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 37
95 % 91 268 50
90 % 91 268 53
70 % 91 268 64
50 % 118 385 26
40 % 118 385 37
30 % 131 475 29
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 35
95 % 91 269 46
90 % 91 269 49
70 % 91 269 58
50 % 112 379 35
40 % 127 469 19
30 % 127 470 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 51 434
95 % 91 276 35
90 % 91 276 39
70 % 112 390 21
50 % 112 391 25
40 % 112 391 36
30 % 112 391 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 33
95 % 91 270 43
90 % 91 270 47
70 % 91 270 56
50 % 113 384 31
40 % 113 384 43
30 % 126 476 35
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 36
95 % 91 268 51
90 % 91 268 54
70 % 91 269 61
50 % 91 269 87
40 % 91 269 107
30 % 91 269 117
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 28
95 % 95 277 34
90 % 95 277 38
70 % 95 277 49
50 % 119 392 23
40 % 119 393 35
30 % 119 393 53
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 38
95 % 91 269 48
90 % 91 269 51
70 % 91 269 60
50 % 91 269 86
40 % 91 270 106
30 % 113 382 62
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 16 87 231
95 % 91 263 52
90 % 91 267 55
70 % 91 267 65
50 % 91 267 90
40 % 91 267 109
30 % 91 267 119
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 52
95 % 84 234 62
90 % 84 234 66
70 % 84 234 77
50 % 84 234 103
40 % 84 234 129
30 % 84 234 139
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 27
95 % 92 272 39
90 % 92 272 44
70 % 92 272 53
50 % 113 382 30
40 % 113 382 41
30 % 113 382 59
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 31
95 % 91 270 40
90 % 91 270 45
70 % 91 270 54
50 % 112 378 34
40 % 112 379 44
30 % 112 379 61
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 48
95 % 91 268 49
90 % 91 268 52
70 % 91 268 63
50 % 91 268 89
40 % 91 268 108
30 % 91 268 118
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 41
95 % 91 259 54
90 % 91 259 58
70 % 91 259 68
50 % 91 259 93
40 % 91 259 115
30 % 91 259 128
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 44
95 % 83 233 63
90 % 83 233 67
70 % 83 233 78
50 % 87 293 78
40 % 87 293 96
30 % 87 293 113
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 39
95 % 91 270 41
90 % 91 270 46
70 % 91 270 55
50 % 112 379 32
40 % 112 380 42
30 % 112 380 60
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 34
95 % 91 269 45
90 % 91 269 48
70 % 91 269 57
50 % 113 383 29
40 % 113 383 40
30 % 113 385 58
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 24
95 % 99 280 32
90 % 99 280 37
70 % 99 280 48
50 % 99 280 83
40 % 99 280 102
30 % 118 332 78
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 26
95 % 92 274 36
90 % 92 274 40
70 % 92 274 50
50 % 111 332 59
40 % 111 333 72
30 % 111 333 87
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 32
95 % 92 269 42
90 % 92 273 41
70 % 92 273 51
50 % 115 385 28
40 % 116 387 38
30 % 130 482 28
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 65
95 % 91 269 47
90 % 91 269 50
70 % 91 269 59
50 % 112 379 36
40 % 112 379 45
30 % 125 472 37

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.