J5_7SYL_005

3D structure

PDB id

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

Description

Structure of the HCV IRES bound to the 40S ribosomal subunit, closed conformation. Structure 6(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.5 Å

Loop

Sequence

CUUGU*AAAUAACA*UGGAAUG*CCAU*AUAG

Length

28 nucleotides

Bulged bases

7SYL|1|2|C|593

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

J5_7SYL_005 not in the Motif Atlas

Homologous match to J5_8CRE_018

Geometric discrepancy: 0.4897

The information below is about J5_8CRE_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_04786.1

Basepair signature

cWW-F-F-F-F-F-cWW-cWW-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

2

Unit IDs

7SYL|1|2|C|30
7SYL|1|2|U|31
7SYL|1|2|U|32
7SYL|1|2|G|33
7SYL|1|2|U|34
*
7SYL|1|2|A|521
7SYL|1|2|A|522
7SYL|1|2|A|523
7SYL|1|2|U|524
7SYL|1|2|A|525
7SYL|1|2|A|526
7SYL|1|2|C|527
7SYL|1|2|A|528
*
7SYL|1|2|U|557
7SYL|1|2|G|558
7SYL|1|2|G|559
7SYL|1|2|A|560
7SYL|1|2|A|561
7SYL|1|2|U|562
7SYL|1|2|G|563
*
7SYL|1|2|C|592
7SYL|1|2|C|593
7SYL|1|2|A|594
7SYL|1|2|U|595
*
7SYL|1|2|A|641
7SYL|1|2|U|642
7SYL|1|2|A|643
7SYL|1|2|G|644

Current chains

Chain 2

18S rRNA

Nearby chains

Chain K

uS4

Chain Y

uS12

Chain f

eS30