IL_4Y1M_004

3D structure

PDB id

4Y1M (explore in PDB, NAKB, or RNA 3D Hub)

Description

An Escherichia coli yybP-ykoY Mn riboswitch in the Mn2+-free state

Experimental method

X-RAY DIFFRACTION

Resolution

3 Å

Loop

Sequence

AACAUUUUC*GU

Length

11 nucleotides

Bulged bases

4Y1M|1|A|A|47, 4Y1M|1|A|U|48, 4Y1M|1|A|U|49, 4Y1M|1|A|U|50, 4Y1M|1|A|U|51

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_4Y1M_004 not in the Motif Atlas

Geometric match to IL_1R3E_001

Geometric discrepancy: 0.2279

The information below is about IL_1R3E_001

Detailed Annotation

Multiple bulged bases

Broad Annotation

No text annotation

Motif group

IL_05670.1

Basepair signature

cWW-cWW

Number of instances in this motif group

9

Unit IDs

4Y1M|1|A|A|44
4Y1M|1|A|A|45
4Y1M|1|A|C|46
4Y1M|1|A|A|47
4Y1M|1|A|U|48
4Y1M|1|A|U|49
4Y1M|1|A|U|50
4Y1M|1|A|U|51
4Y1M|1|A|C|52
*
4Y1M|1|A|G|63
4Y1M|1|A|U|64

Current chains

Chain A

E. coli yybP-ykoY riboswitch

Nearby chains