1BVD

STRUCTURE OF A BILIVERDIN APOMYOGLOBIN COMPLEX (FORM B) AT 98 K

Summary for 1BVD

• Entry DOI: 10.2210/pdb1bvd/pdb
• Descriptor: APOMYOGLOBIN, BILIVERDINE IX ALPHA (3 entities in total)
• Functional Keywords: oxygen storage
• Biological source: Physeter catodon (sperm whale)
• Total number of polymer chains: 1
• Total formula weight: 17817.60

Authors

Wagner, U.G.,Mueller, N.,Schmitzberger, W.,Falk, H.,Kratky, C. (deposition date: 1994-12-16, release date: 1995-07-31, Last modification date: 2024-02-07)

Primary citation

Wagner, U.G.,Muller, N.,Schmitzberger, W.,Falk, H.,Kratky, C.
Structure determination of the biliverdin apomyoglobin complex: crystal structure analysis of two crystal forms at 1.4 and 1.5 A resolution.
J.Mol.Biol., 247:326-337, 1995

PubMed Abstract: Crystal structure determinations of two orthorhombic (P2(1)2(1)2(1)) crystal modifications of the biliverdin apomyoglobin complex are described. The two structures were determined by X-ray diffraction at 100 K to a resolution of 1.5 A and 1.4 A. Both crystal forms were grown by hanging-drop techniques, using phosphate as precipitant. The structures were solved by molecular replacement and refined to final R-values of 19.4% and 21.2%. Both structures are very similar with respect to the binding site and the conformation of the biliverdin chromophore, which occurs in a (P) helical conformation. It is located within the heme pocket, very close in position and orientation to the heme binding site in myoglobin. Two water molecules not present in the crystal structure of myoglobin are sequestered within the heme pocket in the biliverdin-apomyoglobin complex, and they are engaged in hydrogen bonding to the biliverdin and to the protein. Comparison with structural results from an earlier NMR study of the same complex shows good agreement.

PubMed: 7707378
DOI: 10.1006/jmbi.1994.0142

Experimental method

X-RAY DIFFRACTION (1.4 Å)