % 96 263 39
70 % 96 263 49
50 % 120 366 26
40 % 120 367 36
30 % 120 367 55
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 83 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 250 36
95 % 92 255 45
90 % 92 255 50
70 % 92 255 59
50 % 92 255 85
40 % 92 256 106
30 % 114 356 61
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 18 87 224
95 % 92 249 51
90 % 92 253 55
70 % 92 253 64
50 % 92 253 88
40 % 92 253 109
30 % 92 253 123
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 5058
95 % 9 37 718
90 % 9 37 760
70 % 9 37 804
50 % 9 37 849
40 % 9 37 882
30 % 9 37 873
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 258 26
95 % 93 258 37
90 % 93 258 43
70 % 93 258 52
50 % 114 356 31
40 % 114 356 41
30 % 114 356 58
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 234 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 255 28
95 % 92 256 38
90 % 92 256 44
70 % 92 256 53
50 % 113 352 34
40 % 113 353 44
30 % 113 353 60
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 99 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 8 51 373
95 % 92 254 47
90 % 92 254 52
70 % 92 254 62
50 % 92 254 87
40 % 92 254 108
30 % 92 254 121
Entity #21 | Chains: V
30S ribosomal protein Thx protein, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 245 38
95 % 92 245 53
90 % 92 245 58
70 % 92 245 68
50 % 92 245 93
40 % 92 245 117
30 % 92 245 131
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 36 535
95 % 9 36 753
90 % 9 36 793
70 % 9 36 836
50 % 26 79 336
40 % 26 80 360
30 % 26 80 374
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 248 37
95 % 92 256 39
90 % 92 256 45
70 % 92 256 54
50 % 113 353 33
40 % 113 354 42
30 % 113 354 59
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 255 32
95 % 92 255 42
90 % 92 255 47
70 % 92 255 56
50 % 114 357 30
40 % 114 357 40
30 % 114 359 57
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 94 260 24
95 % 100 266 33
90 % 100 266 36
70 % 100 266 45
50 % 100 266 83
40 % 100 266 102
30 % 119 312 77
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 259 25
95 % 93 260 36
90 % 93 260 41
70 % 93 260 50
50 % 112 312 52
40 % 112 313 64
30 % 112 313 85
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 255 30
95 % 93 255 40
90 % 93 259 42
70 % 93 259 51
50 % 116 359 29
40 % 117 361 39
30 % 131 438 32
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 127 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 12 91 197
95 % 92 255 44
90 % 92 255 49
70 % 92 255 58
50 % 113 353 36
40 % 113 353 45
30 % 126 429 39

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.