HL_7SYJ_048

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

GAGCGAUU

Length

8 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_048 not in the Motif Atlas

Geometric match to HL_3RG5_006

Geometric discrepancy: 0.3191

The information below is about HL_3RG5_006

Detailed Annotation

tRNA anticodon loop

Broad Annotation

tRNA anticodon loop

Motif group

HL_04259.3

Basepair signature

cWW-F-F-F-F-F-F

Number of instances in this motif group

7

Unit IDs

7SYJ|1|2|G|1352
7SYJ|1|2|A|1353
7SYJ|1|2|G|1354
7SYJ|1|2|C|1355
7SYJ|1|2|G|1356
7SYJ|1|2|A|1357
7SYJ|1|2|U|1358
7SYJ|1|2|U|1359

Current chains

Chain 2

18S rRNA

Nearby chains

Chain B

40S ribosomal protein SA

Chain D

uS5 (S2)

Chain W

40S ribosomal protein S21