J3_5HCQ_029

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

CUUGACAU*ACAG*CUUACG

Length

18 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_029 not in the Motif Atlas

Homologous match to J3_4LFB_016

Geometric discrepancy: 0.1829

The information below is about J3_4LFB_016

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_76475.2

Basepair signature

cWW-tWH-F-tHS-cWW-cWW-F-cWS-cWS-cWW

Number of instances in this motif group

2

Unit IDs

5HCQ|1|2a|C|968
5HCQ|1|2a|U|969
5HCQ|1|2a|U|970
5HCQ|1|2a|G|971
5HCQ|1|2a|A|972
5HCQ|1|2a|C|973
5HCQ|1|2a|A|974
5HCQ|1|2a|U|975
*
5HCQ|1|2a|A|1027
5HCQ|1|2a|C|1028
5HCQ|1|2a|A|1029
5HCQ|1|2a|G|1030
*
5HCQ|1|2a|C|1192
5HCQ|1|2a|U|1193
5HCQ|1|2a|U|1194
5HCQ|1|2a|A|1195
5HCQ|1|2a|C|1196
5HCQ|1|2a|G|1197

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2n

30S ribosomal protein S14 type Z