HL_3J6Y_006

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

GAUGAUUC

Length

8 nucleotides

Bulged bases

3J6Y|1|1S|U|249

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_3J6Y_006 not in the Motif Atlas

Homologous match to HL_4V88_191

Geometric discrepancy: 0.3166

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

3J6Y|1|1S|G|243
3J6Y|1|1S|A|244
3J6Y|1|1S|U|245
3J6Y|1|1S|G|246
3J6Y|1|1S|A|247
3J6Y|1|1S|U|248
3J6Y|1|1S|U|249
3J6Y|1|1S|C|250

Current chains

Chain 1S

18S ribosomal RNA

Nearby chains

Chain 11

40S ribosomal protein S11

Chain S4

40S ribosomal protein S4