Calcium in PDB 3a9g: Crystal Structure of Pqq-Dependent Sugar Dehydrogenase Apo-Form

All present enzymatic activity of Crystal Structure of Pqq-Dependent Sugar Dehydrogenase Apo-Form:
1.1.5.2;

The structure of Crystal Structure of Pqq-Dependent Sugar Dehydrogenase Apo-Form, PDB code: 3a9g was solved by H.Sakuraba, K.Yokono, K.Yoneda, T.Ohshima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.13 / 2.39
Space group	I 41 2 2
Cell size a, b, c (Å), α, β, γ (°)	177.740, 177.740, 89.937, 90.00, 90.00, 90.00
R / Rfree (%)	20.1 / 22

The binding sites of Calcium atom in the Crystal Structure of Pqq-Dependent Sugar Dehydrogenase Apo-Form (pdb code 3a9g). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Crystal Structure of Pqq-Dependent Sugar Dehydrogenase Apo-Form, PDB code: 3a9g:

Calcium binding site 1 out of 1 in the Crystal Structure of Pqq-Dependent Sugar Dehydrogenase Apo-Form


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Pqq-Dependent Sugar Dehydrogenase Apo-Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1001 b:26.9 occ:1.00 O A:HOH4025 2.3 24.5 1.0 O A:HOH4012 2.4 22.8 1.0 O A:HOH4070 2.4 20.4 1.0 O A:TYR250 2.4 25.7 1.0 OE2 A:GLU240 2.6 24.6 1.0 O A:HOH4071 2.6 26.4 1.0 OE1 A:GLU240 2.6 26.6 1.0 CD A:GLU240 2.9 26.7 1.0 C A:TYR250 3.6 24.2 1.0 O A:HOH4027 4.1 28.6 1.0 CB A:TYR250 4.2 24.4 1.0 O A:HOH4043 4.2 27.1 1.0 CA A:TYR250 4.3 24.2 1.0 OE2 A:GLU232 4.4 35.8 1.0 O A:ALA255 4.4 30.1 1.0 CG A:GLU240 4.5 26.3 1.0 N A:GLY257 4.5 34.9 1.0 ND2 A:ASN242 4.6 23.2 1.0 N A:GLY251 4.6 23.3 1.0 O A:HOH4033 4.6 28.0 1.0 O A:GLY212 4.6 25.7 1.0 O A:VAL265 4.7 32.8 1.0 CD A:PRO267 4.7 32.0 1.0 O A:GLY257 4.7 36.4 1.0 OD1 A:ASN242 4.7 27.3 1.0 N A:TRP252 4.8 21.6 1.0 CA A:GLY251 4.8 21.3 1.0 CA A:THR256 5.0 33.7 1.0

H.Sakuraba, K.Yokono, K.Yoneda, A.Watanabe, Y.Asada, T.Satomura, T.Yabutani, J.Motonaka, T.Ohshima. Catalytic Properties and Crystal Structure of Quinoprotein Aldose Sugar Dehydrogenase From Hyperthermophilic Archaeon Pyrobaculum Aerophilum Arch.Biochem.Biophys. V. 502 81 2010.
ISSN: ISSN 0003-9861
PubMed: 20692227
DOI: 10.1016/J.ABB.2010.08.002