IL_7SYI_056

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

GGAGUAUG*UGAAAC

Length

14 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_056 not in the Motif Atlas

Geometric match to IL_4LFB_034

Geometric discrepancy: 0.1121

The information below is about IL_4LFB_034

Detailed Annotation

8x6 Sarcin-Ricin with inserted Y; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_84044.1

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW-L

Number of instances in this motif group

5

Unit IDs

7SYI|1|2|G|1168
7SYI|1|2|G|1169
7SYI|1|2|A|1170
7SYI|1|2|G|1171
7SYI|1|2|U|1172
7SYI|1|2|A|1173
7SYI|1|2|U|1174
7SYI|1|2|G|1175
*
7SYI|1|2|U|1186
7SYI|1|2|G|1187
7SYI|1|2|A|1188
7SYI|1|2|A|1189
7SYI|1|2|A|1190
7SYI|1|2|C|1191

Current chains

Chain 2

18S rRNA

Nearby chains

Chain Y

uS12

Chain n

60s ribosomal protein l41