J4_5FDV_006

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

GAC*GC*GG*CC

Length

9 nucleotides

Bulged bases

5FDV|1|1A|A|1491

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

J4_5FDV_006 not in the Motif Atlas

Homologous match to J4_9DFE_006

Geometric discrepancy: 0.2132

The information below is about J4_9DFE_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_24280.2

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

5

Unit IDs

5FDV|1|1A|G|1490
5FDV|1|1A|A|1491
5FDV|1|1A|C|1492
*
5FDV|1|1A|G|1513
5FDV|1|1A|C|1514
*
5FDV|1|1A|G|1571
5FDV|1|1A|G|1572
*
5FDV|1|1A|C|1593
5FDV|1|1A|C|1594

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains