IL_5FDU_163

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

CAGC*GG

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

IL_5FDU_163 not in the Motif Atlas

Homologous match to IL_4LFB_049

Geometric discrepancy: 0.2888

The information below is about IL_4LFB_049

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_15052.4

Basepair signature

cWW-L-cWW-L

Number of instances in this motif group

8

Unit IDs

5FDU|1|1a|C|1129
5FDU|1|1a|A|1130
5FDU|1|1a|G|1131
5FDU|1|1a|C|1132
*
5FDU|1|1a|G|1142
5FDU|1|1a|G|1143

Current chains

Chain 1a

16S ribosomal RNA

Nearby chains

Chain 1i

30S ribosomal protein S9