ISDA: 9IXM

Deposition Date 2024-07-29

Release Date 2025-01-01

Last Version Date 2025-07-16

Entry Detail

PDB ID:

9IXM

Keywords:

DNA BINDING PROTEIN/DNA

Title:

Cryo-EM structure of Lactobacillus casei DdmDE bound with DNA

Biological Source:

Source Organism:

Lacticaseibacillus (Taxon ID: 2759736)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.26 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DdmD
Gene (Uniprot):FEI15_05225
Chain IDs:A, C
Chain Length:1192
Number of Molecules:2
Biological Source:Lacticaseibacillus

UniProt ID:A0A5R8LS59

Polymer Type:polypeptide(L)
Molecule:DdmE
Chain IDs:B
Chain Length:715
Number of Molecules:1
Biological Source:Lacticaseibacillus

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(P*TP*GP*AP*CP*GP*GP*CP*TP*CP*TP*AP*AP*TP*CP*T)-3')
Chain IDs:E (auth: D)
Chain Length:15
Number of Molecules:1
Biological Source:Lacticaseibacillus

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (30-MER)
Chain IDs:D (auth: E)
Chain Length:30
Number of Molecules:1
Biological Source:Lacticaseibacillus

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (30-MER)
Chain IDs:F
Chain Length:30
Number of Molecules:1
Biological Source:Lacticaseibacillus

Ligand Molecules

Primary Citation

The mechanism of bacterial defense system DdmDE from Lactobacillus casei.

Huang, P, Yan, P, Guo, L, Fei, W, Li, Z, Liu, J, Kong, J, Yao, Y, Lu, M, Xiao, Y, Chen, M.Show

Cell Res. 34 873 876 (2024)

PMID: 39448873 DOI: 10.1038/s41422-024-01042-y

Primary Citation of related structures

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