J5_5F8K_018

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

CUGG*CUUG*CUGAAC*GGUAAUAG*CGAG

Length

26 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

J5_5F8K_018 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.0684

The information below is about J5_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_70703.1

Basepair signature

cWW-F-tWH-F-F-cWW-cWW-cWH-cWH-cWW-tSH-tWH-tHW-tHS-cWW

Number of instances in this motif group

1

Unit IDs

5F8K|1|2a|C|36
5F8K|1|2a|U|37
5F8K|1|2a|G|38
5F8K|1|2a|G|39
*
5F8K|1|2a|C|403
5F8K|1|2a|U|404
5F8K|1|2a|U|405
5F8K|1|2a|G|406
*
5F8K|1|2a|C|436
5F8K|1|2a|U|437
5F8K|1|2a|G|438
5F8K|1|2a|A|439
5F8K|1|2a|A|441
5F8K|1|2a|C|442
*
5F8K|1|2a|G|492
5F8K|1|2a|G|493
5F8K|1|2a|U|494
5F8K|1|2a|A|495
5F8K|1|2a|A|496
5F8K|1|2a|U|498
5F8K|1|2a|A|499
5F8K|1|2a|G|500
*
5F8K|1|2a|C|545
5F8K|1|2a|G|546
5F8K|1|2a|A|547
5F8K|1|2a|G|548

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2d

30S ribosomal protein S4

Chain 2l

30S ribosomal protein S12