IL_5FDU_336

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*CUG

Length

5 nucleotides

Bulged bases

5FDU|1|2a|U|1196

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_336 not in the Motif Atlas

Geometric match to IL_4LFB_046

Geometric discrepancy: 0.1602

The information below is about IL_4LFB_046

Detailed Annotation

Single bulged U

Broad Annotation

No text annotation

Motif group

IL_89505.4

Basepair signature

cWW-L-cWW

Number of instances in this motif group

117

Unit IDs

5FDU|1|2a|C|1060
5FDU|1|2a|G|1061
*
5FDU|1|2a|C|1195
5FDU|1|2a|U|1196
5FDU|1|2a|G|1197

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2c

30S ribosomal protein S3

Chain 2e

30S ribosomal protein S5

Chain 2i

30S ribosomal protein S9

Chain 2j

30S ribosomal protein S10

Chain 2n

30S ribosomal protein S14 type Z

Chain 2x

Ribosome-associated inhibitor A