J3_5FDU_022

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_022 not in the Motif Atlas

Homologous match to J3_7RQB_007

Geometric discrepancy: 0.0691

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|2A|C|1298
5FDU|1|2A|G|1299
5FDU|1|2A|U|1300
5FDU|1|2A|A|1301
5FDU|1|2A|A|1302
5FDU|1|2A|G|1303
*
5FDU|1|2A|C|1625
5FDU|1|2A|G|1626
5FDU|1|2A|G|1627
*
5FDU|1|2A|U|1639
5FDU|1|2A|C|1640
5FDU|1|2A|A|1641
5FDU|1|2A|G|1642

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains