IL_5FDV_254

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

GUG*CC

Length

5 nucleotides

Bulged bases

5FDV|1|2A|U|2068

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_254 not in the Motif Atlas

Homologous match to IL_7RQB_080

Geometric discrepancy: 0.0641

The information below is about IL_7RQB_080

Detailed Annotation

Single bulged U

Broad Annotation

No text annotation

Motif group

IL_83039.16

Basepair signature

cWW-L-cWW

Number of instances in this motif group

116

Unit IDs

5FDV|1|2A|G|2067
5FDV|1|2A|U|2068
5FDV|1|2A|G|2069
*
5FDV|1|2A|C|2442
5FDV|1|2A|C|2443

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2F

50S ribosomal protein L4

Chain 2P

50S ribosomal protein L15