J3_5FDU_009

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

CAC*GGUAAG*CGAGG

Length

14 nucleotides

Bulged bases

5FDU|1|1A|A|2803

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_009 not in the Motif Atlas

Homologous match to J3_7RQB_013

Geometric discrepancy: 0.07

The information below is about J3_7RQB_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_24416.1

Basepair signature

cWW-F-F-tWH-cWW-F-tHS-F-cWW

Number of instances in this motif group

2

Unit IDs

5FDU|1|1A|C|2802
5FDU|1|1A|A|2803
5FDU|1|1A|C|2804
*
5FDU|1|1A|G|2816
5FDU|1|1A|G|2817
5FDU|1|1A|U|2818
5FDU|1|1A|A|2819
5FDU|1|1A|A|2820
5FDU|1|1A|G|2821
*
5FDU|1|1A|C|2899
5FDU|1|1A|G|2900
5FDU|1|1A|A|2901
5FDU|1|1A|G|2902
5FDU|1|1A|G|2903

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1E

50S ribosomal protein L3

Chain 1W

50S ribosomal protein L22