Loop J6_8VS9

3D structure

PDB id: 8VS9 (explore in PDB, NAKB, or RNA 3D Hub)
Description: Endogenous trans-translation complex with tmRNA*SmpB in the P site and alanyl-tRNA in the A site and deacyl-tRNA in the E site of E. coli 70S ribosome
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.9 Å

Loop

Sequence: CCGAG*CCUCGUAAAAAGCCGCAAAAAAUAGUCGCAAACGACGAAAACUACG*CCC*GGUCAAACCCAAAAGAGAUCG*UUAAAACUUAAUCAGGCUAGUUUG*CAAGCGAAUGUAAAGACUGACUAAG
Length: 124 nucleotides
Bulged bases: 8VS9|1|TMRN|A|80, 8VS9|1|TMRN|A|84, 8VS9|1|TMRN|U|85, 8VS9|1|TMRN|A|94, 8VS9|1|TMRN|C|98, 8VS9|1|TMRN|G|99, 8VS9|1|TMRN|A|100, 8VS9|1|TMRN|A|101, 8VS9|1|TMRN|A|102, 8VS9|1|TMRN|A|103, 8VS9|1|TMRN|C|104, 8VS9|1|TMRN|U|105, 8VS9|1|TMRN|A|106, 8VS9|1|TMRN|C|107, 8VS9|1|TMRN|U|182, 8VS9|1|TMRN|C|189, 8VS9|1|TMRN|A|233, 8VS9|1|TMRN|U|237, 8VS9|1|TMRN|A|238, 8VS9|1|TMRN|A|239, 8VS9|1|TMRN|U|246, 8VS9|1|TMRN|A|285, 8VS9|1|TMRN|G|288, 8VS9|1|TMRN|U|289, 8VS9|1|TMRN|C|299
QA status: Valid loop

Sequence variability

R3DSVS

Structural variability across Equivalence Class

R3DMCS EC

Structural variability across Rfam

R3DMCS Rfam

Detailed Annotation: No text annotation
Broad Annotation: No text annotation
Motif group: Not in a motif group
Basepair signature: Not available
Number of instances in this motif group: 0

