HL_5FDV_210

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

CCCUUGGG

Length

8 nucleotides

Bulged bases

5FDV|1|1a|U|189|||F, 5FDV|1|1a|G|189|||G

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_210 not in the Motif Atlas

Geometric match to HL_1FIR_001

Geometric discrepancy: 0.3857

The information below is about HL_1FIR_001

Detailed Annotation

tRNA D-loop

Broad Annotation

No text annotation

Motif group

HL_20811.1

Basepair signature

cWW-cWS-F

Number of instances in this motif group

18

Unit IDs

5FDV|1|1a|C|189|||B
5FDV|1|1a|C|189|||C
5FDV|1|1a|C|189|||D
5FDV|1|1a|U|189|||E
5FDV|1|1a|U|189|||F
5FDV|1|1a|G|189|||G
5FDV|1|1a|G|189|||H
5FDV|1|1a|G|189|||I

Current chains

Chain 1a

16S ribosomal RNA

Nearby chains

Chain 1q

30S ribosomal protein S17

Chain 1t

30S ribosomal protein S20