IL_5FDV_025

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

CGC*GGAG

Length

7 nucleotides

Bulged bases

5FDV|1|1A|G|977

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_025 not in the Motif Atlas

Geometric match to IL_7RQB_025

Geometric discrepancy: 0.0628

The information below is about IL_7RQB_025

Detailed Annotation

Intercalated cWW

Broad Annotation

Intercalated cWW

Motif group

IL_52767.4

Basepair signature

cWW-L-R-cWW

Number of instances in this motif group

28

Unit IDs

5FDV|1|1A|C|891
5FDV|1|1A|G|892
5FDV|1|1A|C|893
*
5FDV|1|1A|G|976
5FDV|1|1A|G|977
5FDV|1|1A|A|978
5FDV|1|1A|G|979

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 13

50S ribosomal protein L30