Unit IDs

8VS9|1|TMRN|C|48
8VS9|1|TMRN|C|49
8VS9|1|TMRN|G|50
8VS9|1|TMRN|A|51
8VS9|1|TMRN|G|52
*
8VS9|1|TMRN|C|63
8VS9|1|TMRN|C|64
8VS9|1|TMRN|U|65
8VS9|1|TMRN|C|66
8VS9|1|TMRN|G|67
8VS9|1|TMRN|U|68
8VS9|1|TMRN|A|69
8VS9|1|TMRN|A|70
8VS9|1|TMRN|A|71
8VS9|1|TMRN|A|72
8VS9|1|TMRN|A|73
8VS9|1|TMRN|G|74
8VS9|1|TMRN|C|75
8VS9|1|TMRN|C|76
8VS9|1|TMRN|G|77
8VS9|1|TMRN|C|78
8VS9|1|TMRN|A|79
8VS9|1|TMRN|A|80
8VS9|1|TMRN|A|81
8VS9|1|TMRN|A|82
8VS9|1|TMRN|A|83
8VS9|1|TMRN|A|84
8VS9|1|TMRN|U|85
8VS9|1|TMRN|A|86
8VS9|1|TMRN|G|87
8VS9|1|TMRN|U|88
8VS9|1|TMRN|C|89
8VS9|1|TMRN|G|90
8VS9|1|TMRN|C|91
8VS9|1|TMRN|A|92
8VS9|1|TMRN|A|93
8VS9|1|TMRN|A|94
8VS9|1|TMRN|C|95
8VS9|1|TMRN|G|96
8VS9|1|TMRN|A|97
8VS9|1|TMRN|C|98
8VS9|1|TMRN|G|99
8VS9|1|TMRN|A|100
8VS9|1|TMRN|A|101
8VS9|1|TMRN|A|102
8VS9|1|TMRN|A|103
8VS9|1|TMRN|C|104
8VS9|1|TMRN|U|105
8VS9|1|TMRN|A|106
8VS9|1|TMRN|C|107
8VS9|1|TMRN|G|108
*
8VS9|1|TMRN|C|137
8VS9|1|TMRN|C|138
8VS9|1|TMRN|C|139
*
8VS9|1|TMRN|G|180
8VS9|1|TMRN|G|181
8VS9|1|TMRN|U|182
8VS9|1|TMRN|C|183
8VS9|1|TMRN|A|184
8VS9|1|TMRN|A|185
8VS9|1|TMRN|A|186
8VS9|1|TMRN|C|187
8VS9|1|TMRN|C|188
8VS9|1|TMRN|C|189
8VS9|1|TMRN|A|190
8VS9|1|TMRN|A|191
8VS9|1|TMRN|A|192
8VS9|1|TMRN|A|193
8VS9|1|TMRN|G|194
8VS9|1|TMRN|A|195
8VS9|1|TMRN|G|196
8VS9|1|TMRN|A|197
8VS9|1|TMRN|U|198
8VS9|1|TMRN|C|199
8VS9|1|TMRN|G|200
*
8VS9|1|TMRN|U|229
8VS9|1|TMRN|U|230
8VS9|1|TMRN|A|231
8VS9|1|TMRN|A|232
8VS9|1|TMRN|A|233
8VS9|1|TMRN|A|234
8VS9|1|TMRN|C|235
8VS9|1|TMRN|U|236
8VS9|1|TMRN|U|237
8VS9|1|TMRN|A|238
8VS9|1|TMRN|A|239
8VS9|1|TMRN|U|240
8VS9|1|TMRN|C|241
8VS9|1|TMRN|A|242
8VS9|1|TMRN|G|243
8VS9|1|TMRN|G|244
8VS9|1|TMRN|C|245
8VS9|1|TMRN|U|246
8VS9|1|TMRN|A|247
8VS9|1|TMRN|G|248
8VS9|1|TMRN|U|249
8VS9|1|TMRN|U|250
8VS9|1|TMRN|U|251
8VS9|1|TMRN|G|252
*
8VS9|1|TMRN|C|279
8VS9|1|TMRN|A|280
8VS9|1|TMRN|A|281
8VS9|1|TMRN|G|282
8VS9|1|TMRN|C|283
8VS9|1|TMRN|G|284
8VS9|1|TMRN|A|285
8VS9|1|TMRN|A|286
8VS9|1|TMRN|U|287
8VS9|1|TMRN|G|288
8VS9|1|TMRN|U|289
8VS9|1|TMRN|A|290
8VS9|1|TMRN|A|291
8VS9|1|TMRN|A|292
8VS9|1|TMRN|G|293
8VS9|1|TMRN|A|294
8VS9|1|TMRN|C|295
8VS9|1|TMRN|U|296
8VS9|1|TMRN|G|297
8VS9|1|TMRN|A|298
8VS9|1|TMRN|C|299
8VS9|1|TMRN|U|300
8VS9|1|TMRN|A|301
8VS9|1|TMRN|A|302
8VS9|1|TMRN|G|303

Current chains

Chain TMRN: TMRN

Nearby chains

Chain 16S: Small subunit ribosomal RNA; SSU rRNA
Chain 23S: Large subunit ribosomal RNA; LSU rRNA
Chain ATRN: Transfer RNA; tRNA
Chain S03: 30S ribosomal protein S3
Chain S04: 30S ribosomal protein S4
Chain S05: 30S ribosomal protein S5
Chain S10: 30S ribosomal protein S10
Chain S12: 30S ribosomal protein S12
Chain S19: 30S ribosomal protein S19
Chain SMPB: SsrA-binding protein

J6_8VS9_003