HL_5FDV_122

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

GGAAAC

Length

6 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_122 not in the Motif Atlas

Homologous match to HL_7RQB_020

Geometric discrepancy: 0.0762

The information below is about HL_7RQB_020

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

5FDV|1|2A|G|629
5FDV|1|2A|G|630
5FDV|1|2A|A|631
5FDV|1|2A|A|632
5FDV|1|2A|A|633
5FDV|1|2A|C|634

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 28

50S ribosomal protein L35

Chain 2P

50S ribosomal protein L15