J4_5F8K_021

3D structure

PDB id

5F8K (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Bac7(1-16) antimicrobial peptide bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

GACUG*CACAG*CGAC*GUAAC

Length

19 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

J4_5F8K_021 not in the Motif Atlas

Homologous match to J4_5J7L_025

Geometric discrepancy: 0.0564

The information below is about J4_5J7L_025

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61477.5

Basepair signature

cWW-tSW-F-tHS-tHS-F-cWW-cWW-F-tHS-cWW

Number of instances in this motif group

4

Unit IDs

5F8K|1|2A|G|1772
5F8K|1|2A|A|1773
5F8K|1|2A|C|1774
5F8K|1|2A|U|1775
5F8K|1|2A|G|1776
*
5F8K|1|2A|C|1788
5F8K|1|2A|A|1789
5F8K|1|2A|C|1790
5F8K|1|2A|A|1791
5F8K|1|2A|G|1792
*
5F8K|1|2A|C|1827
5F8K|1|2A|G|1828
5F8K|1|2A|A|1829
5F8K|1|2A|C|1830
*
5F8K|1|2A|G|1975
5F8K|1|2A|U|1976
5F8K|1|2A|A|1977
5F8K|1|2A|A|1978
5F8K|1|2A|C|1979

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2D

50S ribosomal protein L2

Chain 2a

Small subunit ribosomal RNA; SSU rRNA