HL_5FDV_170

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

GAAGACCAC

Length

9 nucleotides

Bulged bases

5FDV|1|2A|A|2820

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_170 not in the Motif Atlas

Homologous match to HL_7RQB_068

Geometric discrepancy: 0.0561

The information below is about HL_7RQB_068

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_64690.1

Basepair signature

cWW-cSW-F-F-F-F

Number of instances in this motif group

9

Unit IDs

5FDV|1|2A|G|2819
5FDV|1|2A|A|2820
5FDV|1|2A|A|2821
5FDV|1|2A|G|2822
5FDV|1|2A|A|2823
5FDV|1|2A|C|2824
5FDV|1|2A|C|2825
5FDV|1|2A|A|2826
5FDV|1|2A|C|2827

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2E

50S ribosomal protein L3

Chain 2R

50S ribosomal protein L17

Chain 2T

50S ribosomal protein L19