HL_5FDV_052

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

CUG(OMG)GGCGG

Length

9 nucleotides

Bulged bases

5FDV|1|1A|G|2262

QA status

Modified nucleotides: OMG

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

HL_5FDV_052 not in the Motif Atlas

Homologous match to HL_7RQB_053

Geometric discrepancy: 0.0692

The information below is about HL_7RQB_053

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5FDV|1|1A|C|2260
5FDV|1|1A|U|2261
5FDV|1|1A|G|2262
5FDV|1|1A|OMG|2263
5FDV|1|1A|G|2264
5FDV|1|1A|G|2265
5FDV|1|1A|C|2266
5FDV|1|1A|G|2267
5FDV|1|1A|G|2268

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 10

50S ribosomal protein L27

Chain 1Q

50S ribosomal protein L16