IL_5FDV_018

3D structure

PDB id

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

Description

Crystal structure of the Pyrrhocoricin antimicrobial peptide bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

GAAAC*GAGAUAGC

Length

13 nucleotides

Bulged bases

5FDV|1|1A|G|848, 5FDV|1|1A|G|852

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_5FDV_018 not in the Motif Atlas

Geometric match to IL_7RQB_018

Geometric discrepancy: 0.0357

The information below is about IL_7RQB_018

Detailed Annotation

tHW-tHW cross-strand stack

Broad Annotation

No text annotation

Motif group

IL_17470.6

Basepair signature

cWW-tWW-L-R-tWH-L-cWW

Number of instances in this motif group

7

Unit IDs

5FDV|1|1A|G|721
5FDV|1|1A|A|722
5FDV|1|1A|A|723
5FDV|1|1A|A|724
5FDV|1|1A|C|725
*
5FDV|1|1A|G|846
5FDV|1|1A|A|847
5FDV|1|1A|G|848
5FDV|1|1A|A|849
5FDV|1|1A|U|850
5FDV|1|1A|A|851
5FDV|1|1A|G|852
5FDV|1|1A|C|853

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1F

50S ribosomal protein L4

Chain 1P

50S ribosomal protein L15