IL_5FDV_038

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

GUC*GC

Length

5 nucleotides

Bulged bases

5FDV|1|1A|U|1058

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_038 not in the Motif Atlas

Homologous match to IL_7RQB_038

Geometric discrepancy: 0.0484

The information below is about IL_7RQB_038

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|1A|G|1057
5FDV|1|1A|U|1058
5FDV|1|1A|C|1059
*
5FDV|1|1A|G|1195
5FDV|1|1A|C|1196

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1N

50S ribosomal protein L13

Chain 1U

50S ribosomal protein L20