1JGQ

The Path of Messenger RNA Through the Ribosome. THIS FILE, 1JGQ, CONTAINS THE 30S RIBOSOME SUBUNIT, THREE TRNA, AND MRNA MOLECULES. 50S RIBOSOME SUBUNIT IS IN THE FILE 1GIY


Sequence Similarity Clusters for the Entities in PDB 1JGQ

Entity #1 | Chains: A
30S 16S ribosomal RNA rna, length: 1522 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: J
30S RIBOSOMAL PROTEIN S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 269 273 28
95 % 270 274 41 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.8
PDBFlex
90 % 270 274 46
70 % 270 274 56
50 % 343 347 68
40 % 348 352 83
30 % 348 352 95
Entity #11 | Chains: K
30S RIBOSOMAL PROTEIN S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 265 269 34
95 % 265 269 46 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 269 273 47
70 % 269 273 57
50 % 408 412 27
40 % 414 418 36
30 % 523 527 30
Entity #12 | Chains: L
30S RIBOSOMAL PROTEIN S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 90 91 215
95 % 268 269 51 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 268 269 55
70 % 268 269 65
50 % 404 405 34
40 % 404 405 45
30 % 510 511 35
Entity #13 | Chains: M
30S RIBOSOMAL PROTEIN S10 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 266 267 40
95 % 267 268 54 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 1.1
PDBFlex
90 % 267 268 58
70 % 267 268 69
50 % 411 412 26
40 % 411 412 37
30 % 513 514 32
Entity #14 | Chains: N
30S RIBOSOMAL PROTEIN S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 268 269 37
95 % 268 269 50 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 268 269 54
70 % 268 269 64
50 % 405 406 33
40 % 513 514 19
30 % 513 514 33
Entity #15 | Chains: O
30S RIBOSOMAL PROTEIN S12 protein, length: 135 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 216 217 50
95 % 275 276 40 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 275 276 45
70 % 414 415 20
50 % 422 423 24
40 % 422 423 35
30 % 422 423 55
Entity #16 | Chains: P
30S RIBOSOMAL PROTEIN S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 269 270 35
95 % 269 270 47 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 269 270 52
70 % 269 270 62
50 % 409 410 32
40 % 409 410 44
30 % 511 512 36
Entity #17 | Chains: Q
30S RIBOSOMAL PROTEIN S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 267 268 38
95 % 267 268 55 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 267 268 59
70 % 271 272 59
50 % 271 272 91
40 % 271 272 112
30 % 271 272 125
Entity #18 | Chains: R
30S RIBOSOMAL PROTEIN S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 269 272 30
95 % 274 277 39 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 274 277 44
70 % 274 277 55
50 % 415 419 25
40 % 420 424 34
30 % 420 424 53
Entity #19 | Chains: S
30S RIBOSOMAL PROTEIN S16 protein, length: 91 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 5 15390
95 % 267 269 52 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 267 269 56
70 % 267 269 66
50 % 272 274 90
40 % 272 274 111
30 % 405 407 63
Entity #2 | Chains: B,C
tRNA(Phe) rna, length: 76 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #20 | Chains: T
30S RIBOSOMAL PROTEIN S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 86 87 250
95 % 262 263 57 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 266 267 60
70 % 266 267 70
50 % 266 267 94
40 % 266 267 115
30 % 266 267 127
Entity #21 | Chains: U
30S RIBOSOMAL PROTEIN S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 50 51 698
95 % 233 234 65 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 0.9
PDBFlex
90 % 233 234 70
70 % 233 234 82
50 % 233 234 109
40 % 233 234 134
30 % 233 234 143
Entity #22 | Chains: V
30S RIBOSOMAL PROTEIN S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 269 272 29
95 % 269 272 43 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 269 272 49
70 % 269 272 58
50 % 409 412 29
40 % 412 415 38
30 % 412 415 57
Entity #23 | Chains: W
30S RIBOSOMAL PROTEIN S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 50 51 493
95 % 267 268 53 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 267 268 57
70 % 267 268 68
50 % 267 268 93
40 % 267 268 114
30 % 267 268 126
Entity #24 | Chains: X
30S RIBOSOMAL PROTEIN THX protein, length: 26 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 258 259 43
95 % 258 259 59 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 258 259 63
70 % 258 259 75
50 % 258 259 98
40 % 258 259 120
30 % 258 259 131
Entity #3 | Chains: D
tRNA(Phe) rna, length: 74 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #4 | Chains: 1
MESSENGER RNA MF36 rna, length: 36 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #5 | Chains: E
30S RIBOSOMAL PROTEIN S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 268 269 33
95 % 269 270 44 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.7
PDBFlex
90 % 269 270 50
70 % 269 270 60
50 % 400 401 36
40 % 405 406 43
30 % 405 406 62
Entity #6 | Chains: F
30S RIBOSOMAL PROTEIN S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 232 233 48
95 % 232 233 66 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 232 233 71
70 % 232 233 83
50 % 305 306 84
40 % 305 306 102
30 % 305 306 114
Entity #7 | Chains: G
30S RIBOSOMAL PROTEIN S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 7 8 8797
95 % 269 270 45 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 269 270 51
70 % 269 270 61
50 % 406 407 31
40 % 411 412 39
30 % 411 412 58
Entity #8 | Chains: H
30S RIBOSOMAL PROTEIN S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 268 269 36
95 % 268 269 49 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 268 269 53
70 % 268 269 63
50 % 407 411 30
40 % 407 411 42
30 % 409 413 59
Entity #9 | Chains: I
30S RIBOSOMAL PROTEIN S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 271 274 27
95 % 277 280 37 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 0.9
PDBFlex
90 % 277 280 41
70 % 277 280 52
50 % 277 280 87
40 % 277 280 106
30 % 344 347 92

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.