IL_5FDU_112

3D structure

PDB id

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

Description

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

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

CG*CAG

Length

5 nucleotides

Bulged bases

5FDU|1|1B|A|66

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

IL_5FDU_112 not in the Motif Atlas

Homologous match to IL_7RQB_111

Geometric discrepancy: 0.0667

The information below is about IL_7RQB_111

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_37497.6

Basepair signature

cWW-L-cWW

Number of instances in this motif group

118

Unit IDs

5FDU|1|1B|C|17
5FDU|1|1B|G|18
*
5FDU|1|1B|C|65
5FDU|1|1B|A|66
5FDU|1|1B|G|67

Current chains

Chain 1B

5S ribosomal RNA

Nearby chains

Chain 1A

Large subunit ribosomal RNA; LSU rRNA

Chain 1S

50S ribosomal protein L18

Chain 1Z

50S ribosomal protein L25