IL_4Y1M_002

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

GGGAGUAG*CGAGAC

Length

14 nucleotides

Bulged bases

4Y1M|1|A|A|11

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_002 not in the Motif Atlas

Geometric match to IL_4Y1M_006

Geometric discrepancy: 0.15

The information below is about IL_4Y1M_006

Detailed Annotation

8x6 Sarcin-Ricin with bulged A; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_02349.4

Basepair signature

cWW-tSH-tWH-cSH-tWH-tHS-cWW

Number of instances in this motif group

3

Unit IDs

4Y1M|1|A|G|8
4Y1M|1|A|G|9
4Y1M|1|A|G|10
4Y1M|1|A|A|11
4Y1M|1|A|G|12
4Y1M|1|A|U|13
4Y1M|1|A|A|14
4Y1M|1|A|G|15
*
4Y1M|1|A|C|96
4Y1M|1|A|G|97
4Y1M|1|A|A|98
4Y1M|1|A|G|99
4Y1M|1|A|A|100
4Y1M|1|A|C|101

Current chains

Chain A

E. coli yybP-ykoY riboswitch

Nearby chains