J3_5HCQ_026

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

CAAG*CUAGUAA*UGAAUACG

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

J3_5HCQ_026 not in the Motif Atlas

Homologous match to J3_4LFB_002

Geometric discrepancy: 0.1212

The information below is about J3_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.4

Basepair signature

cWW-F-F-cSS-F-cWW-tWW-F-tWH-F-tHS-cSH-cWW

Number of instances in this motif group

4

Unit IDs

5HCQ|1|2a|C|914
5HCQ|1|2a|A|915
5HCQ|1|2a|A|916
5HCQ|1|2a|G|917
*
5HCQ|1|2a|C|1326
5HCQ|1|2a|U|1327
5HCQ|1|2a|A|1328
5HCQ|1|2a|G|1329
5HCQ|1|2a|U|1330
5HCQ|1|2a|A|1331
5HCQ|1|2a|A|1332
*
5HCQ|1|2a|U|1355
5HCQ|1|2a|G|1356
5HCQ|1|2a|A|1357
5HCQ|1|2a|A|1358
5HCQ|1|2a|U|1359
5HCQ|1|2a|A|1360
5HCQ|1|2a|C|1361
5HCQ|1|2a|G|1362

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2g

30S ribosomal protein S7

Chain 2i

30S ribosomal protein S9