HL_5FDV_198

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

GUUAAGUC

Length

8 nucleotides

Bulged bases

5FDV|1|2a|A|1092, 5FDV|1|2a|G|1094

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_198 not in the Motif Atlas

Homologous match to HL_5J7L_024

Geometric discrepancy: 0.1443

The information below is about HL_5J7L_024

Detailed Annotation

T-loop related

Broad Annotation

T-loop

Motif group

HL_77436.5

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

23

Unit IDs

5FDV|1|2a|G|1089
5FDV|1|2a|U|1090
5FDV|1|2a|U|1091
5FDV|1|2a|A|1092
5FDV|1|2a|A|1093
5FDV|1|2a|G|1094
5FDV|1|2a|U|1095
5FDV|1|2a|C|1096

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2b

30S ribosomal protein S2

Chain 2g

30S ribosomal protein S7