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 % 91 267 38
95 % 91 268 54
90 % 91 268 57
70 % 91 268 69
50 % 118 399 26
40 % 118 399 37
30 % 131 498 32
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 269 36
95 % 91 269 50
90 % 91 269 53
70 % 91 269 64
50 % 112 392 35
40 % 127 497 19
30 % 127 497 33
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 27 51 486
95 % 91 276 40
90 % 91 276 44
70 % 112 405 22
50 % 112 410 25
40 % 112 410 35
30 % 112 410 55
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 270 34
95 % 91 270 47
90 % 91 270 51
70 % 91 270 61
50 % 113 397 33
40 % 113 397 46
30 % 126 498 36
Entity #14 | Chains: N
30S ribosomal protein S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 268 37
95 % 91 268 55
90 % 91 268 58
70 % 91 270 62
50 % 91 270 90
40 % 91 270 112
30 % 91 270 123
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 272 30
95 % 95 277 39
90 % 95 277 43
70 % 95 277 55
50 % 119 405 27
40 % 119 408 36
30 % 119 408 56
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 264 39
95 % 91 269 52
90 % 91 269 55
70 % 91 269 66
50 % 91 271 89
40 % 91 271 110
30 % 113 393 64
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 16 87 246
95 % 91 263 56
90 % 91 267 59
70 % 91 267 70
50 % 91 267 94
40 % 91 267 115
30 % 91 267 127
Entity #18 | Chains: R
30S ribosomal protein S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 78 183 56
95 % 84 234 64
90 % 84 234 68
70 % 84 234 80
50 % 84 234 108
40 % 84 234 133
30 % 84 234 142
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 272 29
95 % 92 272 43
90 % 92 272 48
70 % 92 272 58
50 % 113 397 30
40 % 113 400 41
30 % 113 400 58
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 269 32
95 % 91 270 44
90 % 91 270 49
70 % 91 270 59
50 % 112 391 34
40 % 112 394 45
30 % 112 394 62
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 85 217 51
95 % 91 268 53
90 % 91 268 56
70 % 91 268 68
50 % 91 268 92
40 % 91 268 113
30 % 91 268 124
Entity #21 | Chains: U
30S ribosomal protein THX protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 259 43
95 % 91 259 59
90 % 91 259 63
70 % 91 259 75
50 % 91 259 97
40 % 91 259 120
30 % 91 259 130
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 % 83 233 47
95 % 83 233 65
90 % 83 233 69
70 % 83 233 81
50 % 87 305 84
40 % 87 305 102
30 % 87 305 113
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 262 40
95 % 91 270 45
90 % 91 270 50
70 % 91 270 60
50 % 112 393 32
40 % 112 396 43
30 % 112 396 61
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 269 35
95 % 91 269 49
90 % 91 269 52
70 % 91 269 63
50 % 113 397 31
40 % 113 397 44
30 % 113 399 59
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 274 27
95 % 99 280 36
90 % 99 280 41
70 % 99 280 52
50 % 99 280 87
40 % 99 280 106
30 % 118 334 90
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 273 28
95 % 92 274 41
90 % 92 274 45
70 % 92 274 56
50 % 111 338 71
40 % 111 341 79
30 % 111 341 93
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 269 33
95 % 92 269 46
90 % 92 273 46
70 % 92 273 57
50 % 115 398 29
40 % 116 402 38
30 % 130 510 30
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 81 178 68
95 % 91 269 51
90 % 91 269 54
70 % 91 269 65
50 % 112 392 36
40 % 112 392 47
30 % 125 497 35

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.