ISDA: 6WY4

Deposition Date 2020-05-12

Release Date 2020-05-27

Last Version Date 2026-04-01

Entry Detail

PDB ID:

6WY4

Keywords:

HYDROLASE

Title:

Crystal Structure of Wild Type Class D beta-lactamase from Clostridium difficile 630

Biological Source:

Source Organism(s):

Clostridioides difficile (strain 630) (Taxon ID: 272563)

Expression System(s):

Escherichia coli bl21(de3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.80 Å

R-Value Free:

0.20

R-Value Work:

0.17

R-Value Observed:

0.17

Space Group:

P 21 21 21

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Beta-lactamase
Gene (Uniprot):CD630_04580
Chain IDs:A, B, C, D
Chain Length:255
Number of Molecules:4
Biological Source:Clostridioides difficile (strain 630)

UniProt ID:Q188Q3 Pfam ID:PF00905

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
KCX	A	LYS	modified residue

Ligand Molecules

PEG

Primary Citation

A high-throughput structural system biology approach to increase structure representation of proteins from Clostridioides difficile.

Rosas-Lemus, M, Dey, S, Minasov, G, Tan, K, Anderson, S.M, Brunzelle, J, Nocadello, S, Shabalin, I, Filippova, E, Halavaty, A, Kim, Y, Maltseva, N, Osipiuk, J, Minor, W, Joachimiak, A, Savchenko, A, Anderson, W.F, Satchell, K.J.F.Show

Microbiol Resour Announc 12 e0050723 e0050723 (2023)

PMID: 37747257 DOI: 10.1128/MRA.00507-23

Abstact

Clostridioides difficile causes life-threatening gastrointestinal infections. It is a high-risk pathogen due to a lack of effective treatments, antimicrobial resistance, and a poorly conserved genomic core. Herein, we report 30 X-ray structures from a structure genomics pipeline spanning 13 years, representing 10.2% of the X-ray structures for this important pathogen.

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Protein

Chemical

Disease

Primary Citation of related structures

Abstact

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