IL_7SYI_055

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

GCGU*ACC

Length

7 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

IL_7SYI_055 not in the Motif Atlas

Geometric match to IL_4V88_411

Geometric discrepancy: 0.3614

The information below is about IL_4V88_411

Detailed Annotation

Minor groove platform with extra cWW

Broad Annotation

Minor groove platform

Motif group

IL_46796.2

Basepair signature

cWW-tHS-cWW-cWW

Number of instances in this motif group

6

Unit IDs

7SYI|1|2|G|1108
7SYI|1|2|C|1109
7SYI|1|2|G|1110
7SYI|1|2|U|1111
*
7SYI|1|2|A|1122
7SYI|1|2|C|1123
7SYI|1|2|C|1124

Current chains

Chain 2

18S rRNA

Nearby chains

Chain B

40S ribosomal protein SA

Chain C

eS1

Chain S

eS17

Chain c

eS27

Chain z

Internal ribosome entry site; IRES