IL_5FDU_345

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

CGGAUU*AUGAAG

Length

12 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_345 not in the Motif Atlas

Geometric match to IL_4LFB_055

Geometric discrepancy: 0.1099

The information below is about IL_4LFB_055

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_85536.2

Basepair signature

cWW-tSH-L-R-tHS-cWW-cWW

Number of instances in this motif group

8

Unit IDs

5FDU|1|2a|C|1303
5FDU|1|2a|G|1304
5FDU|1|2a|G|1305
5FDU|1|2a|A|1306
5FDU|1|2a|U|1307
5FDU|1|2a|U|1308
*
5FDU|1|2a|A|1329
5FDU|1|2a|U|1330
5FDU|1|2a|G|1331
5FDU|1|2a|A|1332
5FDU|1|2a|A|1333
5FDU|1|2a|G|1334

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2m

30S ribosomal protein S13

Chain 2u

30S ribosomal protein Thx