IL_7SYJ_018

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

UAUCAA*UGACCACG

Length

14 nucleotides

Bulged bases

7SYJ|1|2|U|361, 7SYJ|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_7SYJ_018 not in the Motif Atlas

Geometric match to IL_5J7L_014

Geometric discrepancy: 0.2413

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

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

Current chains

Chain 2

18S rRNA

Nearby chains

Chain J

eS8

Chain M

uS17

Chain Y

uS12