Magnesium in PDB 2jd4: Mouse Laminin ALPHA1 Chain, Domains LG4-5

The structure of Mouse Laminin ALPHA1 Chain, Domains LG4-5, PDB code: 2jd4 was solved by D.Harrison, S.A.Hussain, A.C.Combs, J.M.Ervasti, P.D.Yurchenco, E.Hohenester, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20 / 1.9
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	70.530, 55.812, 100.986, 90.00, 98.48, 90.00
R / Rfree (%)	22.95 / 26.24

The structure of Mouse Laminin ALPHA1 Chain, Domains LG4-5 also contains other interesting chemical elements:

Chlorine

(Cl)

3 atoms

The binding sites of Magnesium atom in the Mouse Laminin ALPHA1 Chain, Domains LG4-5 (pdb code 2jd4). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Mouse Laminin ALPHA1 Chain, Domains LG4-5, PDB code: 2jd4:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Mouse Laminin ALPHA1 Chain, Domains LG4-5


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Mouse Laminin ALPHA1 Chain, Domains LG4-5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4061 b:30.8 occ:1.00 O A:THR2814 2.2 30.6 1.0 O A:HOH2054 2.2 27.1 1.0 OD2 A:ASP2747 2.3 24.4 1.0 O A:LEU2764 2.3 30.7 1.0 OD2 A:ASP2816 2.3 31.0 1.0 O A:HOH2034 2.3 31.6 1.0 CG A:ASP2747 3.3 30.6 1.0 C A:LEU2764 3.3 29.8 1.0 C A:THR2814 3.4 29.5 1.0 CG A:ASP2816 3.4 33.7 1.0 OG1 A:THR2814 3.5 28.8 1.0 OD1 A:ASP2747 3.5 27.7 1.0 N A:ASP2816 3.9 26.1 1.0 CB A:ASP2816 4.1 29.8 1.0 CA A:LEU2764 4.1 26.8 1.0 O A:HOH2003 4.1 31.8 1.0 CA A:THR2814 4.2 30.1 1.0 N A:GLY2765 4.3 31.1 1.0 N A:LEU2815 4.3 29.7 1.0 N A:THR2814 4.3 30.9 1.0 OD1 A:ASP2816 4.4 33.1 1.0 CB A:THR2814 4.4 27.9 1.0 CB A:LEU2764 4.4 26.6 1.0 CA A:LEU2815 4.5 28.6 1.0 CA A:GLY2765 4.5 29.2 1.0 CB A:ASP2747 4.6 26.9 1.0 C A:LEU2815 4.6 27.9 1.0 CB A:ALA2812 4.7 39.0 1.0 CA A:ASP2816 4.7 27.3 1.0

Magnesium binding site 2 out of 4 in the Mouse Laminin ALPHA1 Chain, Domains LG4-5


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Mouse Laminin ALPHA1 Chain, Domains LG4-5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4062 b:26.7 occ:1.00 O A:HOH2109 2.0 22.4 1.0 O A:HOH2124 2.2 36.4 1.0 OD2 A:ASP2996 2.2 26.0 1.0 OD2 A:ASP2923 2.2 26.7 1.0 O A:HOH2110 2.2 26.8 1.0 CG A:ASP2923 3.1 27.4 1.0 CG A:ASP2996 3.2 25.7 1.0 OD1 A:ASP2923 3.4 22.9 1.0 CB A:ASP2996 3.6 26.2 1.0 O A:SER2994 3.7 32.8 1.0 O A:ASN2940 3.9 25.7 1.0 N A:ASP2996 4.2 27.8 1.0 O A:HOH2125 4.2 30.0 1.0 OD1 A:ASP2996 4.4 31.5 1.0 CB A:ASP2923 4.5 21.2 1.0 CA A:ASP2996 4.5 27.6 1.0 C A:ASN2940 4.6 30.1 1.0 CL A:CL4063 4.6 48.0 1.0 C A:SER2994 4.7 36.3 1.0

Magnesium binding site 3 out of 4 in the Mouse Laminin ALPHA1 Chain, Domains LG4-5


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Mouse Laminin ALPHA1 Chain, Domains LG4-5 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg4061 b:35.8 occ:1.00 O B:THR2814 2.0 28.0 1.0 O B:LEU2764 2.0 36.1 1.0 OD1 B:ASP2747 2.1 30.7 1.0 OD2 B:ASP2816 2.1 34.4 1.0 O B:HOH2036 2.4 34.1 1.0 O B:HOH2054 2.4 22.2 1.0 C B:LEU2764 3.0 34.4 1.0 C B:THR2814 3.1 31.6 1.0 CG B:ASP2747 3.2 30.4 1.0 CG B:ASP2816 3.3 33.3 1.0 OD2 B:ASP2747 3.6 29.4 1.0 OG1 B:THR2814 3.7 35.1 1.0 N B:ASP2816 3.7 28.5 1.0 CA B:LEU2764 3.8 32.3 1.0 CB B:ASP2816 4.0 32.8 1.0 N B:GLY2765 4.1 36.8 1.0 N B:LEU2815 4.1 28.2 1.0 CA B:THR2814 4.1 32.3 1.0 CB B:LEU2764 4.1 29.1 1.0 CA B:LEU2815 4.2 29.1 1.0 OD1 B:ASP2816 4.2 32.5 1.0 N B:THR2814 4.3 32.3 1.0 CA B:GLY2765 4.3 40.5 1.0 C B:LEU2815 4.3 28.3 1.0 CB B:THR2814 4.4 32.7 1.0 CB B:ASP2747 4.5 30.1 1.0 CA B:ASP2816 4.5 31.2 1.0 CB B:ALA2812 4.9 34.5 1.0

Magnesium binding site 4 out of 4 in the Mouse Laminin ALPHA1 Chain, Domains LG4-5


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Mouse Laminin ALPHA1 Chain, Domains LG4-5 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg4062 b:22.2 occ:1.00 OD2 B:ASP2996 2.0 18.8 1.0 O B:SER2994 2.1 22.9 1.0 O A:HOH2065 2.2 18.2 1.0 O B:ASN2940 2.2 20.9 1.0 OD2 B:ASP2923 2.2 17.9 1.0 O A:HOH2041 2.2 16.3 1.0 CG B:ASP2996 3.2 19.7 1.0 CG B:ASP2923 3.2 20.5 1.0 C B:SER2994 3.3 25.5 1.0 C B:ASN2940 3.3 21.2 1.0 OD1 B:ASP2923 3.6 19.1 1.0 N B:ASP2996 3.7 21.1 1.0 NH2 A:ARG2768 3.8 27.6 1.0 CA B:ASN2940 4.0 21.7 1.0 CB B:ASP2996 4.0 21.9 1.0 N B:ALA2995 4.1 24.7 1.0 OD1 B:ASP2996 4.2 21.7 1.0 CA B:SER2994 4.2 24.1 1.0 CA B:ALA2995 4.2 21.9 1.0 N B:GLY2941 4.3 23.9 1.0 CB B:SER2994 4.3 20.9 1.0 CB B:ASN2940 4.3 18.6 1.0 NH1 A:ARG2768 4.4 24.4 1.0 OD1 A:ASN2834 4.4 24.4 1.0 N B:SER2994 4.5 22.2 1.0 O A:HOH2068 4.5 23.1 1.0 C B:ALA2995 4.5 21.4 1.0 CA B:GLY2941 4.5 22.0 1.0 CA B:ASP2996 4.5 20.7 1.0 CZ A:ARG2768 4.5 26.1 1.0 CB B:ASP2923 4.6 17.7 1.0 OG B:SER2994 4.6 20.0 1.0 CL B:CL4063 4.6 21.6 1.0 OG B:SER2992 4.7 21.3 1.0

D.Harrison, S.A.Hussain, A.C.Combs, J.M.Ervasti, P.D.Yurchenco, E.Hohenester. Crystal Structure and Cell Surface Anchorage Sites of Laminin {Alpha}1LG4-5. J.Biol.Chem. V. 282 11573 2007.
ISSN: ISSN 0021-9258
PubMed: 17307732
DOI: 10.1074/JBC.M610657200