1N32

Structure of the Thermus thermophilus 30S ribosomal subunit bound to codon and near-cognate transfer RNA anticodon stem-loop mismatched at the first codon position at the a site with paromomycin


Sequence Similarity Clusters for the Entities in PDB 1N32

Entity #1 | Chains: A
16S RIBOSOMAL RNA rna, length: 1522 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: H
30S RIBOSOMAL PROTEIN S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 134 316 34
95 % 134 316 49 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 134 320 50
70 % 134 320 60
50 % 162 501 23
40 % 182 663 21
30 % 182 663 35
Entity #11 | Chains: I
30S RIBOSOMAL PROTEIN S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 18 96 251
95 % 133 316 53 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 133 316 58
70 % 133 316 68
50 % 159 487 33
40 % 159 487 45
30 % 176 645 38
Entity #12 | Chains: J
30S RIBOSOMAL PROTEIN S10 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 133 315 38
95 % 133 315 55 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 1.1
PDBFlex
90 % 133 315 60
70 % 133 315 69
50 % 165 503 21
40 % 182 642 23
30 % 182 644 37
Entity #13 | Chains: K
30S RIBOSOMAL PROTEIN S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 133 316 36
95 % 133 316 52 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 133 316 57
70 % 133 316 67
50 % 159 496 29
40 % 178 646 22
30 % 178 646 36
Entity #14 | Chains: L
30S RIBOSOMAL PROTEIN S12 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 112 283 46
95 % 133 323 42 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 133 323 47
70 % 160 511 14
50 % 160 514 20
40 % 160 514 34
30 % 160 514 56
Entity #15 | Chains: M
30S RIBOSOMAL PROTEIN S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 133 317 33
95 % 133 317 48 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 133 317 54
70 % 133 317 63
50 % 162 500 27
40 % 162 500 38
30 % 179 647 39
Entity #16 | Chains: N
30S RIBOSOMAL PROTEIN S14 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 133 315 37
95 % 133 315 54 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.8
PDBFlex
90 % 133 315 59
70 % 133 322 58
50 % 133 333 91
40 % 133 333 108
30 % 133 333 121
Entity #17 | Chains: O
30S RIBOSOMAL PROTEIN S15 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 134 321 27
95 % 137 324 41 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 137 324 46
70 % 137 324 57
50 % 166 508 22
40 % 166 513 33
30 % 166 513 55
Entity #18 | Chains: P
30S RIBOSOMAL PROTEIN S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 133 311 39
95 % 133 316 50 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 133 316 55
70 % 133 316 64
50 % 133 328 93
40 % 162 493 43
30 % 162 493 62
Entity #19 | Chains: Q
30S RIBOSOMAL PROTEIN S17 protein, length: 104 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 9 40 942
95 % 133 313 57 Flexibility: Low
Max RMSD: 2.6, Avg RMSD: 0.7
PDBFlex
90 % 133 313 62
70 % 133 313 72
50 % 133 313 98
40 % 133 313 115
30 % 133 313 127
Entity #2 | Chains: Y
ANTICODON STEM-LOOP OF LEU-2 TRANSFER RNA rna, length: 17 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: R
30S RIBOSOMAL PROTEIN S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 116 255 55
95 % 116 263 70 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 0.9
PDBFlex
90 % 116 263 76
70 % 116 263 89
50 % 116 263 118
40 % 116 263 141
30 % 116 263 155
Entity #21 | Chains: S
30S RIBOSOMAL PROTEIN S19 protein, length: 92 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 134 319 30
95 % 134 319 44 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 134 319 51
70 % 160 496 15
50 % 160 502 24
40 % 160 505 35
30 % 160 505 57
Entity #22 | Chains: T
30S RIBOSOMAL PROTEIN S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 119 270 51
95 % 133 315 56 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 133 315 61
70 % 133 315 70
50 % 133 315 96
40 % 133 315 112
30 % 133 315 125
Entity #23 | Chains: V
30S RIBOSOMAL PROTEIN THX protein, length: 26 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 133 305 42
95 % 133 305 58 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 133 305 63
70 % 133 305 74
50 % 133 305 101
40 % 133 305 118
30 % 133 305 130
Entity #3 | Chains: Z
A-SITE MESSENGER RNA FRAGMENT rna, length: 6 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #4 | Chains: B
30S RIBOSOMAL PROTEIN S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 133 316 32
95 % 133 317 47 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.6
PDBFlex
90 % 133 317 53
70 % 133 317 62
50 % 159 482 34
40 % 159 488 44
30 % 159 488 63
Entity #5 | Chains: C
30S RIBOSOMAL PROTEIN S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 115 263 54
95 % 115 263 69 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 115 263 75
70 % 115 263 88
50 % 119 339 89
40 % 119 339 104
30 % 119 339 118
Entity #6 | Chains: D
30S RIBOSOMAL PROTEIN S4 protein, length: 208 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 133 317 31
95 % 133 317 46 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 133 317 52
70 % 133 317 61
50 % 159 496 26
40 % 159 502 36
30 % 159 502 58
Entity #7 | Chains: E
30S RIBOSOMAL PROTEIN S5 protein, length: 161 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 133 316 35
95 % 133 316 51 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 133 316 56
70 % 133 316 65
50 % 160 492 31
40 % 160 492 41
30 % 160 494 61
Entity #8 | Chains: F
30S RIBOSOMAL PROTEIN S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 135 321 28
95 % 141 327 39 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 0.9
PDBFlex
90 % 141 327 44
70 % 141 327 55
50 % 141 327 92
40 % 141 327 109
30 % 165 432 89
Entity #9 | Chains: G
30S RIBOSOMAL PROTEIN S7 protein, length: 155 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 134 321 29
95 % 134 321 43 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.8
PDBFlex
90 % 134 321 49
70 % 134 321 59
50 % 160 435 62
40 % 160 441 75
30 % 160 441 88

