J4_5JVH_003

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

GGUUC*GGAAAG*CC*GCCCGUAC

Length

21 nucleotides

Bulged bases

5JVH|1|X|A|1354

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

J4_5JVH_003 not in the Motif Atlas

Homologous match to J4_7A0S_005

Geometric discrepancy: 0.0671

The information below is about J4_7A0S_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_77353.2

Basepair signature

cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

9

Unit IDs

5JVH|1|X|G|1323
5JVH|1|X|G|1324
5JVH|1|X|U|1325
5JVH|1|X|U|1326
5JVH|1|X|C|1327
*
5JVH|1|X|G|1351
5JVH|1|X|G|1352
5JVH|1|X|A|1353
5JVH|1|X|A|1354
5JVH|1|X|A|1355
5JVH|1|X|G|1356
*
5JVH|1|X|C|1417
5JVH|1|X|C|1418
*
5JVH|1|X|G|1613
5JVH|1|X|C|1614
5JVH|1|X|C|1615
5JVH|1|X|C|1616
5JVH|1|X|G|1617
5JVH|1|X|U|1618
5JVH|1|X|A|1619
5JVH|1|X|C|1620

Current chains

Chain X

23S ribosomal RNA

Nearby chains

Chain 2

50S ribosomal protein L34

Chain Q

50S ribosomal protein L23