J3_5BJO_002

3D structure

PDB id

5BJO (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Corn RNA aptamer in complex with DFHO, site-specific 5-iodo-U

Experimental method

X-RAY DIFFRACTION

Resolution

2.35 Å

Loop

Sequence

CGAGG*CUG*CACUG

Length

13 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

J3_5BJO_002 not in the Motif Atlas

Geometric match to J3_5BJO_001

Geometric discrepancy: 0.1324

The information below is about J3_5BJO_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_20650.1

Basepair signature

cWW-F-F-F-F-cSS-cWW-cWW-F

Number of instances in this motif group

1

Unit IDs

5BJO|1|Y|C|5
5BJO|1|Y|G|6
5BJO|1|Y|A|7
5BJO|1|Y|G|8
5BJO|1|Y|G|9
*
5BJO|1|Y|C|18
5BJO|1|Y|U|19
5BJO|1|Y|G|20
*
5BJO|1|Y|C|28
5BJO|1|Y|A|29
5BJO|1|Y|C|30
5BJO|1|Y|U|31
5BJO|1|Y|G|32

Current chains

Chain Y

RNA (36-MER)

Nearby chains