IL_5FDU_302

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

CAUCAG*CGACGACG

Length

14 nucleotides

Bulged bases

5FDU|1|2a|U|244, 5FDU|1|2a|C|280

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_302 not in the Motif Atlas

Homologous match to IL_4LFB_011

Geometric discrepancy: 0.077

The information below is about IL_4LFB_011

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_46174.3

Basepair signature

cWW-cSS-tSS-tSH-L-cWW-tHW-cWW

Number of instances in this motif group

5

Unit IDs

5FDU|1|2a|C|242
5FDU|1|2a|A|243
5FDU|1|2a|U|244
5FDU|1|2a|C|245
5FDU|1|2a|A|246
5FDU|1|2a|G|247
*
5FDU|1|2a|C|277
5FDU|1|2a|G|278
5FDU|1|2a|A|279
5FDU|1|2a|C|280
5FDU|1|2a|G|281
5FDU|1|2a|A|282
5FDU|1|2a|C|283
5FDU|1|2a|G|284

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2l

30S ribosomal protein S12

Chain 2q

30S ribosomal protein S17