HL_5IT9_006

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

GAUGAUUC

Length

8 nucleotides

Bulged bases

5IT9|1|2|U|248

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

HL_5IT9_006 not in the Motif Atlas

Homologous match to HL_4V88_191

Geometric discrepancy: 0.1467

The information below is about HL_4V88_191

Detailed Annotation

T-loop with 1 bulged base

Broad Annotation

T-loop

Motif group

HL_77436.2

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

23

Unit IDs

5IT9|1|2|G|242
5IT9|1|2|A|243
5IT9|1|2|U|244
5IT9|1|2|G|245
5IT9|1|2|A|246
5IT9|1|2|U|247
5IT9|1|2|U|248
5IT9|1|2|C|249

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain E

Ribosomal protein eS4

Chain G

Ribosomal protein eS6

Chain L

Ribosomal protein uS17