IL_7SYJ_029

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

GUGCCAG*CGGUAAUUC

Length

16 nucleotides

Bulged bases

7SYJ|1|2|A|628, 7SYJ|1|2|U|630, 7SYJ|1|2|U|631

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_029 not in the Motif Atlas

Geometric match to IL_4V88_415

Geometric discrepancy: 0.2474

The information below is about IL_4V88_415

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_54177.1

Basepair signature

cWW-cSW-tWH-L-R-L-R-tHS-cWW

Number of instances in this motif group

5

Unit IDs

7SYJ|1|2|G|611
7SYJ|1|2|U|612
7SYJ|1|2|G|613
7SYJ|1|2|C|614
7SYJ|1|2|C|615
7SYJ|1|2|A|616
7SYJ|1|2|G|617
*
7SYJ|1|2|C|624
7SYJ|1|2|G|625
7SYJ|1|2|G|626
7SYJ|1|2|U|627
7SYJ|1|2|A|628
7SYJ|1|2|A|629
7SYJ|1|2|U|630
7SYJ|1|2|U|631
7SYJ|1|2|C|632

Current chains

Chain 2

18S rRNA

Nearby chains

Chain E

uS3

Chain Y

uS12

Chain f

eS30