1JGP

The Path of Messenger RNA Through the Ribosome. THIS FILE, 1JGP, 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 1JGP

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 % 269 274 28
95 % 270 275 41 Flexibility: Low
Max RMSD: 4.2, Avg RMSD: 0.8
PDBFlex
90 % 270 275 46
70 % 270 275 57
50 % 348 353 68
40 % 353 358 85
30 % 353 358 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 % 265 270 32
95 % 265 270 46 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 269 274 47
70 % 269 274 58
50 % 413 418 27
40 % 419 424 37
30 % 530 535 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 % 89 91 217
95 % 268 270 50 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 268 270 55
70 % 268 270 65
50 % 407 409 34
40 % 407 409 47
30 % 515 517 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 % 266 268 39
95 % 267 269 53 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 1.1
PDBFlex
90 % 267 269 58
70 % 267 269 68
50 % 416 418 26
40 % 416 418 38
30 % 520 522 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 % 268 270 35
95 % 268 270 49 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.7
PDBFlex
90 % 268 270 54
70 % 268 270 64
50 % 410 412 33
40 % 520 522 19
30 % 520 522 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 % 215 217 51
95 % 275 277 40 Flexibility: Low
Max RMSD: 1.2, Avg RMSD: 0.7
PDBFlex
90 % 275 277 45
70 % 417 419 20
50 % 427 429 24
40 % 427 429 36
30 % 427 429 55
Entity #16 | Chains: P
30S RIBOSOMAL PROTEIN S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 269 271 33
95 % 269 271 47
90 % 269 271 52
70 % 269 271 62
50 % 414 416 31
40 % 414 416 44
30 % 518 520 34
Entity #17 | Chains: Q
30S RIBOSOMAL PROTEIN S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 267 269 38
95 % 267 269 54
90 % 267 269 59
70 % 275 277 56
50 % 275 277 91
40 % 275 277 115
30 % 275 277 123
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 % 269 273 30
95 % 274 278 38 Flexibility: Low
Max RMSD: 1.3, Avg RMSD: 0.5
PDBFlex
90 % 274 278 43
70 % 274 278 54
50 % 420 425 25
40 % 425 430 35
30 % 425 430 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 % 3 5 15513
95 % 267 270 51 Flexibility: No
Max RMSD: 1.3, Avg RMSD: 0.4
PDBFlex
90 % 267 270 56
70 % 267 270 66
50 % 274 277 90
40 % 274 277 114
30 % 408 411 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
100 % 85 87 251
95 % 262 264 56
90 % 266 268 60
70 % 266 268 69
50 % 266 268 93
40 % 266 268 117
30 % 266 268 128
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 % 49 51 705
95 % 233 235 65 Flexibility: Low
Max RMSD: 8.4, Avg RMSD: 0.9
PDBFlex
90 % 233 235 70
70 % 233 235 83
50 % 233 235 111
40 % 233 235 135
30 % 233 235 143
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 % 269 273 29
95 % 269 273 42 Flexibility: Low
Max RMSD: 3.7, Avg RMSD: 0.9
PDBFlex
90 % 269 273 48
70 % 269 273 59
50 % 414 418 28
40 % 417 421 39
30 % 417 421 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 % 49 51 505
95 % 267 269 52 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 0.7
PDBFlex
90 % 267 269 57
70 % 267 269 67
50 % 267 269 92
40 % 267 269 116
30 % 267 269 127
Entity #24 | Chains: X
30S RIBOSOMAL PROTEIN THX protein, length: 26 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 258 260 43
95 % 258 260 59
90 % 258 260 63
70 % 258 260 75
50 % 258 260 98
40 % 258 260 121
30 % 258 260 132
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 MV36 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 % 268 270 31
95 % 269 271 44 Flexibility: Low
Max RMSD: 9.2, Avg RMSD: 1.7
PDBFlex
90 % 269 271 50
70 % 269 271 60
50 % 405 407 35
40 % 410 412 43
30 % 410 412 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 % 232 234 48
95 % 232 234 66 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.7
PDBFlex
90 % 232 234 71
70 % 232 234 84
50 % 306 308 84
40 % 306 308 103
30 % 306 308 115
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 % 6 8 8880
95 % 269 271 45 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 0.5
PDBFlex
90 % 269 271 51
70 % 269 271 61
50 % 411 413 30
40 % 416 418 40
30 % 416 418 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 % 268 270 34
95 % 268 270 48 Flexibility: Low
Max RMSD: 4.8, Avg RMSD: 0.6
PDBFlex
90 % 268 270 53
70 % 268 270 63
50 % 410 415 29
40 % 410 415 42
30 % 412 417 60
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 % 271 275 27
95 % 277 281 37 Flexibility: Low
Max RMSD: 2.9, Avg RMSD: 0.9
PDBFlex
90 % 277 281 41
70 % 277 281 52
50 % 277 281 88
40 % 277 281 109
30 % 348 352 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.