IL_5FDU_193

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

GAAAC*GAGAUAGC

Length

13 nucleotides

Bulged bases

5FDU|1|2A|G|801, 5FDU|1|2A|G|805

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_193 not in the Motif Atlas

Homologous match to IL_7RQB_018

Geometric discrepancy: 0.0383

The information below is about IL_7RQB_018

Detailed Annotation

tHW-tHW cross-strand stack

Broad Annotation

No text annotation

Motif group

IL_17470.6

Basepair signature

cWW-tWW-L-R-tWH-L-cWW

Number of instances in this motif group

7

Unit IDs

5FDU|1|2A|G|674
5FDU|1|2A|A|675
5FDU|1|2A|A|676
5FDU|1|2A|A|677
5FDU|1|2A|C|678
*
5FDU|1|2A|G|799
5FDU|1|2A|A|800
5FDU|1|2A|G|801
5FDU|1|2A|A|802
5FDU|1|2A|U|803
5FDU|1|2A|A|804
5FDU|1|2A|G|805
5FDU|1|2A|C|806

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2F

50S ribosomal protein L4

Chain 2P

50S ribosomal protein L15