HL_5FDV_082

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

CGACGAG

Length

7 nucleotides

Bulged bases

5FDV|1|1a|C|470

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

HL_5FDV_082 not in the Motif Atlas

Homologous match to HL_4LFB_012

Geometric discrepancy: 0.1064

The information below is about HL_4LFB_012

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_37824.7

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

349

Unit IDs

5FDV|1|1a|C|458
5FDV|1|1a|G|460
5FDV|1|1a|A|461
5FDV|1|1a|C|470
5FDV|1|1a|G|471
5FDV|1|1a|A|472
5FDV|1|1a|G|473

Current chains

Chain 1a

16S ribosomal RNA

Nearby chains

Chain 1p

30S ribosomal protein S16