IL_5FDU_328

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

GCA*UUCCC

Length

8 nucleotides

Bulged bases

5FDU|1|2a|C|934

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_328 not in the Motif Atlas

Homologous match to IL_4LFB_037

Geometric discrepancy: 0.1058

The information below is about IL_4LFB_037

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_47078.3

Basepair signature

cWW-cWS-L-cWW-L

Number of instances in this motif group

4

Unit IDs

5FDU|1|2a|G|933
5FDU|1|2a|C|934
5FDU|1|2a|A|935
*
5FDU|1|2a|U|1380
5FDU|1|2a|U|1381
5FDU|1|2a|C|1382
5FDU|1|2a|C|1383
5FDU|1|2a|C|1384

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2g

30S ribosomal protein S7

Chain 2i

30S ribosomal protein S9

Chain 2x

Ribosome-associated inhibitor A