IL_2YDH_004

3D structure

PDB id

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

Description

Crystal structure of the SAM-I riboswitch A94G U34 G18U G19U variant in complex with SAM

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

UCCUGC*GAAA

Length

10 nucleotides

Bulged bases

None detected

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_2YDH_004 not in the Motif Atlas

Homologous match to IL_5FJC_004

Geometric discrepancy: 0.1221

The information below is about IL_5FJC_004

Detailed Annotation

Pseudoknot

Broad Annotation

Pseudoknot

Motif group

IL_69145.4

Basepair signature

cWW-L-R-L-R-L-cWW-L

Number of instances in this motif group

4

Unit IDs

2YDH|1|A|U|64
2YDH|1|A|C|65
2YDH|1|A|C|66
2YDH|1|A|U|67
2YDH|1|A|G|68
2YDH|1|A|C|69
*
2YDH|1|A|G|82
2YDH|1|A|A|83
2YDH|1|A|A|84
2YDH|1|A|A|85

Current chains

Chain A

SAM-I RIBOSWITCH

Nearby chains