HL_5HCQ_012

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

GUGAAAGCC

Length

9 nucleotides

Bulged bases

5HCQ|1|1A|G|352

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_012 not in the Motif Atlas

Homologous match to HL_7RQB_012

Geometric discrepancy: 0.0534

The information below is about HL_7RQB_012

Detailed Annotation

T-loop with unstacked turn

Broad Annotation

T-loop

Motif group

HL_08002.9

Basepair signature

cWW-tWH-F-F

Number of instances in this motif group

19

Unit IDs

5HCQ|1|1A|G|350
5HCQ|1|1A|U|351
5HCQ|1|1A|G|352
5HCQ|1|1A|A|353
5HCQ|1|1A|A|354
5HCQ|1|1A|A|355
5HCQ|1|1A|G|356
5HCQ|1|1A|C|357
5HCQ|1|1A|C|358

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1F

50S ribosomal protein L4

Chain 1Y

50S ribosomal protein L24