IL_5FDU_248

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

GGGAG*CGAAC

Length

10 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

IL_5FDU_248 not in the Motif Atlas

Homologous match to IL_7RQB_075

Geometric discrepancy: 0.0888

The information below is about IL_7RQB_075

Detailed Annotation

Triple sheared

Broad Annotation

No text annotation

Motif group

IL_56467.8

Basepair signature

cWW-tSH-tSH-tHS-cWW

Number of instances in this motif group

29

Unit IDs

5FDU|1|2A|G|1856
5FDU|1|2A|G|1857
5FDU|1|2A|G|1858
5FDU|1|2A|A|1859
5FDU|1|2A|G|1860
*
5FDU|1|2A|C|1882
5FDU|1|2A|G|1883
5FDU|1|2A|A|1884
5FDU|1|2A|A|1885
5FDU|1|2A|C|1886

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L28