4DR6

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


Sequence Similarity Clusters for the Entities in PDB 4DR6

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 % 22 254 36
95 % 22 255 49
90 % 22 255 54
70 % 22 255 64
50 % 34 366 28
40 % 34 366 38
30 % 36 440 36
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 256 34
95 % 22 256 45
90 % 22 256 50
70 % 22 256 59
50 % 28 360 35
40 % 32 442 20
30 % 32 443 33
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 9 47 513
95 % 22 263 36
90 % 22 263 41
70 % 28 371 21
50 % 28 372 27
40 % 28 372 37
30 % 28 372 57
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 257 32
95 % 22 257 43
90 % 22 257 48
70 % 22 257 57
50 % 28 365 32
40 % 28 365 44
30 % 30 441 39
Entity #14 | Chains: N
30S ribosomal protein S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 255 35
95 % 22 255 50
90 % 22 255 55
70 % 22 256 62
50 % 22 256 88
40 % 22 256 108
30 % 22 256 120
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 259 29
95 % 22 264 35
90 % 22 264 40
70 % 22 264 50
50 % 31 373 26
40 % 31 374 36
30 % 31 374 56
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 251 37
95 % 22 256 47
90 % 22 256 52
70 % 22 256 61
50 % 22 256 87
40 % 22 257 107
30 % 28 363 63
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 87 225
95 % 22 250 51
90 % 22 254 56
70 % 22 254 66
50 % 22 254 90
40 % 22 254 112
30 % 22 254 124
Entity #18 | Chains: R
30S ribosomal protein S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 20 170 57
95 % 20 221 64
90 % 20 221 69
70 % 20 221 79
50 % 20 221 111
40 % 20 221 132
30 % 20 221 143
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 23 259 27
95 % 23 259 38
90 % 23 259 44
70 % 23 259 53
50 % 29 363 31
40 % 29 363 42
30 % 29 363 59
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 256 30
95 % 22 257 39
90 % 22 257 45
70 % 22 257 54
50 % 28 359 34
40 % 28 360 45
30 % 28 360 61
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 204 48
95 % 22 255 48
90 % 22 255 53
70 % 22 255 63
50 % 22 255 89
40 % 22 255 111
30 % 22 255 123
Entity #21 | Chains: U
30S ribosomal protein THX protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 246 39
95 % 22 246 54
90 % 22 246 59
70 % 22 246 69
50 % 22 246 96
40 % 22 246 119
30 % 22 246 133
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(P*UP*UP*GP*AP*GP*GP*(PSU)P*GP*G)-3' rna, length: 9 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #24 | Chains: a
5'-R(P*CP*UP*UP*GP*AP*GP*GP*(PSU)P*GP*GP*U)-3' rna, length: 11 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #25 | Chains: b
5'-R(*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 % 20 220 45
95 % 20 220 65
90 % 20 220 70
70 % 20 220 80
50 % 21 280 77
40 % 21 280 99
30 % 21 280 112
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 249 38
95 % 22 257 40
90 % 22 257 46
70 % 22 257 55
50 % 28 360 33
40 % 28 361 43
30 % 28 361 60
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 256 33
95 % 22 256 44
90 % 22 256 49
70 % 22 256 58
50 % 28 364 30
40 % 28 364 41
30 % 28 366 58
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 23 261 25
95 % 29 267 34
90 % 29 267 37
70 % 29 267 46
50 % 29 267 84
40 % 29 267 103
30 % 36 313 82
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 23 260 26
95 % 23 261 37
90 % 23 261 42
70 % 23 261 51
50 % 29 313 56
40 % 29 314 74
30 % 29 314 95
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 23 256 31
95 % 23 256 42
90 % 23 260 43
70 % 23 260 52
50 % 30 366 29
40 % 31 368 39
30 % 34 447 31
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 22 165 73
95 % 22 256 46
90 % 22 256 51
70 % 22 256 60
50 % 28 360 36
40 % 28 360 46
30 % 30 437 40

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.