Calcium in PDB 8haw: An Auto-Activation Mechanism of Plant Non-Specific Phospholipase C

All present enzymatic activity of An Auto-Activation Mechanism of Plant Non-Specific Phospholipase C:
3.1.4.3;

The structure of An Auto-Activation Mechanism of Plant Non-Specific Phospholipase C, PDB code: 8haw was solved by F.Zhao, R.Y.Fan, Z.Y.Guan, L.Guo, P.Yin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.99 / 2.10
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	63.047, 61.621, 132.804, 90, 103.59, 90
R / Rfree (%)	18.4 / 21.1

The binding sites of Calcium atom in the An Auto-Activation Mechanism of Plant Non-Specific Phospholipase C (pdb code 8haw). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the An Auto-Activation Mechanism of Plant Non-Specific Phospholipase C, PDB code: 8haw:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the An Auto-Activation Mechanism of Plant Non-Specific Phospholipase C


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of An Auto-Activation Mechanism of Plant Non-Specific Phospholipase C within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca602 b:15.6 occ:0.60 OD1 A:ASN24x 2.1 14.6 1.0 OG1 A:TPO158x 2.2 21.9 1.0 OD2 A:ASP299x 2.2 26.1 1.0 OE2 A:GLU300x 2.4 23.3 1.0 OE1 A:GLU23x 2.4 25.4 1.0 CG A:ASP299x 2.9 15.0 1.0 OD1 A:ASP299x 3.0 14.0 1.0 CB A:TPO158x 3.2 19.7 1.0 CG A:ASN24x 3.2 16.0 1.0 CD A:GLU300x 3.3 15.5 1.0 P A:TPO158x 3.3 26.2 0.7 O2P A:TPO158x 3.3 26.2 0.7 CD A:GLU23x 3.3 21.9 1.0 CA A:TPO158x 3.4 14.9 1.0 CG2 A:TPO158x 3.6 18.7 1.0 ND2 A:ASN24x 3.8 17.6 1.0 OE2 A:GLU23x 3.8 24.6 1.0 CG A:GLU300x 3.9 17.6 1.0 N A:TPO158x 4.0 12.2 1.0 N A:ASN24x 4.2 11.1 1.0 OE1 A:GLU300x 4.2 19.3 1.0 O3P A:TPO158x 4.2 24.6 0.7 CD2 A:HIS264x 4.3 19.0 1.0 CB A:ASP299x 4.4 12.8 1.0 CB A:ASN24x 4.4 11.7 1.0 CB A:GLU23x 4.4 13.9 1.0 O1P A:TPO158x 4.5 20.8 0.7 CG A:GLU23x 4.5 21.4 1.0 CA A:GLU23x 4.5 14.4 1.0 CA A:ASN24x 4.6 10.9 1.0 NE2 A:HIS264x 4.6 25.4 1.0 C A:TPO158x 4.7 16.4 1.0 N A:GLU300x 4.8 9.7 1.0 C A:GLU23x 4.8 12.5 1.0 C A:SER157x 4.9 15.3 1.0 CD2 A:HIS79x 5.0 19.7 1.0

Calcium binding site 2 out of 2 in the An Auto-Activation Mechanism of Plant Non-Specific Phospholipase C


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of An Auto-Activation Mechanism of Plant Non-Specific Phospholipase C within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca703 b:15.2 occ:0.60 OD1 B:ASN24x 2.1 16.1 1.0 OG1 B:TPO158x 2.1 19.1 1.0 OD2 B:ASP299x 2.2 27.3 1.0 OE1 B:GLU23x 2.4 21.7 1.0 OE2 B:GLU300x 2.5 27.1 1.0 CG B:ASP299x 3.0 15.9 1.0 OD1 B:ASP299x 3.0 12.2 1.0 CG B:ASN24x 3.1 17.7 1.0 CB B:TPO158x 3.2 17.1 1.0 P B:TPO158x 3.3 20.9 0.6 O1P B:TPO158x 3.3 20.3 0.6 CD B:GLU23x 3.4 23.0 1.0 CA B:TPO158x 3.4 12.2 1.0 ND2 B:ASN24x 3.6 18.7 1.0 CG2 B:TPO158x 3.6 16.2 1.0 CD B:GLU300x 3.6 17.6 1.0 OE2 B:GLU23x 3.9 28.9 1.0 N B:TPO158x 4.0 11.5 1.0 CG B:GLU300x 4.1 19.8 1.0 N B:ASN24x 4.2 10.2 1.0 O3P B:TPO158x 4.2 25.3 0.6 CB B:ASP299x 4.4 11.8 1.0 CB B:ASN24x 4.4 10.9 1.0 CD2 B:HIS264x 4.4 19.6 1.0 O2P B:TPO158x 4.4 17.2 0.6 CB B:GLU23x 4.5 14.4 1.0 CG B:GLU23x 4.5 20.6 1.0 CA B:GLU23x 4.6 15.0 1.0 NE2 B:HIS264x 4.6 23.2 1.0 CA B:ASN24x 4.6 14.1 1.0 OE1 B:GLU300x 4.7 27.7 1.0 C B:TPO158x 4.7 13.2 1.0 N B:GLU300x 4.8 9.2 1.0 C B:GLU23x 4.8 13.8 1.0 CD2 B:HIS79x 4.8 18.9 1.0 C B:SER157x 4.9 13.9 1.0

R.Fan, F.Zhao, Z.Gong, Y.Chen, B.Yang, C.Zhou, J.Zhang, Z.Du, X.Wang, P.Yin, L.Guo, Z.Liu. Insights Into the Mechanism of Phospholipid Hydrolysis By Plant Non-Specific Phospholipase C. Nat Commun V. 14 194 2023.
ISSN: ESSN 2041-1723
PubMed: 36635324
DOI: 10.1038/S41467-023-35915-4