J3_5HCQ_044

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

GC*GGAAUCU*AGC

Length

12 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

J3_5HCQ_044 not in the Motif Atlas

Geometric match to J3_8C3A_082

Geometric discrepancy: 0.2136

The information below is about J3_8C3A_082

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_67856.2

Basepair signature

cWW-F-cWW-F-F-cSW-F-cWW

Number of instances in this motif group

5

Unit IDs

5HCQ|1|1a|G|47
5HCQ|1|1a|C|48
*
5HCQ|1|1a|G|357
5HCQ|1|1a|G|358
5HCQ|1|1a|A|359
5HCQ|1|1a|A|360
5HCQ|1|1a|U|361
5HCQ|1|1a|C|362
5HCQ|1|1a|U|363
*
5HCQ|1|1a|A|389
5HCQ|1|1a|G|390
5HCQ|1|1a|C|391

Current chains

Chain 1a

16S Ribosomal RNA

Nearby chains

Chain 1l

30S ribosomal protein S12

Chain 1p

30S ribosomal protein S16