J5_5IT9_005

3D structure

PDB id

5IT9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the yeast Kluyveromyces lactis small ribosomal subunit in complex with the cricket paralysis virus IRES.

Experimental method

ELECTRON MICROSCOPY

Resolution

3.8 Å

Loop

Sequence

AUAGUUCCUUUACUACAU*AUGCUUAAAA*UG*CGAAUC*GAUGGUU

Length

43 nucleotides

Bulged bases

5IT9|1|2|U|128, 5IT9|1|2|U|132, 5IT9|1|2|U|133, 5IT9|1|2|U|134, 5IT9|1|2|A|135, 5IT9|1|2|C|136, 5IT9|1|2|C|139, 5IT9|1|2|A|140, 5IT9|1|2|U|177

QA status

Valid loop

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

5IT9|1|2|A|124
5IT9|1|2|U|125
5IT9|1|2|A|126
5IT9|1|2|G|127
5IT9|1|2|U|128
5IT9|1|2|U|129
5IT9|1|2|C|130
5IT9|1|2|C|131
5IT9|1|2|U|132
5IT9|1|2|U|133
5IT9|1|2|U|134
5IT9|1|2|A|135
5IT9|1|2|C|136
5IT9|1|2|U|137
5IT9|1|2|A|138
5IT9|1|2|C|139
5IT9|1|2|A|140
5IT9|1|2|U|141
*
5IT9|1|2|A|172
5IT9|1|2|U|173
5IT9|1|2|G|174
5IT9|1|2|C|175
5IT9|1|2|U|176
5IT9|1|2|U|177
5IT9|1|2|A|178
5IT9|1|2|A|179
5IT9|1|2|A|180
5IT9|1|2|A|181
*
5IT9|1|2|U|202
5IT9|1|2|G|203
*
5IT9|1|2|C|262
5IT9|1|2|G|263
5IT9|1|2|A|264
5IT9|1|2|A|265
5IT9|1|2|U|266
5IT9|1|2|C|267
*
5IT9|1|2|G|286
5IT9|1|2|A|287
5IT9|1|2|U|288
5IT9|1|2|G|289
5IT9|1|2|G|290
5IT9|1|2|U|291
5IT9|1|2|U|292

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain E

Ribosomal protein eS4

Chain G

Ribosomal protein eS6

Chain I

Ribosomal protein eS8