J6_3IYR_002

3D structure

PDB id

3IYR (explore in PDB, NAKB, or RNA 3D Hub)

Description

tmRNA-SmpB: a journey to the center of the bacterial ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

13 Å

Loop

Sequence

CCG*CGUAAAAACCCGCAACGGCAUAACUGCCAACACCAACUACGCUCU*ACCU*GGGACACAAACCCGGCUAGC*GCGAAGCUUGAAGGGGGCUCGCUCCUGGCCG*CCAAGCCAGGAGGACACGCGAAACGCGGACUACG

Length

137 nucleotides

Bulged bases

3IYR|1|A|U|68, 3IYR|1|A|A|69, 3IYR|1|A|A|71, 3IYR|1|A|A|72, 3IYR|1|A|A|79, 3IYR|1|A|A|80, 3IYR|1|A|C|81, 3IYR|1|A|G|82, 3IYR|1|A|G|83, 3IYR|1|A|C|84, 3IYR|1|A|A|85, 3IYR|1|A|U|86, 3IYR|1|A|A|87, 3IYR|1|A|A|88, 3IYR|1|A|C|89, 3IYR|1|A|U|90, 3IYR|1|A|A|95, 3IYR|1|A|C|96, 3IYR|1|A|A|97, 3IYR|1|A|A|101, 3IYR|1|A|C|107, 3IYR|1|A|A|171, 3IYR|1|A|C|172, 3IYR|1|A|A|173, 3IYR|1|A|C|174, 3IYR|1|A|A|175, 3IYR|1|A|A|176, 3IYR|1|A|A|177, 3IYR|1|A|C|178, 3IYR|1|A|U|184, 3IYR|1|A|G|215, 3IYR|1|A|G|218, 3IYR|1|A|C|219, 3IYR|1|A|U|220, 3IYR|1|A|A|259, 3IYR|1|A|A|271, 3IYR|1|A|C|272, 3IYR|1|A|G|273, 3IYR|1|A|C|274, 3IYR|1|A|G|275, 3IYR|1|A|A|278, 3IYR|1|A|U|286, 3IYR|1|A|A|287, 3IYR|1|A|C|288

QA status

Unknown status

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

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

3IYR|1|A|C|48
3IYR|1|A|C|49
3IYR|1|A|G|50
*
3IYR|1|A|C|66
3IYR|1|A|G|67
3IYR|1|A|U|68
3IYR|1|A|A|69
3IYR|1|A|A|70
3IYR|1|A|A|71
3IYR|1|A|A|72
3IYR|1|A|A|73
3IYR|1|A|C|74
3IYR|1|A|C|75
3IYR|1|A|C|76
3IYR|1|A|G|77
3IYR|1|A|C|78
3IYR|1|A|A|79
3IYR|1|A|A|80
3IYR|1|A|C|81
3IYR|1|A|G|82
3IYR|1|A|G|83
3IYR|1|A|C|84
3IYR|1|A|A|85
3IYR|1|A|U|86
3IYR|1|A|A|87
3IYR|1|A|A|88
3IYR|1|A|C|89
3IYR|1|A|U|90
3IYR|1|A|G|91
3IYR|1|A|C|92
3IYR|1|A|C|93
3IYR|1|A|A|94
3IYR|1|A|A|95
3IYR|1|A|C|96
3IYR|1|A|A|97
3IYR|1|A|C|98
3IYR|1|A|C|99
3IYR|1|A|A|100
3IYR|1|A|A|101
3IYR|1|A|C|102
3IYR|1|A|U|103
3IYR|1|A|A|104
3IYR|1|A|C|105
3IYR|1|A|G|106
3IYR|1|A|C|107
3IYR|1|A|U|108
3IYR|1|A|C|109
3IYR|1|A|U|110
*
3IYR|1|A|A|129
3IYR|1|A|C|130
3IYR|1|A|C|131
3IYR|1|A|U|132
*
3IYR|1|A|G|168
3IYR|1|A|G|169
3IYR|1|A|G|170
3IYR|1|A|A|171
3IYR|1|A|C|172
3IYR|1|A|A|173
3IYR|1|A|C|174
3IYR|1|A|A|175
3IYR|1|A|A|176
3IYR|1|A|A|177
3IYR|1|A|C|178
3IYR|1|A|C|179
3IYR|1|A|C|180
3IYR|1|A|G|181
3IYR|1|A|G|182
3IYR|1|A|C|183
3IYR|1|A|U|184
3IYR|1|A|A|185
3IYR|1|A|G|186
3IYR|1|A|C|187
*
3IYR|1|A|G|213
3IYR|1|A|C|214
3IYR|1|A|G|215
3IYR|1|A|A|216
3IYR|1|A|A|217
3IYR|1|A|G|218
3IYR|1|A|C|219
3IYR|1|A|U|220
3IYR|1|A|U|221
3IYR|1|A|G|222
3IYR|1|A|A|223
3IYR|1|A|A|224
3IYR|1|A|G|225
3IYR|1|A|G|226
3IYR|1|A|G|227
3IYR|1|A|G|228
3IYR|1|A|G|229
3IYR|1|A|C|230
3IYR|1|A|U|231
3IYR|1|A|C|232
3IYR|1|A|G|233
3IYR|1|A|C|234
3IYR|1|A|U|235
3IYR|1|A|C|236
3IYR|1|A|C|237
3IYR|1|A|U|238
3IYR|1|A|G|239
3IYR|1|A|G|240
3IYR|1|A|C|241
3IYR|1|A|C|242
3IYR|1|A|G|243
*
3IYR|1|A|C|256
3IYR|1|A|C|257
3IYR|1|A|A|258
3IYR|1|A|A|259
3IYR|1|A|G|260
3IYR|1|A|C|261
3IYR|1|A|C|262
3IYR|1|A|A|263
3IYR|1|A|G|264
3IYR|1|A|G|265
3IYR|1|A|A|266
3IYR|1|A|G|267
3IYR|1|A|G|268
3IYR|1|A|A|269
3IYR|1|A|C|270
3IYR|1|A|A|271
3IYR|1|A|C|272
3IYR|1|A|G|273
3IYR|1|A|C|274
3IYR|1|A|G|275
3IYR|1|A|A|276
3IYR|1|A|A|277
3IYR|1|A|A|278
3IYR|1|A|C|279
3IYR|1|A|G|280
3IYR|1|A|C|281
3IYR|1|A|G|282
3IYR|1|A|G|283
3IYR|1|A|A|284
3IYR|1|A|C|285
3IYR|1|A|U|286
3IYR|1|A|A|287
3IYR|1|A|C|288
3IYR|1|A|G|289

Current chains

Chain A

tmRNA

Nearby chains

Chain B

SsrA-binding protein