4DR7

Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with codon, crystallographically disordered near-cognate transfer RNA anticodon stem-loop mismatched at the second codon position, and streptomycin bound


Sequence Similarity Clusters for the Entities in PDB 4DR7

Entity #1 | Chains: A
16S rRNA rna, length: 1522 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: J
30S ribosomal protein S10 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 337 36
95 % 109 338 57
90 % 109 338 63
70 % 109 338 74
50 % 132 573 25
40 % 132 573 32
30 % 132 611 30
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 339 31
95 % 109 339 52
90 % 109 339 58
70 % 109 339 68
50 % 131 567 28
40 % 131 567 36
30 % 131 567 41
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 23 55 800
95 % 109 346 44
90 % 109 346 49
70 % 132 571 16
50 % 132 590 22
40 % 132 590 27
30 % 132 590 32
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 340 30
95 % 109 340 49
90 % 109 340 56
70 % 109 340 66
50 % 132 573 26
40 % 132 576 33
30 % 132 576 38
Entity #14 | Chains: N
30S ribosomal protein S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 338 35
95 % 109 338 56
90 % 109 338 62
70 % 109 359 56
50 % 109 359 89
40 % 109 359 106
30 % 109 359 108
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 342 27
95 % 113 347 42
90 % 113 347 47
70 % 113 347 59
50 % 138 585 23
40 % 138 585 29
30 % 138 585 34
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 334 37
95 % 109 339 55
90 % 109 339 60
70 % 109 339 70
50 % 109 339 93
40 % 109 339 111
30 % 109 339 115
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 16 101 348
95 % 109 332 60
90 % 109 336 66
70 % 109 336 77
50 % 109 336 96
40 % 109 336 115
30 % 109 336 120
Entity #18 | Chains: R
30S ribosomal protein S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 229 62
95 % 98 283 74
90 % 98 283 81
70 % 98 283 93
50 % 98 283 111
40 % 98 283 132
30 % 98 283 142
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 102 297 46
95 % 102 297 66
90 % 102 297 73
70 % 110 342 62
50 % 132 574 24
40 % 132 574 31
30 % 132 574 37
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 338 33
95 % 109 340 47
90 % 109 340 54
70 % 109 340 64
50 % 131 565 29
40 % 131 571 34
30 % 131 571 39
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 103 282 49
95 % 109 338 58
90 % 109 338 64
70 % 109 338 72
50 % 109 338 95
40 % 109 338 113
30 % 109 338 117
Entity #21 | Chains: U
30S ribosomal protein THX protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 100 296 47
95 % 100 296 67
90 % 100 296 76
70 % 100 296 87
50 % 100 296 107
40 % 100 296 129
30 % 100 296 137
Entity #22 | Chains: V
5'-R(*UP*UP*UP*U)-3' rna, length: 4 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #23 | Chains: W
5'-R(*GP*CP*CP*UP*GP*GP*AP*AP*AP*GP*(PSU))-3' rna, length: 11 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #24 | Chains: a
5'-R(P*UP*GP*GP*AP*AP*AP*GP*(PSU))-3' rna, length: 8 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #25 | Chains: b
5'-R(P*UP*UP*U)-3' rna, length: 3 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #3 | Chains: C
30S ribosomal protein S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 97 283 50
95 % 97 283 73
90 % 97 283 80
70 % 97 283 92
50 % 101 373 86
40 % 101 373 104
30 % 101 373 106
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 332 38
95 % 109 340 48
90 % 109 340 55
70 % 109 340 65
50 % 131 549 32
40 % 131 579 30
30 % 131 579 36
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 109 339 34
95 % 109 339 54
90 % 109 339 59
70 % 109 339 69
50 % 132 569 27
40 % 132 569 35
30 % 132 569 40
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 111 344 25
95 % 119 352 41
90 % 119 352 46
70 % 119 352 57
50 % 119 352 92
40 % 119 352 108
30 % 119 352 110
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 110 343 26
95 % 110 344 45
90 % 110 344 50
70 % 110 342 63
50 % 131 500 52
40 % 131 506 68
30 % 131 506 71
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 110 339 29
95 % 110 339 50
90 % 110 343 51
70 % 110 343 61
50 % 111 368 88
40 % 134 584 28
30 % 134 584 33
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 99 238 63
95 % 109 339 51
90 % 109 339 57
70 % 109 339 67
50 % 131 562 30
40 % 131 562 37
30 % 131 562 42

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.

You can also use the structure comparison tool to compare any 2 given structures