J5_4IO9_001

3D structure

PDB id

4IO9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of compound 4d bound to large ribosomal subunit (50S) from Deinococcus radiodurans

Experimental method

X-RAY DIFFRACTION

Resolution

3.2 Å

Loop

Sequence

CGAUGAAG*CGAAUG*CA*UA*UG

Length

20 nucleotides

Bulged bases

4IO9|1|X|U|49

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

J5_4IO9_001 not in the Motif Atlas

Homologous match to J5_7A0S_001

Geometric discrepancy: 0.0846

The information below is about J5_7A0S_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_75459.1

Basepair signature

cWW-F-cWW-cHW-tSH-cWW-tHH-tHS-cWW-cWW

Number of instances in this motif group

2

Unit IDs

4IO9|1|X|C|46
4IO9|1|X|G|47
4IO9|1|X|A|48
4IO9|1|X|U|49
4IO9|1|X|G|50
4IO9|1|X|A|51
4IO9|1|X|A|52
4IO9|1|X|G|53
*
4IO9|1|X|C|114
4IO9|1|X|G|115
4IO9|1|X|A|116
4IO9|1|X|A|117
4IO9|1|X|U|118
4IO9|1|X|G|119
*
4IO9|1|X|C|128
4IO9|1|X|A|129
*
4IO9|1|X|U|142
4IO9|1|X|A|143
*
4IO9|1|X|U|154
4IO9|1|X|G|155

Current chains

Chain X

23S ribosomal RNA

Nearby chains

Chain 2

50S ribosomal protein L34

Chain Q

50S ribosomal protein L23