IL_2GDI_010

3D structure

PDB id

2GDI (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of thiamine pyrophosphate-specific riboswitch in complex with thiamine pyrophosphate

Experimental method

X-RAY DIFFRACTION

Resolution

2.05 Å

Loop

Sequence

GGUG*CUGAGAAAUAC

Length

15 nucleotides

Bulged bases

2GDI|1|Y|U|46

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_2GDI_010 not in the Motif Atlas

Geometric match to IL_7TZS_009

Geometric discrepancy: 0.1388

The information below is about IL_7TZS_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_44624.1

Basepair signature

cWW-tWH-cWW-L-cWW-tSS-cSS-cWW-L

Number of instances in this motif group

2

Unit IDs

2GDI|1|Y|G|18
2GDI|1|Y|G|19
2GDI|1|Y|U|20
2GDI|1|Y|G|21
*
2GDI|1|Y|C|38
2GDI|1|Y|U|39
2GDI|1|Y|G|40
2GDI|1|Y|A|41
2GDI|1|Y|G|42
2GDI|1|Y|A|43
2GDI|1|Y|A|44
2GDI|1|Y|A|45
2GDI|1|Y|U|46
2GDI|1|Y|A|47
2GDI|1|Y|C|48

Current chains

Chain Y

TPP riboswitch

Nearby chains