ISDA

Deposition Date 2005-04-27

Release Date 2005-07-05

Last Version Date 2023-12-27

Entry Detail

PDB ID:

1VRQ

Keywords:

OXIDOREDUCTASE

Title:

Crystal Structure of Heterotetrameric Sarcosine Oxidase from Corynebacterium sp. U-96 in complex with Folinic Acid

Biological Source:

Source Organism:

Corynebacterium sp. (Taxon ID: 31944)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.20 Å

R-Value Free:

0.22

R-Value Work:

0.19

R-Value Observed:

0.19

Space Group:

P 65 2 2

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Sarcosine oxidase alpha subunit
Gene (Uniprot):soxA
Chain IDs:A
Chain Length:964
Number of Molecules:1
Biological Source:Corynebacterium sp.

UniProt ID:Q50LF0 Pfam ID:PF13510, PF12831, PF17806, PF01571, PF08669 EC:1.5.3.1

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Sarcosine oxidase beta subunit
Gene (Uniprot):soxB
Chain IDs:B
Chain Length:404
Number of Molecules:1
Biological Source:Corynebacterium sp.

UniProt ID:Q50LF2 Pfam ID:PF01266 EC:1.5.3.1

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Sarcosine oxidase gamma subunit
Gene (Uniprot):soxG
Chain IDs:C
Chain Length:206
Number of Molecules:1
Biological Source:Corynebacterium sp.

UniProt ID:Q50LE9 Pfam ID:PF04268 EC:1.5.3.1

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Sarcosine oxidase delta subunit
Gene (Uniprot):soxD
Chain IDs:D
Chain Length:99
Number of Molecules:1
Biological Source:Corynebacterium sp.

UniProt ID:Q50LF1 Pfam ID:PF04267 EC:1.5.3.1

Ligand Molecules

DMG

FAD

FMN

FON

NAD

SO4

Primary Citation

Crystal structure of heterotetrameric sarcosine oxidase from Corynebacterium sp. U-96

Ida, K, Moriguchi, T, Suzuki, H.Show

BIOCHEM.BIOPHYS.RES.COMMUN. 333 359 366 (2005)

PMID: 15946648 DOI: 10.1016/j.bbrc.2005.05.116

Abstact

Sarcosine oxidase from Corynebacterium sp. U-96 is a heterotetrameric enzyme. Here we report the crystal structures of the enzyme in complex with dimethylglycine and folinic acid. The alpha subunit is composed of two domains, contains NAD(+), and binds folinic acid. The beta subunit contains dimethylglycine, FAD, and FMN, and these flavins are approximately 10A apart. The gamma subunit is in contact with two domains of alpha subunit and has possibly a folate-binding structure. The delta subunit contains a single atom of zinc and has a Cys(3)His zinc finger structure. Based on the structures determined and on the previous works, the structure-function relationship on the heterotetrameric sarcosine oxidase is discussed.

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