IL_5FDU_258

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

GUCGC*GCGGC

Length

10 nucleotides

Bulged bases

None detected

QA status

Self-complementary:

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_258 not in the Motif Atlas

Geometric match to IL_5BTM_001

Geometric discrepancy: 0.3997

The information below is about IL_5BTM_001

Detailed Annotation

Triple non-canonical cWW pairs

Broad Annotation

No text annotation

Motif group

IL_49751.4

Basepair signature

cWW-cWW-cWW-cWW-cWW

Number of instances in this motif group

16

Unit IDs

5FDU|1|2A|G|2101
5FDU|1|2A|U|2102
5FDU|1|2A|C|2103
5FDU|1|2A|G|2104
5FDU|1|2A|C|2105
*
5FDU|1|2A|G|2184
5FDU|1|2A|C|2185
5FDU|1|2A|G|2186
5FDU|1|2A|G|2187
5FDU|1|2A|C|2188

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2I

50S ribosomal protein L9