HL_5FDU_137

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

GGUCGUC

Length

7 nucleotides

Bulged bases

5FDU|1|2A|G|1325, 5FDU|1|2A|U|1329

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

HL_5FDU_137 not in the Motif Atlas

Homologous match to HL_7A0S_033

Geometric discrepancy: 0.0797

The information below is about HL_7A0S_033

Detailed Annotation

Pseudoknot geometry with 3' bulge

Broad Annotation

No text annotation

Motif group

HL_57176.2

Basepair signature

cWW-F-F-F

Number of instances in this motif group

14

Unit IDs

5FDU|1|2A|G|1324
5FDU|1|2A|G|1325
5FDU|1|2A|U|1326
5FDU|1|2A|C|1327
5FDU|1|2A|G|1328
5FDU|1|2A|U|1329
5FDU|1|2A|C|1330

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2R

50S ribosomal protein L17

Chain 2W

50S ribosomal protein L22