HL_7SYN_008

3D structure

PDB id

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

Description

Structure of the HCV IRES bound to the 40S ribosomal subunit, head opening. Structure 8(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4 Å

Loop

Sequence

UCAGGG

Length

6 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_7SYN_008 not in the Motif Atlas

Geometric match to HL_4V88_194

Geometric discrepancy: 0.1837

The information below is about HL_4V88_194

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_50142.3

Basepair signature

cWW-cWW-F-F-F

Number of instances in this motif group

3

Unit IDs

7SYN|1|2|U|416
7SYN|1|2|C|417
7SYN|1|2|A|418
7SYN|1|2|G|419
7SYN|1|2|G|420
7SYN|1|2|G|421

Current chains

Chain 2

18S rRNA

Nearby chains

Chain D

40S ribosomal protein S2

Chain K

uS4

Chain M

uS17

Chain X

uS8

Chain Y

uS12