IL_5FDV_193

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|2A|G|801, 5FDV|1|2A|G|805

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_193 not in the Motif Atlas

Homologous match to IL_7RQB_018

Geometric discrepancy: 0.0439

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|2A|G|674
5FDV|1|2A|A|675
5FDV|1|2A|A|676
5FDV|1|2A|A|677
5FDV|1|2A|C|678
*
5FDV|1|2A|G|799
5FDV|1|2A|A|800
5FDV|1|2A|G|801
5FDV|1|2A|A|802
5FDV|1|2A|U|803
5FDV|1|2A|A|804
5FDV|1|2A|G|805
5FDV|1|2A|C|806

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2F

50S ribosomal protein L4

Chain 2P

50S ribosomal protein L15