J5_5JVH_004

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

GCAAUCUCA*UC*GC*GUGAAUAGG*CGC

Length

25 nucleotides

Bulged bases

5JVH|1|X|G|1749, 5JVH|1|X|G|1754

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_004 not in the Motif Atlas

Homologous match to J5_9DFE_005

Geometric discrepancy: 0.186

The information below is about J5_9DFE_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_99177.2

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

11

Unit IDs

5JVH|1|X|G|1691
5JVH|1|X|C|1692
5JVH|1|X|A|1693
5JVH|1|X|A|1694
5JVH|1|X|U|1695
5JVH|1|X|C|1696
5JVH|1|X|U|1697
5JVH|1|X|C|1698
5JVH|1|X|A|1699
*
5JVH|1|X|U|1723
5JVH|1|X|C|1724
*
5JVH|1|X|G|1742
5JVH|1|X|C|1743
*
5JVH|1|X|G|1747
5JVH|1|X|U|1748
5JVH|1|X|G|1749
5JVH|1|X|A|1750
5JVH|1|X|A|1751
5JVH|1|X|U|1752
5JVH|1|X|A|1753
5JVH|1|X|G|1754
5JVH|1|X|G|1755
*
5JVH|1|X|C|1971
5JVH|1|X|G|1972
5JVH|1|X|C|1973

Current chains

Chain X

23S ribosomal RNA

Nearby chains

Chain B

50S ribosomal protein L3

Chain H

50S ribosomal protein L14

Chain M

50S ribosomal protein L19