HL_5FDV_158

3D structure

PDB id

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

Description

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

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

CGCAAGGG

Length

8 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_5FDV_158 not in the Motif Atlas

Homologous match to HL_7RQB_056

Geometric discrepancy: 0.0597

The information below is about HL_7RQB_056

Detailed Annotation

Pseudoknot geometry

Broad Annotation

No text annotation

Motif group

HL_12078.4

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

31

Unit IDs

5FDV|1|2A|C|2324
5FDV|1|2A|G|2325
5FDV|1|2A|C|2326
5FDV|1|2A|A|2327
5FDV|1|2A|A|2328
5FDV|1|2A|G|2329
5FDV|1|2A|G|2330
5FDV|1|2A|G|2331

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 20

50S ribosomal protein L27

Chain 2G

50S ribosomal protein L5

Chain 2Q

50S ribosomal protein L16

Chain 2Z

50S ribosomal protein L25