IL_5JVH_106

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

GGAA*UC

Length

6 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

IL_5JVH_106 not in the Motif Atlas

Geometric match to IL_7A0S_061

Geometric discrepancy: 0.0752

The information below is about IL_7A0S_061

Detailed Annotation

Major groove platform; stack outside cWW

Broad Annotation

Major groove platform

Motif group

IL_74641.3

Basepair signature

cWW-tSH-cWW-L

Number of instances in this motif group

36

Unit IDs

5JVH|1|X|G|1683
5JVH|1|X|G|1684
5JVH|1|X|A|1685
5JVH|1|X|A|1686
*
5JVH|1|X|U|1976
5JVH|1|X|C|1977

Current chains

Chain X

23S ribosomal RNA

Nearby chains

Chain B

50S ribosomal protein L3

Chain H

50S ribosomal protein L14