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 % 271 275 28
95 % 272 276 42 Flexibility: Low
Max RMSD: 2.2, Avg RMSD: 0.8
PDBFlex
90 % 272 276 46
70 % 272 276 57
50 % 359 363 66
40 % 364 368 82
30 % 364 368 96
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 % 267 271 32
95 % 267 271 46 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 271 275 47
70 % 271 275 58
50 % 424 428 27
40 % 430 434 37
30 % 548 552 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 91 224
95 % 270 271 51 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.8
PDBFlex
90 % 270 271 55
70 % 270 271 66
50 % 416 417 33
40 % 416 417 46
30 % 535 536 34
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 % 268 269 40
95 % 269 270 54 Flexibility: Low
Max RMSD: 2.0, Avg RMSD: 1.1
PDBFlex
90 % 269 270 58
70 % 269 270 69
50 % 427 428 26
40 % 427 428 38
30 % 535 536 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 % 270 271 36
95 % 270 271 50 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 270 271 54
70 % 270 271 65
50 % 421 422 32
40 % 546 547 19
30 % 546 547 31
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 53
95 % 277 278 39 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 277 278 44
70 % 425 426 19
50 % 438 439 24
40 % 438 439 36
30 % 438 439 57
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 % 271 272 33
95 % 271 272 47 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 0.7
PDBFlex
90 % 271 272 51
70 % 271 272 63
50 % 425 426 31
40 % 425 426 44
30 % 535 536 35
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 % 269 270 37
95 % 269 270 55 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 0.9
PDBFlex
90 % 269 270 59
70 % 282 283 54
50 % 282 283 91
40 % 282 283 113
30 % 282 283 125
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 % 271 274 30
95 % 276 279 38 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 276 279 43
70 % 276 279 55
50 % 431 435 25
40 % 436 440 35
30 % 436 440 56
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 16015
95 % 269 271 52 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 269 271 56
70 % 269 271 67
50 % 279 281 92
40 % 279 281 114
30 % 417 419 64
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 87 262
95 % 264 265 56 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.6
PDBFlex
90 % 268 269 60
70 % 268 269 70
50 % 268 269 95
40 % 268 269 117
30 % 268 269 128
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 51 731
95 % 235 236 65 Flexibility: Low
Max RMSD: 3.4, Avg RMSD: 0.8
PDBFlex
90 % 235 236 69
70 % 235 236 81
50 % 235 236 115
40 % 235 236 138
30 % 235 236 146
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 % 271 274 29
95 % 271 274 43 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 271 274 48
70 % 271 274 59
50 % 425 428 28
40 % 428 431 40
30 % 428 431 58
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 51 530
95 % 269 270 53 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 269 270 57
70 % 269 270 68
50 % 269 270 94
40 % 269 270 116
30 % 269 270 127
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 % 260 261 43
95 % 260 261 59 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.5
PDBFlex
90 % 260 261 63
70 % 260 261 74
50 % 260 261 100
40 % 260 261 123
30 % 260 261 135
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 % 270 271 31
95 % 271 272 44 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.5
PDBFlex
90 % 271 272 49
70 % 271 272 60
50 % 414 415 34
40 % 419 420 45
30 % 419 420 62
Entity #6 | Chains: F
30S RIBOSOMAL PROTEIN S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 234 235 49
95 % 234 235 66
90 % 234 235 70
70 % 234 235 82
50 % 308 309 85
40 % 308 309 103
30 % 308 309 118
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 9139
95 % 271 272 45
90 % 271 272 50
70 % 271 272 61
50 % 422 423 29
40 % 427 428 42
30 % 427 428 59
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 % 270 271 35
95 % 270 271 49 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 270 271 53
70 % 270 271 64
50 % 419 423 30
40 % 419 423 43
30 % 421 425 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 % 273 276 27
95 % 279 282 37 Flexibility: Low
Max RMSD: 2.8, Avg RMSD: 0.8
PDBFlex
90 % 279 282 42
70 % 279 282 53
50 % 279 282 90
40 % 279 282 112
30 % 359 362 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.