IL_7SYI_020

3D structure

PDB id

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

Description

Structure of the HCV IRES binding to the 40S ribosomal subunit, closed conformation. Structure 3(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.5 Å

Loop

Sequence

UAUCAA*UGACCACG

Length

14 nucleotides

Bulged bases

7SYI|1|2|U|361, 7SYI|1|2|C|399

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_7SYI_020 not in the Motif Atlas

Geometric match to IL_5J7L_014

Geometric discrepancy: 0.1842

The information below is about IL_5J7L_014

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_46174.3

Basepair signature

cWW-cSS-tSS-tSH-L-cWW-tHW-cWW

Number of instances in this motif group

5

Unit IDs

7SYI|1|2|U|359
7SYI|1|2|A|360
7SYI|1|2|U|361
7SYI|1|2|C|362
7SYI|1|2|A|363
7SYI|1|2|A|364
*
7SYI|1|2|U|396
7SYI|1|2|G|397
7SYI|1|2|A|398
7SYI|1|2|C|399
7SYI|1|2|C|400
7SYI|1|2|A|401
7SYI|1|2|C|402
7SYI|1|2|G|403

Current chains

Chain 2

18S rRNA

Nearby chains

Chain J

eS8

Chain M

uS17

Chain Y

uS12