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


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 4B3M 17 Q 30S RIBOSOMAL PROTEIN S17 274
2 4B3T 17 Q 30S RIBOSOMAL PROTEIN S17 274
3 4B3R 17 Q 30S RIBOSOMAL PROTEIN S17 274
4 5IWA 16 Q 30S ribosomal protein S17 274
5 1J5E 17 Q 30S RIBOSOMAL PROTEIN S17 274
6 4GKK 17 Q 30S ribosomal protein S17 274
7 4GKJ 17 Q 30S ribosomal protein S17 274
8 4B3S 17 Q 30S RIBOSOMAL PROTEIN S17 274
9 1N32 19 Q 30S RIBOSOMAL PROTEIN S17 274
10 1I94 17 Q 30S RIBOSOMAL PROTEIN S17 274
11 4K0K 17 Q 30S ribosomal protein S17 274
12 4AQY 17 Q 30S RIBOSOMAL PROTEIN S17 274
13 1N33 19 Q 30S RIBOSOMAL PROTEIN S17 274
14 6CAR 17 Q 30S ribosomal protein S17 274
15 4YHH 17 Q 30S ribosomal protein S17 274
16 2E5L 18 Q 30S ribosomal protein S17 274
17 6CAS 17 Q 30S ribosomal protein S17 274
18 4OX9 17 Q 30S ribosomal protein S17 274
19 1I96 17 Q 30S RIBOSOMAL PROTEIN S17 274
20 4V9K 16 AQ, CQ 30S ribosomal protein S17 274
21 1N34 18 Q 30S RIBOSOMAL PROTEIN S17 274
22 1N36 17 Q 30S RIBOSOMAL PROTEIN S17 274
23 2ZM6 17 Q 30S ribosomal protein S17 274
24 4V9L 16 AQ, CQ 30S ribosomal protein S17 274
25 1I97 17 Q 30S RIBOSOMAL PROTEIN S17 274
26 4V9J 16 AQ, CQ 30S ribosomal protein S17 274
27 1I95 17 Q 30S RIBOSOMAL PROTEIN S17 274
28 4V9M 16 AQ, CQ 30S ribosomal protein S17 274
29 4W29 16 AQ, CQ 30S ribosomal protein S17 274
30 4V49 19 AQ 30S ribosomal protein S17 562
31 4V4A 17 AQ 30S ribosomal protein S17 562
32 4V4G 17 AQ, CQ, EQ, GQ, IQ 30S ribosomal protein S17 562
33 6GZX 47 Q3, Q4 30S ribosomal protein S17 274
34 6GZZ 47 Q3, Q4 30S ribosomal protein S17 274
35 6GZQ 47 Q2 30S ribosomal protein S17 274
36 5ZLU 2 A 30S ribosomal protein S17 274
37 5OT7 23 P 30S ribosomal protein S17 274
38 5A9Z 50 BU 30S ribosomal protein S17 274
39 5AA0 50 BU 30S ribosomal protein S17 274
40 4V68 11 AQ 30S ribosomal protein S17 274