Magnesium in PDB 1pkg: Structure of A C-Kit Kinase Product Complex

The structure of Structure of A C-Kit Kinase Product Complex, PDB code: 1pkg was solved by C.D.Mol, K.B.Lim, V.Sridhar, H.Zou, E.Y.T.Chien, B.-C.Sang, J.Nowakowski, D.B.Kassel, C.N.Cronin, D.E.Mcree, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.90
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	92.667, 116.458, 60.066, 90.00, 90.00, 90.00
R / Rfree (%)	22.5 / 31.1

The binding sites of Magnesium atom in the Structure of A C-Kit Kinase Product Complex (pdb code 1pkg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of A C-Kit Kinase Product Complex, PDB code: 1pkg:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of A C-Kit Kinase Product Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of A C-Kit Kinase Product Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1481 b:5.1 occ:1.00 O2A A:ADP1480 2.0 10.6 1.0 O3B A:ADP1480 2.1 11.5 1.0 OD1 A:ASN797 2.2 9.6 1.0 O2P B:PTR568 2.2 6.4 1.0 OD1 A:ASP810 3.0 13.5 1.0 PA A:ADP1480 3.3 9.7 1.0 CG A:ASN797 3.3 10.0 1.0 PB A:ADP1480 3.4 11.2 1.0 P B:PTR568 3.4 3.8 1.0 O1P B:PTR568 3.5 3.8 1.0 O3A A:ADP1480 3.7 10.5 1.0 C5' A:ADP1480 3.7 7.3 1.0 O3' A:ADP1480 3.8 9.5 1.0 CG A:ARG796 3.8 15.0 1.0 O5' A:ADP1480 3.8 5.0 1.0 ND2 A:ASN797 3.9 8.3 1.0 O A:ARG796 3.9 14.3 1.0 CG A:ASP810 4.0 15.8 1.0 O3P B:PTR568 4.2 6.6 1.0 C3' A:ADP1480 4.3 11.2 1.0 CA A:GLY598 4.3 17.1 1.0 O2B A:ADP1480 4.3 13.2 1.0 CB A:ASP810 4.4 16.2 1.0 CD A:ARG796 4.4 15.8 1.0 C A:ARG796 4.5 13.8 1.0 O1B A:ADP1480 4.5 13.6 1.0 C4' A:ADP1480 4.5 10.3 1.0 CB A:ASN797 4.5 11.3 1.0 O1A A:ADP1480 4.5 8.1 1.0 NE A:ARG796 4.6 16.4 1.0 CA A:ASN797 4.6 11.8 1.0 OH B:PTR568 4.7 3.7 1.0 CB A:ARG796 4.7 14.7 1.0 N A:GLY598 4.8 16.5 1.0 N A:ASN797 4.8 12.6 1.0

Magnesium binding site 2 out of 2 in the Structure of A C-Kit Kinase Product Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of A C-Kit Kinase Product Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1485 b:16.1 occ:1.00 O2A B:ADP1486 1.9 9.5 1.0 O3B B:ADP1486 2.0 6.8 1.0 OD1 B:ASN797 2.0 10.9 1.0 OD1 B:ASP810 2.6 24.9 1.0 CG B:ASN797 3.2 12.6 1.0 PA B:ADP1486 3.4 6.2 1.0 PB B:ADP1486 3.4 8.0 1.0 CG B:ASP810 3.6 23.9 1.0 ND2 B:ASN797 3.7 9.1 1.0 C5' B:ADP1486 3.8 9.2 1.0 O3A B:ADP1486 3.9 7.5 1.0 O3' B:ADP1486 3.9 9.3 1.0 CB B:ASP810 4.0 23.0 1.0 O B:ARG796 4.1 14.4 1.0 O5' B:ADP1486 4.1 8.8 1.0 O2B B:ADP1486 4.1 8.9 1.0 CD B:ARG796 4.1 15.5 1.0 NE B:ARG796 4.4 16.3 1.0 O1A B:ADP1486 4.4 8.2 1.0 C B:ARG796 4.4 14.9 1.0 CB B:ASN797 4.4 13.8 1.0 C3' B:ADP1486 4.5 8.8 1.0 O1B B:ADP1486 4.5 8.2 1.0 CG B:ARG796 4.5 16.2 1.0 CA B:ASN797 4.6 14.2 1.0 CB B:ARG796 4.6 15.7 1.0 N B:ASN797 4.7 14.7 1.0 OD2 B:ASP810 4.7 24.9 1.0 C4' B:ADP1486 4.7 9.1 1.0 CA B:GLY598 4.7 15.0 1.0

C.D.Mol, K.B.Lim, V.Sridhar, H.Zou, E.Y.T.Chien, B.-C.Sang, J.Nowakowski, D.B.Kassel, C.N.Cronin, D.E.Mcree. Structure of A C-Kit Product Complex Reveals the Basis For Kinase Transactivation. J.Biol.Chem. V. 278 31461 2003.
ISSN: ISSN 0021-9258
PubMed: 12824176
DOI: 10.1074/JBC.C300186200