J3_5FDU_004

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

CGUAAG*CGG*UCAG

Length

13 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

J3_5FDU_004 not in the Motif Atlas

Homologous match to J3_7RQB_007

Geometric discrepancy: 0.0454

The information below is about J3_7RQB_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_32852.3

Basepair signature

cWW-tSH-tHW-F-F-cWW-cWW-F

Number of instances in this motif group

4

Unit IDs

5FDU|1|1A|C|1344
5FDU|1|1A|G|1345
5FDU|1|1A|U|1346
5FDU|1|1A|A|1347
5FDU|1|1A|A|1348
5FDU|1|1A|G|1349
*
5FDU|1|1A|C|1671
5FDU|1|1A|G|1672
5FDU|1|1A|G|1673
*
5FDU|1|1A|U|1686
5FDU|1|1A|C|1687
5FDU|1|1A|A|1688
5FDU|1|1A|G|1689

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains