Sodium in PDB 1q3x: Crystal Structure of the Catalytic Region of Human Masp-2

The structure of Crystal Structure of the Catalytic Region of Human Masp-2, PDB code: 1q3x was solved by V.Harmat, P.Gal, J.Kardos, K.Szilagyi, G.Ambrus, G.Naray-Szabo, P.Zavodszky, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.64 / 2.23
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	40.950, 41.521, 102.994, 96.44, 91.77, 119.52
R / Rfree (%)	17.4 / 22.4

The binding sites of Sodium atom in the Crystal Structure of the Catalytic Region of Human Masp-2 (pdb code 1q3x). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of the Catalytic Region of Human Masp-2, PDB code: 1q3x:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of the Catalytic Region of Human Masp-2


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the Catalytic Region of Human Masp-2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na800 b:33.1 occ:1.00 OG A:SER657 2.2 13.6 1.0 O A:ASN659 2.2 14.7 1.0 O A:HOH804 2.3 42.5 1.0 O A:HOH806 2.3 54.0 1.0 O A:HOH805 2.5 36.7 1.0 O A:SER657 2.6 12.3 1.0 C A:SER657 3.2 13.5 1.0 C A:ASN659 3.3 14.4 1.0 CB A:SER657 3.3 13.6 1.0 N A:SER657 3.3 12.1 1.0 CA A:SER657 3.4 12.6 1.0 CA A:CYS660 3.8 14.5 1.0 OD2 A:ASP627 3.8 15.8 1.0 N A:CYS660 3.9 13.5 1.0 N A:ASN659 4.1 14.7 1.0 O A:HOH803 4.2 32.9 1.0 N A:GLY661 4.3 15.4 1.0 C A:GLY656 4.3 10.4 1.0 N A:MET658 4.3 14.5 1.0 CA A:ASN659 4.3 15.2 1.0 O A:GLN665 4.3 12.4 1.0 CB A:GLU662 4.3 18.3 1.0 C A:CYS660 4.4 14.3 1.0 N A:GLU662 4.4 17.5 1.0 C A:MET658 4.5 16.1 1.0 OE1 A:GLU662 4.6 23.7 1.0 CB A:GLN665 4.8 12.5 1.0 CA A:GLY656 4.8 8.7 1.0 CB A:CYS660 5.0 15.6 1.0 CA A:MET658 5.0 17.2 1.0 O A:MET658 5.0 17.7 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of the Catalytic Region of Human Masp-2


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of the Catalytic Region of Human Masp-2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na850 b:52.6 occ:1.00 O B:HOH854 2.2 37.5 1.0 O B:HOH855 2.3 59.0 1.0 O B:HOH1018 2.3 32.1 1.0 O B:ASN659 2.7 14.0 1.0 OG B:SER657 2.7 13.2 1.0 O B:SER657 2.7 12.3 1.0 N B:SER657 3.3 12.0 1.0 C B:SER657 3.4 13.4 1.0 OD2 B:ASP627 3.5 15.8 1.0 O B:HOH853 3.5 34.1 1.0 C B:ASN659 3.6 14.3 1.0 CA B:SER657 3.6 12.6 1.0 CB B:SER657 3.6 13.5 1.0 CA B:CYS660 3.8 14.4 1.0 N B:CYS660 4.1 13.6 1.0 O B:GLN665 4.2 12.3 1.0 C B:GLY656 4.2 10.2 1.0 N B:GLY661 4.2 15.3 1.0 C B:CYS660 4.4 14.2 1.0 N B:ASN659 4.5 14.8 1.0 N B:MET658 4.6 14.7 1.0 CA B:GLY656 4.6 8.7 1.0 N B:GLU662 4.6 17.6 1.0 CG B:ASP627 4.6 14.9 1.0 CA B:ASN659 4.7 15.3 1.0 CB B:GLU662 4.7 18.3 1.0 C B:MET658 4.8 16.3 1.0 CB B:CYS660 4.9 15.7 1.0 O B:HOH978 4.9 35.7 1.0 CB B:GLN665 4.9 12.5 1.0

V.Harmat, P.Gal, J.Kardos, K.Szilagyi, G.Ambrus, B.Vegh, G.Naray-Szabo, P.Zavodsky. The Structure of Mbl-Associated Serine Protease-2 Reveals That Identical Substrate Specificities of C1S and Masp-2 Are Realized Through Different Sets of Enzyme-Substrate Interactions J.Mol.Biol. V. 342 1533 2004.
ISSN: ISSN 0022-2836
PubMed: 15364579
DOI: 10.1016/J.JMB.2004.07.014