HL_5FDU_152

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

CG(PSU)AAC(5MU)A(PSU)AA(4OC)G

Length

13 nucleotides

Bulged bases

5FDU|1|2A|A|1913, 5FDU|1|2A|C|1914, 5FDU|1|2A|A|1916

QA status

Modified nucleotides: PSU, 5MU, 4OC

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_152 not in the Motif Atlas

Homologous match to HL_7RQB_048

Geometric discrepancy: 0.083

The information below is about HL_7RQB_048

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5FDU|1|2A|C|1909
5FDU|1|2A|G|1910
5FDU|1|2A|PSU|1911
5FDU|1|2A|A|1912
5FDU|1|2A|A|1913
5FDU|1|2A|C|1914
5FDU|1|2A|5MU|1915
5FDU|1|2A|A|1916
5FDU|1|2A|PSU|1917
5FDU|1|2A|A|1918
5FDU|1|2A|A|1919
5FDU|1|2A|4OC|1920
5FDU|1|2A|G|1921

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2a

Small subunit ribosomal RNA; SSU rRNA

Chain 2x

Ribosome-associated inhibitor A