J5_5JVH_001

3D structure

PDB id

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

Description

The crystal structure large ribosomal subunit (50S) of Deinococcus radiodurans in complex with evernimicin

Experimental method

X-RAY DIFFRACTION

Resolution

3.58 Å

Loop

Sequence

CGAUGAAG*CGAAUG*CA*UA*UG

Length

20 nucleotides

Bulged bases

5JVH|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_5JVH_001 not in the Motif Atlas

Homologous match to J5_7A0S_001

Geometric discrepancy: 0.0851

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

5JVH|1|X|C|46
5JVH|1|X|G|47
5JVH|1|X|A|48
5JVH|1|X|U|49
5JVH|1|X|G|50
5JVH|1|X|A|51
5JVH|1|X|A|52
5JVH|1|X|G|53
*
5JVH|1|X|C|114
5JVH|1|X|G|115
5JVH|1|X|A|116
5JVH|1|X|A|117
5JVH|1|X|U|118
5JVH|1|X|G|119
*
5JVH|1|X|C|128
5JVH|1|X|A|129
*
5JVH|1|X|U|142
5JVH|1|X|A|143
*
5JVH|1|X|U|154
5JVH|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