HL_7SYJ_001

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

GUUGAUCCUGC

Length

11 nucleotides

Bulged bases

None detected

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_001 not in the Motif Atlas

Geometric match to HL_4V88_186

Geometric discrepancy: 0.2536

The information below is about HL_4V88_186

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_89881.2

Basepair signature

cWW-tHW-F-F-F-F-F-F

Number of instances in this motif group

5

Unit IDs

7SYJ|1|2|G|7
7SYJ|1|2|U|8
7SYJ|1|2|U|9
7SYJ|1|2|G|10
7SYJ|1|2|A|11
7SYJ|1|2|U|12
7SYJ|1|2|C|13
7SYJ|1|2|C|14
7SYJ|1|2|U|15
7SYJ|1|2|G|16
7SYJ|1|2|C|17

Current chains

Chain 2

18S rRNA

Nearby chains

Chain D

uS5 (S2)

Chain Y

uS12