HL_5FDU_047

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|1A|A|1935, 5FDU|1|1A|C|1936, 5FDU|1|1A|A|1938

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_047 not in the Motif Atlas

Homologous match to HL_7RQB_048

Geometric discrepancy: 0.0735

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|1A|C|1931
5FDU|1|1A|G|1932
5FDU|1|1A|PSU|1933
5FDU|1|1A|A|1934
5FDU|1|1A|A|1935
5FDU|1|1A|C|1936
5FDU|1|1A|5MU|1937
5FDU|1|1A|A|1938
5FDU|1|1A|PSU|1939
5FDU|1|1A|A|1940
5FDU|1|1A|A|1941
5FDU|1|1A|4OC|1942
5FDU|1|1A|G|1943

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1a

Small subunit ribosomal RNA; SSU rRNA

Chain 1x

Ribosome-associated inhibitor A