HL_5FDV_125

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

GGAUGCAAAC

Length

10 nucleotides

Bulged bases

5FDV|1|2A|U|747, 5FDV|1|2A|A|751, 5FDV|1|2A|A|752

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_125 not in the Motif Atlas

Homologous match to HL_7RQB_023

Geometric discrepancy: 0.0504

The information below is about HL_7RQB_023

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_39334.6

Basepair signature

cWW-cWS-tSW-F-F

Number of instances in this motif group

6

Unit IDs

5FDV|1|2A|G|744
5FDV|1|2A|G|745
5FDV|1|2A|A|746
5FDV|1|2A|U|747
5FDV|1|2A|G|748
5FDV|1|2A|C|749
5FDV|1|2A|A|750
5FDV|1|2A|A|751
5FDV|1|2A|A|752
5FDV|1|2A|C|753

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 25

50S ribosomal protein L32

Chain 27

50S ribosomal protein L34

Chain 2E

50S ribosomal protein L3

Chain 2W

50S ribosomal protein L22

Chain 2y

Pyrrhocoricin