IL_5FDU_246

3D structure

PDB id

5FDU (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Metalnikowin I antimicrobial peptide bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

GAAG*CC

Length

6 nucleotides

Bulged bases

5FDU|1|2A|A|1847

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_5FDU_246 not in the Motif Atlas

Homologous match to IL_7RQB_073

Geometric discrepancy: 0.0876

The information below is about IL_7RQB_073

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_88739.3

Basepair signature

cWW-L-cWW

Number of instances in this motif group

11

Unit IDs

5FDU|1|2A|G|1846
5FDU|1|2A|A|1847
5FDU|1|2A|A|1848
5FDU|1|2A|G|1849
*
5FDU|1|2A|C|1893
5FDU|1|2A|C|1894

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2D

50S ribosomal protein L2

Chain 2a

Small subunit ribosomal RNA; SSU rRNA