IL_5FDU_335

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

GG*UCAGC

Length

7 nucleotides

Bulged bases

5FDU|1|2a|C|1200, 5FDU|1|2a|A|1201

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_335 not in the Motif Atlas

Homologous match to IL_5J7L_048

Geometric discrepancy: 0.097

The information below is about IL_5J7L_048

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_95583.2

Basepair signature

cWW-L-cWW

Number of instances in this motif group

11

Unit IDs

5FDU|1|2a|G|1057
5FDU|1|2a|G|1058
*
5FDU|1|2a|U|1199
5FDU|1|2a|C|1200
5FDU|1|2a|A|1201
5FDU|1|2a|G|1202
5FDU|1|2a|C|1203

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2c

30S ribosomal protein S3

Chain 2j

30S ribosomal protein S10

Chain 2n

30S ribosomal protein S14 type Z

Chain 2x

Ribosome-associated inhibitor A