J3_5FDU_002

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

CAG*CGAAC*GAUG

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

J3_5FDU_002 not in the Motif Atlas

Homologous match to J3_7RQB_005

Geometric discrepancy: 0.044

The information below is about J3_7RQB_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_44724.4

Basepair signature

cWW-tSH-F-cWW-tHS-cWW-F

Number of instances in this motif group

6

Unit IDs

5FDU|1|1A|C|745
5FDU|1|1A|A|746
5FDU|1|1A|G|747
*
5FDU|1|1A|C|779
5FDU|1|1A|G|780
5FDU|1|1A|A|781
5FDU|1|1A|A|782
5FDU|1|1A|C|783
*
5FDU|1|1A|G|807
5FDU|1|1A|A|808
5FDU|1|1A|U|809
5FDU|1|1A|G|810

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1D

50S ribosomal protein L2