IL_5FDU_340

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

CUGC*GAGGAAG

Length

11 nucleotides

Bulged bases

None detected

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_340 not in the Motif Atlas

Geometric match to IL_5J7L_053

Geometric discrepancy: 0.1224

The information below is about IL_5J7L_053

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_42032.1

Basepair signature

cWW-cSH-cWW-tWH-L-cWW-L-L

Number of instances in this motif group

2

Unit IDs

5FDU|1|2a|C|1158
5FDU|1|2a|U|1159
5FDU|1|2a|G|1160
5FDU|1|2a|C|1161
*
5FDU|1|2a|G|1175
5FDU|1|2a|A|1176
5FDU|1|2a|G|1177
5FDU|1|2a|G|1178
5FDU|1|2a|A|1179
5FDU|1|2a|A|1180
5FDU|1|2a|G|1181

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2b

30S ribosomal protein S2

Chain 2i

30S ribosomal protein S9