ISDA

Deposition Date 2002-08-02

Release Date 2003-02-04

Last Version Date 2025-03-26

Entry Detail

PDB ID:

1MA9

Keywords:

TRANSPORT PROTEIN/CONTRACTILE PROTEIN

Title:

Crystal structure of the complex of human vitamin D binding protein and rabbit muscle actin

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)
Oryctolagus cuniculus (Taxon ID: 9986)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.40 Å

R-Value Free:

0.25

R-Value Work:

0.2

R-Value Observed:

0.20

Space Group:

P 1 21 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Vitamin D-binding protein
Gene (Uniprot):GC
Chain IDs:A
Chain Length:458
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P02774 Pfam ID:PF00273, PF09164

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Actin, Alpha Skeletal Muscle
Gene (Uniprot):ACTA1
Chain IDs:B
Chain Length:375
Number of Molecules:1
Biological Source:Oryctolagus cuniculus

UniProt ID:P68135 Pfam ID:PF00022

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
HIC	B	HIS	4-METHYL-HISTIDINE

Ligand Molecules

ATP

Primary Citation

Actin-DBP: the perfect structural fit?

Verboven, C, Bogaerts, I, Waelkens, E, Rabijns, A, Van Baelen, H, Bouillon, R, De Ranter, C, Bogaerts, I, Verboven, C, Rabijns, A, Waelkens, E, Van Baelen, H, De Ranter, C, Verboven, C, Rabijns, A, De Maeyer, M, Van Baelen, H, Bouillon, R, De Ranter, C, Kabsch, W, Mannherz, H.G, Suck, D, Pai, E.F, Holmes, K.C.Show

Acta Crystallogr.,Sect.D 59 263 273 (2003)

PMID: 12554937 DOI: 10.1107/S0907444902021455

Abstact

The multifunctional vitamin D binding protein (DBP) is an actin-sequestering protein present in blood. The crystal structure of the actin-DBP complex was determined at 2.4 A resolution. DBP binds to actin subdomains 1 and 3 and occludes the cleft at the interface between these subdomains. Most remarkably, DBP demonstrates an unusually large actin-binding interface, far exceeding the binding-interface areas reported for other actin-binding proteins such as profilin, DNase I and gelsolin. The fast-growing side of actin monomers is blocked completely through a perfect structural fit with DBP, demonstrating how DBP effectively interferes with actin-filament formation. It establishes DBP as the hitherto best actin-sequestering protein and highlights its key role in suppressing and preventing extracellular actin polymerization.

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Primary Citation of related structures