IL_5OB3_005

3D structure

PDB id

5OB3 (explore in PDB, NAKB, or RNA 3D Hub)

Description

iSpinach aptamer

Experimental method

X-RAY DIFFRACTION

Resolution

2 Å

Loop

Sequence

GAGGGUCGGGU*AGUAGAGUGUGGGC

Length

25 nucleotides

Bulged bases

5OB3|1|A|U|17, 5OB3|1|A|A|48, 5OB3|1|A|A|50, 5OB3|1|A|U|52

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_5OB3_005 not in the Motif Atlas

Geometric match to IL_7L0Z_005

Geometric discrepancy: 0.0308

The information below is about IL_7L0Z_005

Detailed Annotation

G-quadruplex

Broad Annotation

No text annotation

Motif group

IL_64858.3

Basepair signature

cWW-cHW-cWH-R-L-cWH-cHW-cHW-cWH-cWH-cHW-L-cWW-L-R-cWW-L-cWW

Number of instances in this motif group

6

Unit IDs

5OB3|1|A|G|12
5OB3|1|A|A|13
5OB3|1|A|G|14
5OB3|1|A|G|15
5OB3|1|A|G|16
5OB3|1|A|U|17
5OB3|1|A|C|18
5OB3|1|A|G|19
5OB3|1|A|G|20
5OB3|1|A|G|21
5OB3|1|A|U|22
*
5OB3|1|A|A|45
5OB3|1|A|G|46
5OB3|1|A|U|47
5OB3|1|A|A|48
5OB3|1|A|G|49
5OB3|1|A|A|50
5OB3|1|A|G|51
5OB3|1|A|U|52
5OB3|1|A|G|53
5OB3|1|A|U|54
5OB3|1|A|G|55
5OB3|1|A|G|56
5OB3|1|A|G|57
5OB3|1|A|C|58

Current chains

Chain A

RNA aptamer (69-MER)

Nearby chains