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 % 270 274 28
95 % 271 275 41 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.8
PDBFlex
90 % 271 275 46
70 % 271 275 56
50 % 350 354 68
40 % 355 359 85
30 % 355 359 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 % 266 270 32
95 % 266 270 46 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 270 274 47
70 % 270 274 57
50 % 415 419 27
40 % 421 425 37
30 % 534 538 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 91 217
95 % 269 270 50 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 269 270 55
70 % 269 270 65
50 % 409 410 35
40 % 409 410 48
30 % 519 520 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 % 267 268 39
95 % 268 269 53 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 1.1
PDBFlex
90 % 268 269 58
70 % 268 269 68
50 % 418 419 26
40 % 418 419 38
30 % 524 525 31
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 % 269 270 35
95 % 269 270 49 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 269 270 54
70 % 269 270 64
50 % 412 413 32
40 % 524 525 19
30 % 524 525 32
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 51
95 % 276 277 40 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 276 277 45
70 % 419 420 19
50 % 429 430 24
40 % 429 430 36
30 % 429 430 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 % 270 271 33
95 % 270 271 47 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 270 271 52
70 % 270 271 62
50 % 416 417 31
40 % 416 417 46
30 % 522 523 34
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 % 268 269 38
95 % 268 269 54 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.8
PDBFlex
90 % 268 269 59
70 % 276 277 55
50 % 276 277 91
40 % 276 277 115
30 % 276 277 123
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 % 270 273 30
95 % 275 278 38 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.6
PDBFlex
90 % 275 278 43
70 % 275 278 53
50 % 422 426 25
40 % 427 431 35
30 % 427 431 54
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 15621
95 % 268 270 51 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 268 270 56
70 % 268 270 66
50 % 275 277 90
40 % 275 277 114
30 % 410 412 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 87 254
95 % 263 264 56 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 267 268 60
70 % 267 268 69
50 % 267 268 94
40 % 267 268 118
30 % 267 268 128
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 51 715
95 % 234 235 65 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 0.9
PDBFlex
90 % 234 235 70
70 % 234 235 82
50 % 234 235 111
40 % 234 235 135
30 % 234 235 143
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 % 270 273 29
95 % 270 273 42 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 270 273 48
70 % 270 273 59
50 % 416 419 28
40 % 419 422 40
30 % 419 422 56
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 51 516
95 % 268 269 52 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 268 269 57
70 % 268 269 67
50 % 268 269 93
40 % 268 269 116
30 % 268 269 127
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 % 259 260 43
95 % 259 260 59 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 259 260 63
70 % 259 260 74
50 % 259 260 98
40 % 259 260 121
30 % 259 260 133
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 % 269 270 31
95 % 270 271 44 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 270 271 50
70 % 270 271 60
50 % 407 408 36
40 % 412 413 45
30 % 412 413 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 % 233 234 48
95 % 233 234 66 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 233 234 71
70 % 233 234 83
50 % 307 308 84
40 % 307 308 103
30 % 307 308 116
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 8947
95 % 270 271 45 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.6
PDBFlex
90 % 270 271 51
70 % 270 271 61
50 % 413 414 30
40 % 418 419 41
30 % 418 419 57
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 % 269 270 34
95 % 269 270 48 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 269 270 53
70 % 269 270 63
50 % 412 416 29
40 % 412 416 42
30 % 414 418 61
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 % 272 275 27
95 % 278 281 37 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 0.9
PDBFlex
90 % 278 281 42
70 % 278 281 51
50 % 278 281 88
40 % 278 281 110
30 % 350 353 93

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.