Calcium in PDB 3x34: Crystal Structure of the Reduced Form of the Solubilized Domain of Porcine Cytochrome B5 in Form 1 Crystal

The structure of Crystal Structure of the Reduced Form of the Solubilized Domain of Porcine Cytochrome B5 in Form 1 Crystal, PDB code: 3x34 was solved by Y.Hirano, S.Kimura, T.Tamada, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 0.76
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	33.993, 38.874, 60.640, 90.00, 90.00, 90.00
R / Rfree (%)	10.7 / 13.1

The structure of Crystal Structure of the Reduced Form of the Solubilized Domain of Porcine Cytochrome B5 in Form 1 Crystal also contains other interesting chemical elements:

Iron

(Fe)

1 atom

The binding sites of Calcium atom in the Crystal Structure of the Reduced Form of the Solubilized Domain of Porcine Cytochrome B5 in Form 1 Crystal (pdb code 3x34). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of the Reduced Form of the Solubilized Domain of Porcine Cytochrome B5 in Form 1 Crystal, PDB code: 3x34:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of the Reduced Form of the Solubilized Domain of Porcine Cytochrome B5 in Form 1 Crystal


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 the Reduced Form of the Solubilized Domain of Porcine Cytochrome B5 in Form 1 Crystal within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca102 b:6.0 occ:1.00 OE1 A:GLU42 2.4 8.1 1.0 OE1 A:GLU48 2.5 9.7 1.0 OE2 A:GLU48 2.5 8.6 1.0 OE2 A:GLU42 2.5 7.7 1.0 CD A:GLU48 2.8 6.9 1.0 CD A:GLU42 2.9 6.9 1.0 O A:HOH428 4.3 12.2 0.3 O A:HOH206 4.3 8.6 0.9 CG A:GLU48 4.3 7.0 1.0 O A:HOH380 4.3 8.5 0.3 CG A:GLU42 4.4 7.6 1.0 HA A:GLU42 4.5 7.9 1.0 O A:HOH440 4.5 8.6 0.2 HG2 A:GLU48 4.6 8.4 1.0 O A:HOH231 4.6 16.5 0.9 NH2 A:ARG52 4.7 8.9 0.7 O A:HOH208 4.7 8.8 0.9 HG2 A:GLU42 4.8 9.2 1.0 HG3 A:GLU48 4.8 8.4 1.0 HG3 A:GLU42 4.8 9.2 1.0 HD13 A:LEU41 4.9 14.3 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of the Reduced Form of the Solubilized Domain of Porcine Cytochrome B5 in Form 1 Crystal


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the Reduced Form of the Solubilized Domain of Porcine Cytochrome B5 in Form 1 Crystal within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca103 b:8.5 occ:0.91 O A:GLU42 2.3 9.1 1.0 O A:HOH231 2.3 16.5 0.9 O A:HOH215 2.4 12.2 0.9 O A:HOH228 2.4 13.1 0.9 O A:HOH206 2.4 8.6 0.9 C A:GLU42 3.5 6.6 1.0 HB3 A:GLU42 3.9 8.4 1.0 HA A:GLU42 4.1 7.9 1.0 O A:HOH300 4.2 15.1 0.6 CA A:GLU42 4.3 6.6 1.0 OE2 A:GLU43 4.3 12.5 0.6 OE1 A:GLU43 4.3 11.5 0.6 OE1 A:GLU42 4.4 8.1 1.0 CD A:GLU43 4.4 9.9 0.6 N A:GLU43 4.4 6.3 0.4 N A:GLU43 4.6 6.2 0.6 CA A:GLU43 4.6 7.1 0.4 CB A:GLU42 4.6 7.0 1.0 O A:HOH365 4.7 31.9 0.3 CA A:GLU43 4.7 6.9 0.6 O A:HOH326 4.7 22.1 0.5 O A:HOH395 4.8 26.6 0.3 OE2 A:GLU48 4.8 8.6 1.0 O A:HOH213 4.8 10.8 0.9

Y.Hirano, S.Kimura, T.Tamada. High-Resolution Crystal Structures of the Solubilized Domain of Porcine Cytochrome B5 Acta Crystallogr.,Sect.D V. 71 1572 2015.
ISSN: ISSN 0907-4449
DOI: 10.1107/S1399004715009438