IL_5FDU_134

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

GGACG*CGGUAC

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_134 not in the Motif Atlas

Geometric match to IL_6CZR_130

Geometric discrepancy: 0.1459

The information below is about IL_6CZR_130

Detailed Annotation

6x5 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_88269.3

Basepair signature

cWW-L-R-cSH-tWH-tHS-cWW

Number of instances in this motif group

4

Unit IDs

5FDU|1|1a|G|446
5FDU|1|1a|G|447
5FDU|1|1a|A|448
5FDU|1|1a|C|449
5FDU|1|1a|G|450
*
5FDU|1|1a|C|483
5FDU|1|1a|G|484
5FDU|1|1a|G|485
5FDU|1|1a|U|486
5FDU|1|1a|A|487
5FDU|1|1a|C|488

Current chains

Chain 1a

16S ribosomal RNA

Nearby chains

Chain 1d

30S ribosomal protein S4

Chain 1p

30S ribosomal protein S16