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 % 272 276 28
95 % 273 277 40 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 0.8
PDBFlex
90 % 273 277 45
70 % 273 277 56
50 % 363 367 67
40 % 368 372 84
30 % 368 372 97
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 % 268 272 32
95 % 268 272 46 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 272 276 46
70 % 272 276 57
50 % 428 432 29
40 % 434 438 40
30 % 558 562 32
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 91 232
95 % 271 272 50 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 271 272 55
70 % 271 272 67
50 % 420 421 35
40 % 420 421 47
30 % 545 546 36
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 % 269 270 38
95 % 270 271 53 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 270 271 58
70 % 270 271 70
50 % 431 432 28
40 % 431 432 41
30 % 544 545 34
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 % 271 272 35
95 % 271 272 49 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 271 272 54
70 % 271 272 66
50 % 425 426 34
40 % 556 557 19
30 % 556 557 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 % 217 218 54
95 % 278 279 39 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 278 279 44
70 % 429 430 20
50 % 442 443 26
40 % 442 443 39
30 % 442 443 58
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 % 272 273 33
95 % 272 273 47 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 272 273 51
70 % 272 273 62
50 % 429 430 33
40 % 429 430 45
30 % 545 546 37
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 % 270 271 36
95 % 270 271 55 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 270 271 60
70 % 283 284 54
50 % 283 284 93
40 % 283 284 116
30 % 283 284 126
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 % 272 275 30
95 % 277 280 38 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 277 280 43
70 % 277 280 55
50 % 435 439 27
40 % 440 444 37
30 % 440 444 57
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 16235
95 % 270 272 51 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 270 272 56
70 % 270 272 68
50 % 280 282 94
40 % 280 282 117
30 % 421 423 65
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 87 283
95 % 265 266 56 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 269 270 61
70 % 269 270 71
50 % 269 270 98
40 % 269 270 121
30 % 269 270 129
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 51 740
95 % 236 237 68 Flexibility: Low
Max RMSD: 3.4, Avg RMSD: 0.8
PDBFlex
90 % 236 237 71
70 % 236 237 86
50 % 236 237 117
40 % 236 237 141
30 % 236 237 146
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 % 272 275 29
95 % 272 275 43 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 272 275 48
70 % 272 275 59
50 % 429 432 30
40 % 432 435 42
30 % 432 435 59
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 51 543
95 % 270 271 52 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 270 271 57
70 % 270 271 69
50 % 270 271 97
40 % 270 271 119
30 % 270 271 128
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 % 261 262 43
95 % 261 262 59 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 261 262 63
70 % 261 262 76
50 % 261 262 103
40 % 261 262 126
30 % 261 262 134
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 % 271 272 31
95 % 272 273 44 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 272 273 49
70 % 272 273 60
50 % 418 419 36
40 % 423 424 46
30 % 423 424 64
Entity #6 | Chains: F
30S RIBOSOMAL PROTEIN S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 235 236 49
95 % 235 236 69
90 % 235 236 72
70 % 235 236 87
50 % 309 310 86
40 % 309 310 106
30 % 309 310 120
Entity #7 | Chains: G
30S RIBOSOMAL PROTEIN S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 7 8 9250
95 % 272 273 45
90 % 272 273 50
70 % 272 273 61
50 % 426 427 31
40 % 431 432 43
30 % 431 432 60
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 % 271 272 34
95 % 271 272 48 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 271 272 53
70 % 271 272 64
50 % 423 427 32
40 % 423 427 44
30 % 425 429 63
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 % 274 277 27
95 % 280 283 37 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 0.8
PDBFlex
90 % 280 283 42
70 % 280 283 52
50 % 280 283 91
40 % 280 283 115
30 % 363 366 94

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