Loop J6_8VSA

3D structure

PDB id: 8VSA (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 of E. coli 70S ribosome
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.7 Å

Loop

Sequence: CCGAGGGG*CAAAAAAUAGUCGCAAACGACGAAAACUACG*CC*GUCAAACCCAAAAGAGAUCG*UUAAAACUUAAUCAGGCUAGUUUG*CAAGCGAAUGUAAAGACUGACUAAG
Length: 110 nucleotides
Bulged bases: 8VSA|1|TMRN|G|54, 8VSA|1|TMRN|A|80, 8VSA|1|TMRN|A|84, 8VSA|1|TMRN|U|85, 8VSA|1|TMRN|A|94, 8VSA|1|TMRN|C|98, 8VSA|1|TMRN|G|99, 8VSA|1|TMRN|A|100, 8VSA|1|TMRN|A|101, 8VSA|1|TMRN|A|102, 8VSA|1|TMRN|A|103, 8VSA|1|TMRN|C|104, 8VSA|1|TMRN|U|105, 8VSA|1|TMRN|A|106, 8VSA|1|TMRN|C|107, 8VSA|1|TMRN|U|182, 8VSA|1|TMRN|A|233, 8VSA|1|TMRN|U|236, 8VSA|1|TMRN|U|237, 8VSA|1|TMRN|U|246, 8VSA|1|TMRN|A|281, 8VSA|1|TMRN|A|285, 8VSA|1|TMRN|U|287, 8VSA|1|TMRN|G|288, 8VSA|1|TMRN|U|289, 8VSA|1|TMRN|A|290, 8VSA|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

8VSA|1|TMRN|C|48
8VSA|1|TMRN|C|49
8VSA|1|TMRN|G|50
8VSA|1|TMRN|A|51
8VSA|1|TMRN|G|52
8VSA|1|TMRN|G|53
8VSA|1|TMRN|G|54
8VSA|1|TMRN|G|55
*
8VSA|1|TMRN|C|78
8VSA|1|TMRN|A|79
8VSA|1|TMRN|A|80
8VSA|1|TMRN|A|81
8VSA|1|TMRN|A|82
8VSA|1|TMRN|A|83
8VSA|1|TMRN|A|84
8VSA|1|TMRN|U|85
8VSA|1|TMRN|A|86
8VSA|1|TMRN|G|87
8VSA|1|TMRN|U|88
8VSA|1|TMRN|C|89
8VSA|1|TMRN|G|90
8VSA|1|TMRN|C|91
8VSA|1|TMRN|A|92
8VSA|1|TMRN|A|93
8VSA|1|TMRN|A|94
8VSA|1|TMRN|C|95
8VSA|1|TMRN|G|96
8VSA|1|TMRN|A|97
8VSA|1|TMRN|C|98
8VSA|1|TMRN|G|99
8VSA|1|TMRN|A|100
8VSA|1|TMRN|A|101
8VSA|1|TMRN|A|102
8VSA|1|TMRN|A|103
8VSA|1|TMRN|C|104
8VSA|1|TMRN|U|105
8VSA|1|TMRN|A|106
8VSA|1|TMRN|C|107
8VSA|1|TMRN|G|108
*
8VSA|1|TMRN|C|137
8VSA|1|TMRN|C|138
*
8VSA|1|TMRN|G|181
8VSA|1|TMRN|U|182
8VSA|1|TMRN|C|183
8VSA|1|TMRN|A|184
8VSA|1|TMRN|A|185
8VSA|1|TMRN|A|186
8VSA|1|TMRN|C|187
8VSA|1|TMRN|C|188
8VSA|1|TMRN|C|189
8VSA|1|TMRN|A|190
8VSA|1|TMRN|A|191
8VSA|1|TMRN|A|192
8VSA|1|TMRN|A|193
8VSA|1|TMRN|G|194
8VSA|1|TMRN|A|195
8VSA|1|TMRN|G|196
8VSA|1|TMRN|A|197
8VSA|1|TMRN|U|198
8VSA|1|TMRN|C|199
8VSA|1|TMRN|G|200
*
8VSA|1|TMRN|U|229
8VSA|1|TMRN|U|230
8VSA|1|TMRN|A|231
8VSA|1|TMRN|A|232
8VSA|1|TMRN|A|233
8VSA|1|TMRN|A|234
8VSA|1|TMRN|C|235
8VSA|1|TMRN|U|236
8VSA|1|TMRN|U|237
8VSA|1|TMRN|A|238
8VSA|1|TMRN|A|239
8VSA|1|TMRN|U|240
8VSA|1|TMRN|C|241
8VSA|1|TMRN|A|242
8VSA|1|TMRN|G|243
8VSA|1|TMRN|G|244
8VSA|1|TMRN|C|245
8VSA|1|TMRN|U|246
8VSA|1|TMRN|A|247
8VSA|1|TMRN|G|248
8VSA|1|TMRN|U|249
8VSA|1|TMRN|U|250
8VSA|1|TMRN|U|251
8VSA|1|TMRN|G|252
*
8VSA|1|TMRN|C|279
8VSA|1|TMRN|A|280
8VSA|1|TMRN|A|281
8VSA|1|TMRN|G|282
8VSA|1|TMRN|C|283
8VSA|1|TMRN|G|284
8VSA|1|TMRN|A|285
8VSA|1|TMRN|A|286
8VSA|1|TMRN|U|287
8VSA|1|TMRN|G|288
8VSA|1|TMRN|U|289
8VSA|1|TMRN|A|290
8VSA|1|TMRN|A|291
8VSA|1|TMRN|A|292
8VSA|1|TMRN|G|293
8VSA|1|TMRN|A|294
8VSA|1|TMRN|C|295
8VSA|1|TMRN|U|296
8VSA|1|TMRN|G|297
8VSA|1|TMRN|A|298
8VSA|1|TMRN|C|299
8VSA|1|TMRN|U|300
8VSA|1|TMRN|A|301
8VSA|1|TMRN|A|302
8VSA|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_8VSA_004