IL_5FDV_325

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

GAGUAG*CGCAGAUAC

Length

15 nucleotides

Bulged bases

5FDV|1|2a|A|702

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

IL_5FDV_325 not in the Motif Atlas

Homologous match to IL_4LFB_031

Geometric discrepancy: 0.0904

The information below is about IL_4LFB_031

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_95727.1

Basepair signature

cWW-L-tSH-L-tHW-tHS-R-cWW-L

Number of instances in this motif group

1

Unit IDs

5FDV|1|2a|G|683
5FDV|1|2a|A|684
5FDV|1|2a|G|685
5FDV|1|2a|U|686
5FDV|1|2a|A|687
5FDV|1|2a|G|688
*
5FDV|1|2a|C|699
5FDV|1|2a|G|700
5FDV|1|2a|C|701
5FDV|1|2a|A|702
5FDV|1|2a|G|703
5FDV|1|2a|A|704
5FDV|1|2a|U|705
5FDV|1|2a|A|706
5FDV|1|2a|C|707

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2A

Large subunit ribosomal RNA; LSU rRNA

Chain 2k

30S ribosomal protein S11