IL_3J6Y_014

3D structure

PDB id

3J6Y (explore in PDB, NAKB, or RNA 3D Hub)

Description

S. cerevisiae 80S ribosome bound with Taura syndrome virus (TSV) IRES, 2 degree rotation (Class I)

Experimental method

ELECTRON MICROSCOPY

Resolution

6.1 Å

Loop

Sequence

GUA*UUUUC

Length

8 nucleotides

Bulged bases

3J6Y|1|1S|U|260

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_3J6Y_014 not in the Motif Atlas

Homologous match to IL_4V88_397

Geometric discrepancy: 0.2153

The information below is about IL_4V88_397

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

No text annotation

Motif group

IL_63959.1

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

18

Unit IDs

3J6Y|1|1S|G|204
3J6Y|1|1S|U|205
3J6Y|1|1S|A|206
*
3J6Y|1|1S|U|259
3J6Y|1|1S|U|260
3J6Y|1|1S|U|261
3J6Y|1|1S|U|262
3J6Y|1|1S|C|263

Current chains

Chain 1S

18S ribosomal RNA

Nearby chains

Chain S4

40S ribosomal protein S4

Chain S6

40S ribosomal protein S6

Chain S8

40S ribosomal protein S8