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 % 134 315 34
95 % 134 315 49 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 134 319 50
70 % 134 319 60
50 % 162 500 23
40 % 182 661 21
30 % 182 661 34
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 % 133 315 53 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 133 315 58
70 % 133 315 68
50 % 159 486 33
40 % 159 486 45
30 % 176 643 37
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 % 133 314 38
95 % 133 314 55 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 1.1
PDBFlex
90 % 133 314 60
70 % 133 314 69
50 % 165 502 21
40 % 182 640 23
30 % 182 642 36
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 % 133 315 36
95 % 133 315 52 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 133 315 57
70 % 133 315 67
50 % 159 495 29
40 % 178 644 22
30 % 178 644 35
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 % 112 282 46
95 % 133 322 42 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 133 322 48
70 % 160 510 14
50 % 160 513 20
40 % 160 513 34
30 % 160 513 54
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 % 133 316 33
95 % 133 316 48 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 133 316 54
70 % 133 316 64
50 % 162 499 28
40 % 162 499 39
30 % 179 645 38
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 % 133 314 37
95 % 133 314 54 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.8
PDBFlex
90 % 133 314 59
70 % 133 321 58
50 % 133 332 91
40 % 133 332 108
30 % 133 332 121
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 % 134 320 27
95 % 137 323 41 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 137 323 46
70 % 137 323 57
50 % 166 507 22
40 % 166 512 33
30 % 166 512 53
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 % 133 310 40
95 % 133 315 50 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 133 315 55
70 % 133 315 65
50 % 133 327 93
40 % 162 492 43
30 % 162 492 60
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 40 941
95 % 133 312 57 Flexibility: Low
Max RMSD: 2.6, Avg RMSD: 0.7
PDBFlex
90 % 133 312 62
70 % 133 312 73
50 % 133 312 98
40 % 133 312 116
30 % 133 312 129
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 % 116 254 55
95 % 116 262 71 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 0.9
PDBFlex
90 % 116 262 75
70 % 116 262 87
50 % 116 262 117
40 % 116 262 140
30 % 116 262 154
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 % 134 318 30
95 % 134 318 45 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 134 318 51
70 % 160 495 16
50 % 160 501 24
40 % 160 504 35
30 % 160 504 55
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 % 119 269 50
95 % 133 314 56 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 133 314 61
70 % 133 314 70
50 % 133 314 96
40 % 133 314 113
30 % 133 314 126
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 % 133 304 43
95 % 133 304 58 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 133 304 63
70 % 133 304 74
50 % 133 304 101
40 % 133 304 119
30 % 133 304 131
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 % 133 315 32
95 % 133 316 47 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.6
PDBFlex
90 % 133 316 53
70 % 133 316 63
50 % 159 481 36
40 % 159 487 44
30 % 159 487 61
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 % 115 262 54
95 % 115 262 70 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 115 262 74
70 % 115 262 86
50 % 119 338 89
40 % 119 338 105
30 % 119 338 119
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 % 133 316 31
95 % 133 316 46 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 133 316 52
70 % 133 316 61
50 % 159 495 27
40 % 159 501 36
30 % 159 501 56
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 % 133 315 35
95 % 133 315 51 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 133 315 56
70 % 133 315 66
50 % 160 491 31
40 % 160 491 42
30 % 160 493 59
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 % 135 320 28
95 % 141 326 40 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 0.9
PDBFlex
90 % 141 326 45
70 % 141 326 55
50 % 141 326 92
40 % 141 326 110
30 % 165 431 87
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 % 134 320 29
95 % 134 320 43 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.8
PDBFlex
90 % 134 320 49
