HL_5FDV_197

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

CGUGAG

Length

6 nucleotides

Bulged bases

None detected

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_197 not in the Motif Atlas

Homologous match to HL_5J7L_023

Geometric discrepancy: 0.0808

The information below is about HL_5J7L_023

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|2a|C|1076
5FDV|1|2a|G|1077
5FDV|1|2a|U|1078
5FDV|1|2a|G|1079
5FDV|1|2a|A|1080
5FDV|1|2a|G|1081

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2b

30S ribosomal protein S2

Chain 2e

30S ribosomal protein S5

Chain 2h

30S ribosomal protein S8