HL_5HD1_027

3D structure

PDB id

5HD1 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of antimicrobial peptide Pyrrhocoricin bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

CGAUAACG

Length

8 nucleotides

Bulged bases

5HD1|1|1A|U|1002, 5HD1|1|1A|C|1005

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_5HD1_027 not in the Motif Atlas

Homologous match to HL_7RQB_027

Geometric discrepancy: 0.0403

The information below is about HL_7RQB_027

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_35490.2

Basepair signature

cWW-tSH-F-F

Number of instances in this motif group

299

Unit IDs

5HD1|1|1A|C|999
5HD1|1|1A|G|1000
5HD1|1|1A|A|1001
5HD1|1|1A|U|1002
5HD1|1|1A|A|1003
5HD1|1|1A|A|1004
5HD1|1|1A|C|1005
5HD1|1|1A|G|1006

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1B

5S ribosomal RNA; 5S rRNA

Chain 1Q

50S ribosomal protein L16