70 % 134 320 59
50 % 160 434 62
40 % 160 440 76
30 % 160 440 86

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 2VQE 9 I 30S RIBOSOMAL PROTEIN S9 274
2 4JYA 9 I 30S ribosomal protein S9 274
3 4KHP 9 I 30S Ribosomal protein S9 274
4 4V9H 22 AI 30S ribosomal protein S9 274
5 2UXC 9 I RIBOSOMAL PROTEIN S9 274
6 4B3M 9 I 30S RIBOSOMAL PROTEIN S9 274
7 4B3T 9 I 30S RIBOSOMAL PROTEIN S9 274
8 2VQF 9 I 30S RIBOSOMAL PROTEIN S9 274
9 4B3R 9 I 30S RIBOSOMAL PROTEIN S9 274
10 4JV5 9 I 30S ribosomal protein S9 274
11 1J5E 9 I 30S RIBOSOMAL PROTEIN S9 274
12 4GKK 9 I 30S ribosomal protein S9 274
13 4GKJ 9 I 30S ribosomal protein S9 274
14 1FJG 10 I 30S RIBOSOMAL PROTEIN S9 274
15 3T1Y 9 I 30S ribosomal protein S9 274
16 1XMQ 11 I 30S Ribosomal Protein S9 274
17 4B3S 9 I 30S RIBOSOMAL PROTEIN S9 274
18 1N32 11 I 30S RIBOSOMAL PROTEIN S9 274
19 1I94 9 I 30S RIBOSOMAL PROTEIN S9 274
20 4K0K 9 I 30S ribosomal protein S9 274
21 5J4D 43 RA, WC 30S ribosomal protein S9 274
22 4V5J 9 AI, CI 30S RIBOSOMAL PROTEIN S9 274
23 4V7Y 9 AI, CI 30S ribosomal protein S9 274
24 3OTO 9 I 30S RIBOSOMAL PROTEIN S9 274
25 4V8Q 43 BI 30S RIBOSOMAL PROTEIN S9 274
26 1HR0 10 I 30S RIBOSOMAL PROTEIN S9 274
27 4AQY 9 I 30S RIBOSOMAL PROTEIN S9 274
28 4V5L 9 AI 30S RIBOSOMAL PROTEIN S9 274
29 4V7X 9 AI, CI 30S ribosomal protein S9 274
30 1IBL 12 I 30S RIBOSOMAL PROTEIN S9 274
31 4V7W 9 AI, CI 30S ribosomal protein S9 274
32 6C5L 9 AI, CI 30S ribosomal protein S9 274
33 4WT8 9 AI, BI 30S ribosomal protein S9 274
34 1XNR 11 I 16S Ribosomal protein S9 274
35 4V51 9 AI, CI 30S RIBOSOMAL PROTEIN S9 274
36 1HNZ 10 I 30S RIBOSOMAL PROTEIN S9 274
37 1XNQ 11 I Ribosomal protein S9 274
38 4V8A 39 CI, DI 30S ribosomal protein S9 274
39 4V5K 9 AI, CI 30S RIBOSOMAL PROTEIN S9 274
40 4V5C 9 AI, CI 30S RIBOSOMAL PROTEIN S9 274
41 4V5E 9 AI, CI 30S RIBOSOMAL PROTEIN S9 274
42 5V8I 40 1i, 2i 30S ribosomal protein S9 274
43 4V5D 9 AI, CI 30S RIBOSOMAL PROTEIN S9 274
44 4V7Z 9 AI, CI 30S ribosomal protein S9 274
45 4V9I 9 AI, CI 30S Ribosomal protein S9 274
46 1XMO 11 I 30S ribosomal protein S9 274
47 3T1H 9 I 30S ribosomal protein S9 274
48 2UXD 9 I RIBOSOMAL PROTEIN S9 274
49 1N33 11 I 30S RIBOSOMAL PROTEIN S9 274
50 1IBK 10 I 30S RIBOSOMAL PROTEIN S9 274
51 1HNW 10 I 30S RIBOSOMAL PROTEIN S9 274
52 1IBM 12 I 30S RIBOSOMAL PROTEIN S9 274
53 4V84 9 AI, CI 30S ribosomal protein S9 274
54 1HNX 10 I 30S RIBOSOMAL PROTEIN S9 274
55 4V9Q 39 BI, DI 30S ribosomal protein S9 274
56 4V9N 12 AI, CI 30S ribosomal protein S9 274
57 4V67 11 AI, CI 30S ribosomal protein S9 274
58 4V83 9 AI, CI 30S ribosomal protein S9 274
59 2E5L 10 I 30S ribosomal protein S9 274
60 2HHH 9 I 30S ribosomal protein S9 274
61 2UXB 9 I RIBOSOMAL PROTEIN S9 274
62 1I96 9 I 30S RIBOSOMAL PROTEIN S9 274
63 4V9K 8 AI, CI 30S ribosomal protein S9 274
64 1N34 10 I 30S RIBOSOMAL PROTEIN S9 274
65 4V5A 9 AI, CI 30S RIBOSOMAL PROTEIN S9 274
66 4V63 11 AI, CI 30S ribosomal protein S9 274
67 4KVB 9 I 30S ribosomal protein S9 274
68 4XEJ 36 AS09, BS09 30S ribosomal protein S9 274
69 4V7P 9 AI, DI 30S ribosomal protein S9 274
70 1N36 9 I 30S RIBOSOMAL PROTEIN S9 274
71 2ZM6 9 I 30S ribosomal protein S9 274
72 5D8B 36 FC, JA 30S ribosomal protein S9 274
73 2F4V 10 I 30S ribosomal protein S9 274
74 1I97 9 I 30S RIBOSOMAL PROTEIN S9 274
75 4V9J 8 AI, CI 30S ribosomal protein S9 274
76 1I95 9 I 30S RIBOSOMAL PROTEIN S9 274
77 4V8O 9 AI 30S RIBOSOMAL PROTEIN S9 274
78 4V4J 42 j 30S ribosomal protein S9 274
79 4V4I 42 j 30S ribosomal protein S9 274
80 4V4P 44 BL 30S ribosomal protein S9 274
81 4V4R 12 AI 30S ribosomal protein S9 274
82 4V4S 12 AI 30S ribosomal protein S9 274
83 4V4T 12 AI 30S ribosomal protein S9 274
84 4V49 11 AI 30S ribosomal protein S9 562
85 4V4A 9 AI 30S ribosomal protein S9 562
86 4V4G 9 AI, CI, EI, GI, II 30S ribosomal protein S9 562
87 6BOH 43 SA, XC 30S ribosomal protein S9 274
88 6BOK 42 QA, TC 30S ribosomal protein S9 274
89 6B4V 43 RA, VC 30S ribosomal protein S9 274
90 4V68 16 AI 30S ribosomal protein S9 274
91 2R1G 8 G 30S ribosomal protein S9 274
92 1ML5 14 L 30S RIBOSOMAL PROTEIN S9 562
93 1JGO 12 L 30S RIBOSOMAL PROTEIN S9 274
94 1JGP 12 L 30S RIBOSOMAL PROTEIN S9 274
95 1JGQ 12 L 30S RIBOSOMAL PROTEIN S9 274
96 4V42 12 AL 30S RIBOSOMAL PROTEIN S9 274