J3_5HCQ_055

3D structure

PDB id

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

Description

Crystal structure of antimicrobial peptide Oncocin d15-19 bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

UAAAC*GGGUCGUG*CG

Length

15 nucleotides

Bulged bases

5HCQ|1|2A|U|287

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

J3_5HCQ_055 not in the Motif Atlas

Homologous match to J3_9DFE_005

Geometric discrepancy: 0.1002

The information below is about J3_9DFE_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_97971.2

Basepair signature

cWW-F-F-tSH-cSH-tWH-tWS-cWW-F-cWW

Number of instances in this motif group

3

Unit IDs

5HCQ|1|2A|U|257
5HCQ|1|2A|A|258
5HCQ|1|2A|A|259
5HCQ|1|2A|A|260
5HCQ|1|2A|C|261
*
5HCQ|1|2A|G|281
5HCQ|1|2A|G|282
5HCQ|1|2A|G|283
5HCQ|1|2A|U|284
5HCQ|1|2A|C|285
5HCQ|1|2A|G|286
5HCQ|1|2A|U|287
5HCQ|1|2A|G|288
*
5HCQ|1|2A|C|395
5HCQ|1|2A|G|396

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2I

50S ribosomal protein L9