Loop J5_9DOV

3D structure

PDB id: 9DOV (explore in PDB, NAKB, or RNA 3D Hub)
Description: Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES) and hygromycin B
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.49 Å

Loop

Sequence: AUAGUUCCUUUACUACAUGG*CAUGCUUAAAA*UG*CGAAU*AUGGUU
Length: 44 nucleotides
Bulged bases: 9DOV|1|B5|C|131, 9DOV|1|B5|U|132, 9DOV|1|B5|U|134, 9DOV|1|B5|A|135, 9DOV|1|B5|U|137, 9DOV|1|B5|A|140, 9DOV|1|B5|U|141, 9DOV|1|B5|U|178
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

9DOV|1|B5|A|124
9DOV|1|B5|U|125
9DOV|1|B5|A|126
9DOV|1|B5|G|127
9DOV|1|B5|U|128
9DOV|1|B5|U|129
9DOV|1|B5|C|130
9DOV|1|B5|C|131
9DOV|1|B5|U|132
9DOV|1|B5|U|133
9DOV|1|B5|U|134
9DOV|1|B5|A|135
9DOV|1|B5|C|136
9DOV|1|B5|U|137
9DOV|1|B5|A|138
9DOV|1|B5|C|139
9DOV|1|B5|A|140
9DOV|1|B5|U|141
9DOV|1|B5|G|142
9DOV|1|B5|G|143
*
9DOV|1|B5|C|172
9DOV|1|B5|A|173
9DOV|1|B5|U|174
9DOV|1|B5|G|175
9DOV|1|B5|C|176
9DOV|1|B5|U|177
9DOV|1|B5|U|178
9DOV|1|B5|A|179
9DOV|1|B5|A|180
9DOV|1|B5|A|181
9DOV|1|B5|A|182
*
9DOV|1|B5|U|203
9DOV|1|B5|G|204
*
9DOV|1|B5|C|263
9DOV|1|B5|G|264
9DOV|1|B5|A|265
9DOV|1|B5|A|266
9DOV|1|B5|U|267
*
9DOV|1|B5|A|288
9DOV|1|B5|U|289
9DOV|1|B5|G|290
9DOV|1|B5|G|291
9DOV|1|B5|U|292
9DOV|1|B5|U|293

Current chains

Chain B5: 18S rRNA

Nearby chains

Chain BE: 40S ribosomal protein S4-A
Chain BG: 40S ribosomal protein S6-A
Chain BI: 40S ribosomal protein S8-A

J5_9DOV_010