HL_5HCQ_096

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

CUGCAACCCG

Length

10 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

HL_5HCQ_096 not in the Motif Atlas

Homologous match to HL_4LFB_029

Geometric discrepancy: 0.0866

The information below is about HL_4LFB_029

Detailed Annotation

T-loop with 3 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_02887.3

Basepair signature

cWW-tWH-F-F-F-F-F-F

Number of instances in this motif group

2

Unit IDs

5HCQ|1|1a|C|1296
5HCQ|1|1a|U|1297
5HCQ|1|1a|G|1298
5HCQ|1|1a|C|1299
5HCQ|1|1a|A|1300
5HCQ|1|1a|A|1301
5HCQ|1|1a|C|1302
5HCQ|1|1a|C|1303
5HCQ|1|1a|C|1304
5HCQ|1|1a|G|1305

Current chains

Chain 1a

16S Ribosomal RNA

Nearby chains

Chain 1m

30S ribosomal protein S13

Chain 1n

30S ribosomal protein S14 type Z

Chain 1s

30S ribosomal protein S19