HL_5FDV_179

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

GGUAAUGGC

Length

9 nucleotides

Bulged bases

5FDV|1|2a|G|266

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_179 not in the Motif Atlas

Homologous match to HL_4LFB_006

Geometric discrepancy: 0.0726

The information below is about HL_4LFB_006

Detailed Annotation

GNRA related

Broad Annotation

GNRA related

Motif group

HL_84299.4

Basepair signature

cWW-F-F-F-F-F-F

Number of instances in this motif group

9

Unit IDs

5FDV|1|2a|G|259
5FDV|1|2a|G|260
5FDV|1|2a|U|261
5FDV|1|2a|A|262
5FDV|1|2a|A|263
5FDV|1|2a|U|264
5FDV|1|2a|G|265
5FDV|1|2a|G|266
5FDV|1|2a|C|267

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2q

30S ribosomal protein S17

Chain 2t

30S ribosomal protein S20