J3_7SYU_006

3D structure

PDB id

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

Description

Structure of the delta dII IRES w/o eIF2 48S initiation complex, closed conformation. Structure 13(delta dII)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.6 Å

Loop

Sequence

CCAG*CCAGUAA*UGAUUAAG

Length

19 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

J3_7SYU_006 not in the Motif Atlas

Homologous match to J3_8C3A_038

Geometric discrepancy: 0.1512

The information below is about J3_8C3A_038

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.2

Basepair signature

cWW-tSH-tHW-cSH-cSS-tHH-cSS-tWW-F-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

7SYU|1|2|C|1218
7SYU|1|2|C|1219
7SYU|1|2|A|1220
7SYU|1|2|G|1221
*
7SYU|1|2|C|1645
7SYU|1|2|C|1646
7SYU|1|2|A|1647
7SYU|1|2|G|1648
7SYU|1|2|U|1649
7SYU|1|2|A|1650
7SYU|1|2|A|1651
*
7SYU|1|2|U|1673
7SYU|1|2|G|1674
7SYU|1|2|A|1675
7SYU|1|2|U|1676
7SYU|1|2|U|1677
7SYU|1|2|A|1678
7SYU|1|2|A|1679
7SYU|1|2|G|1680

Current chains

Chain 2

18S rRNA

Nearby chains

Chain G

uS7

Chain R

uS9

Chain d

eS28