J5_5FDU_011

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

CUAAAC*GGGUCGUG*CGAGUAC*GGAAUCUG*UAAG

Length

33 nucleotides

Bulged bases

5FDU|1|2A|U|272|||A, 5FDU|1|2A|U|405

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5FDU|1|2A|C|268
5FDU|1|2A|U|269
5FDU|1|2A|A|270
5FDU|1|2A|A|271
5FDU|1|2A|A|271|||A
5FDU|1|2A|C|271|||B
*
5FDU|1|2A|G|271|||V
5FDU|1|2A|G|271|||W
5FDU|1|2A|G|271|||X
5FDU|1|2A|U|271|||Y
5FDU|1|2A|C|271|||Z
5FDU|1|2A|G|272
5FDU|1|2A|U|272|||A
5FDU|1|2A|G|272|||B
*
5FDU|1|2A|C|366
5FDU|1|2A|G|370
5FDU|1|2A|A|371
5FDU|1|2A|G|372
5FDU|1|2A|U|373
5FDU|1|2A|A|374
5FDU|1|2A|C|375
*
5FDU|1|2A|G|399
5FDU|1|2A|G|400
5FDU|1|2A|A|401
5FDU|1|2A|A|402
5FDU|1|2A|U|403
5FDU|1|2A|C|404
5FDU|1|2A|U|405
5FDU|1|2A|G|406
*
5FDU|1|2A|U|421
5FDU|1|2A|A|422
5FDU|1|2A|A|423
5FDU|1|2A|G|424

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L28

Chain 2I

50S ribosomal protein L9