IL_5FDU_222

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

AUGAGUAA*UGAAAUU

Length

15 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_222 not in the Motif Atlas

Homologous match to IL_7RQB_049

Geometric discrepancy: 0.0405

The information below is about IL_7RQB_049

Detailed Annotation

8x7 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_04346.7

Basepair signature

cWW-cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

15

Unit IDs

5FDU|1|2A|A|1262
5FDU|1|2A|U|1263
5FDU|1|2A|G|1264
5FDU|1|2A|A|1265
5FDU|1|2A|G|1266
5FDU|1|2A|U|1267
5FDU|1|2A|A|1268
5FDU|1|2A|A|1269
*
5FDU|1|2A|U|2011
5FDU|1|2A|G|2012
5FDU|1|2A|A|2013
5FDU|1|2A|A|2014
5FDU|1|2A|A|2015
5FDU|1|2A|U|2016
5FDU|1|2A|U|2017

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 25

50S ribosomal protein L32

Chain 2F

50S ribosomal protein L4

Chain 2W

50S ribosomal protein L22