J5_8AM9_004

3D structure

PDB id

8AM9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the proline-rich antimicrobial peptide drosocin bound to the elongating ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

2.8 Å

Loop

Sequence

CGAUGAAG*CGAAUG*CA*UAU*AGG

Length

22 nucleotides

Bulged bases

8AM9|1|a|U|50

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

J5_8AM9_004 not in the Motif Atlas

Homologous match to J5_5J7L_013

Geometric discrepancy: 0.0538

The information below is about J5_5J7L_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

8AM9|1|a|C|47
8AM9|1|a|G|48
8AM9|1|a|A|49
8AM9|1|a|U|50
8AM9|1|a|G|51
8AM9|1|a|A|52
8AM9|1|a|A|53
8AM9|1|a|G|54
*
8AM9|1|a|C|116
8AM9|1|a|G|117
8AM9|1|a|A|118
8AM9|1|a|A|119
8AM9|1|a|U|120
8AM9|1|a|G|121
*
8AM9|1|a|C|130
8AM9|1|a|A|131
*
8AM9|1|a|U|148
8AM9|1|a|A|149
8AM9|1|a|U|150
*
8AM9|1|a|A|176
8AM9|1|a|G|177
8AM9|1|a|G|178

Current chains

Chain a

23S ribosomal RNA

Nearby chains

Chain 1

50S ribosomal protein L34