HL_4E8M_002

3D structure

PDB id

4E8M (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of Oceanobacillus iheyensis group II intron in a ligand-free state in the presence of K+ and Mg2+

Experimental method

X-RAY DIFFRACTION

Resolution

3.5 Å

Loop

Sequence

UGAAGGCAGAAGUAA

Length

15 nucleotides

Bulged bases

4E8M|1|A|A|50

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

HL_4E8M_002 not in the Motif Atlas

Geometric match to HL_3IGI_002

Geometric discrepancy: 0.1018

The information below is about HL_3IGI_002

Detailed Annotation

Pseudoknot geometry with G-bulge

Broad Annotation

No text annotation

Motif group

HL_94488.1

Basepair signature

cWW-tSH-tHW-F-F-F-F-F-F

Number of instances in this motif group

2

Unit IDs

4E8M|1|A|U|47
4E8M|1|A|G|48
4E8M|1|A|A|49
4E8M|1|A|A|50
4E8M|1|A|G|51
4E8M|1|A|G|52
4E8M|1|A|C|53
4E8M|1|A|A|54
4E8M|1|A|G|55
4E8M|1|A|A|56
4E8M|1|A|A|57
4E8M|1|A|G|58
4E8M|1|A|U|59
4E8M|1|A|A|60
4E8M|1|A|A|61

Current chains

Chain A

Group IIC intron

Nearby chains