J3_2GDI_001

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

UC*GUAUCAC*GGAA

Length

13 nucleotides

Bulged bases

2GDI|1|X|U|54, 2GDI|1|X|C|55

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

J3_2GDI_001 not in the Motif Atlas

Geometric match to J3_8F4O_001

Geometric discrepancy: 0.3511

The information below is about J3_8F4O_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_04521.1

Basepair signature

cWW-F-cWW-tHS-cWW-F

Number of instances in this motif group

2

Unit IDs

2GDI|1|X|U|14
2GDI|1|X|C|15
*
2GDI|1|X|G|51
2GDI|1|X|U|52
2GDI|1|X|A|53
2GDI|1|X|U|54
2GDI|1|X|C|55
2GDI|1|X|A|56
2GDI|1|X|C|57
*
2GDI|1|X|G|82
2GDI|1|X|G|83
2GDI|1|X|A|84
2GDI|1|X|A|85

Current chains

Chain X

TPP riboswitch

Nearby chains