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 % 90 254 36
95 % 90 255 49
90 % 90 255 54
70 % 90 255 64
50 % 117 366 28
40 % 117 366 38
30 % 130 440 36
Entity #11 | Chains: K
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 90 256 34
95 % 90 256 45
90 % 90 256 50
70 % 90 256 59
50 % 111 360 35
40 % 126 442 20
30 % 126 443 33
Entity #12 | Chains: L
30S ribosomal protein S12 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 26 47 513
95 % 90 263 36
90 % 90 263 41
70 % 111 371 21
50 % 111 372 27
40 % 111 372 37
30 % 111 372 57
Entity #13 | Chains: M
30S ribosomal protein S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 90 257 32
95 % 90 257 43
90 % 90 257 48
70 % 90 257 57
50 % 112 365 32
40 % 112 365 44
30 % 125 441 39
Entity #14 | Chains: N
30S ribosomal protein S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 90 255 35
95 % 90 255 50
90 % 90 255 55
70 % 90 256 62
50 % 90 256 88
40 % 90 256 108
30 % 90 256 120
Entity #15 | Chains: O
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 90 259 29
95 % 94 264 35
90 % 94 264 40
70 % 94 264 50
50 % 118 373 26
40 % 118 374 36
30 % 118 374 56
Entity #16 | Chains: P
30S ribosomal protein S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 90 251 37
95 % 90 256 47
90 % 90 256 52
70 % 90 256 61
50 % 90 256 87
40 % 90 257 107
30 % 112 363 63
Entity #17 | Chains: Q
30S ribosomal protein S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 16 87 225
95 % 90 250 51
90 % 90 254 56
70 % 90 254 66
50 % 90 254 90
40 % 90 254 112
30 % 90 254 124
Entity #18 | Chains: R
30S ribosomal protein S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 77 170 57
95 % 83 221 64
90 % 83 221 69
70 % 83 221 79
50 % 83 221 111
40 % 83 221 132
30 % 83 221 143
Entity #19 | Chains: S
30S ribosomal protein S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 259 27
95 % 91 259 38
90 % 91 259 44
70 % 91 259 53
50 % 112 363 31
40 % 112 363 42
30 % 112 363 59
Entity #2 | Chains: B
30S ribosomal protein S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 90 256 30
95 % 90 257 39
90 % 90 257 45
70 % 90 257 54
50 % 111 359 34
40 % 111 360 45
30 % 111 360 61
Entity #20 | Chains: T
30S ribosomal protein S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 84 204 48
95 % 90 255 48
90 % 90 255 53
70 % 90 255 63
50 % 90 255 89
40 % 90 255 111
30 % 90 255 123
Entity #21 | Chains: U
30S ribosomal protein THX protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 90 246 39
95 % 90 246 54
90 % 90 246 59
70 % 90 246 69
50 % 90 246 96
40 % 90 246 119
30 % 90 246 133
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(*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 % 82 220 45
95 % 82 220 65
90 % 82 220 70
70 % 82 220 80
50 % 86 280 77
40 % 86 280 99
30 % 86 280 112
Entity #4 | Chains: D
30S ribosomal protein S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 90 249 38
95 % 90 257 40
90 % 90 257 46
70 % 90 257 55
50 % 111 360 33
40 % 111 361 43
30 % 111 361 60
Entity #5 | Chains: E
30S ribosomal protein S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 90 256 33
95 % 90 256 44
90 % 90 256 49
70 % 90 256 58
50 % 112 364 30
40 % 112 364 41
30 % 112 366 58
Entity #6 | Chains: F
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 261 25
95 % 98 267 34
90 % 98 267 37
70 % 98 267 46
50 % 98 267 84
40 % 98 267 103
30 % 117 313 82
Entity #7 | Chains: G
30S ribosomal protein S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 260 26
95 % 91 261 37
90 % 91 261 42
70 % 91 261 51
50 % 110 313 56
40 % 110 314 74
30 % 110 314 95
Entity #8 | Chains: H
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 256 31
95 % 91 256 42
90 % 91 260 43
70 % 91 260 52
50 % 114 366 29
40 % 115 368 39
30 % 129 447 31
Entity #9 | Chains: I
30S ribosomal protein S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 165 73
95 % 90 256 46
90 % 90 256 51
70 % 90 256 60
50 % 111 360 36
40 % 111 360 46
30 % 124 437 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.