IL_5IT9_020

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

UAUCAA*UUUCAACG

Length

14 nucleotides

Bulged bases

5IT9|1|2|U|312, 5IT9|1|2|C|350

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

IL_5IT9_020 not in the Motif Atlas

Homologous match to IL_4V88_402

Geometric discrepancy: 0.0902

The information below is about IL_4V88_402

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_45067.5

Basepair signature

cWW-tSH-tSS-tHS-R-cWW-cWW-R

Number of instances in this motif group

16

Unit IDs

5IT9|1|2|U|310
5IT9|1|2|A|311
5IT9|1|2|U|312
5IT9|1|2|C|313
5IT9|1|2|A|314
5IT9|1|2|A|315
*
5IT9|1|2|U|347
5IT9|1|2|U|348
5IT9|1|2|U|349
5IT9|1|2|C|350
5IT9|1|2|A|351
5IT9|1|2|A|352
5IT9|1|2|C|353
5IT9|1|2|G|354

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain I

Ribosomal protein eS8

Chain L

Ribosomal protein uS17

Chain X

Ribosomal protein uS21