J4_5IT9_001

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

CAUUAAAUC*GCC*GUAAC*GG

Length

19 nucleotides

Bulged bases

5IT9|1|2|A|358

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

J4_5IT9_001 not in the Motif Atlas

Homologous match to J4_8P9A_021

Geometric discrepancy: 0.0704

The information below is about J4_8P9A_021

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_15241.2

Basepair signature

cWW-cSH-tHS-cWW-F-F-tHW-F-cWW-tHW-F-cWW

Number of instances in this motif group

3

Unit IDs

5IT9|1|2|C|99
5IT9|1|2|A|100
5IT9|1|2|U|101
5IT9|1|2|U|102
5IT9|1|2|A|103
5IT9|1|2|A|104
5IT9|1|2|A|105
5IT9|1|2|U|106
5IT9|1|2|C|107
*
5IT9|1|2|G|306
5IT9|1|2|C|307
5IT9|1|2|C|308
*
5IT9|1|2|G|356
5IT9|1|2|U|357
5IT9|1|2|A|358
5IT9|1|2|A|359
5IT9|1|2|C|360
*
5IT9|1|2|G|382
5IT9|1|2|G|383

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain E

Ribosomal protein eS4

Chain I

Ribosomal protein eS8

Chain L

Ribosomal protein uS17

Chain X

Ribosomal protein uS21