HL_7SYJ_005

3D structure

PDB id

7SYJ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the HCV IRES binding to the 40S ribosomal subunit, closed conformation. Structure 4(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.8 Å

Loop

Sequence

GGUGACUC

Length

8 nucleotides

Bulged bases

7SYJ|1|2|U|294

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_7SYJ_005 not in the Motif Atlas

Geometric match to HL_4V88_191

Geometric discrepancy: 0.2988

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

7SYJ|1|2|G|288
7SYJ|1|2|G|289
7SYJ|1|2|U|290
7SYJ|1|2|G|291
7SYJ|1|2|A|292
7SYJ|1|2|C|293
7SYJ|1|2|U|294
7SYJ|1|2|C|295

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

40S ribosomal protein S4

Chain H

eS6

Chain M

uS17