Magnesium in PDB 1z0s: Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp

All present enzymatic activity of Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp:
2.7.1.23;

The structure of Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp, PDB code: 1z0s was solved by J.Liu, Y.Lou, H.Yokota, P.D.Adams, R.Kim, S.H.Kim, Berkeleystructural Genomics Center (Bsgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.70
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	55.252, 69.731, 76.287, 106.35, 111.32, 101.30
R / Rfree (%)	20 / 23.1

The binding sites of Magnesium atom in the Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp (pdb code 1z0s). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp, PDB code: 1z0s:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5001 b:32.1 occ:1.00 O4 A:POP3953 1.9 38.1 1.0 O2 A:POP3953 2.0 36.0 1.0 O2A A:ATP737 2.0 21.5 1.0 O2G A:ATP737 2.0 37.0 1.0 O1B A:ATP737 2.2 30.6 1.0 P2 A:POP3953 3.1 39.8 1.0 P1 A:POP3953 3.2 34.5 1.0 PB A:ATP737 3.2 30.3 1.0 PA A:ATP737 3.3 22.6 1.0 PG A:ATP737 3.3 37.1 1.0 O A:HOH5079 3.4 42.7 1.0 O A:POP3953 3.6 37.2 1.0 O3A A:ATP737 3.6 25.3 1.0 O3 A:POP3953 3.7 37.0 1.0 O3B A:ATP737 3.7 33.4 1.0 O5 A:POP3953 3.7 37.2 1.0 O1G A:ATP737 3.9 35.9 1.0 CA A:GLY50 4.1 11.1 1.0 O1A A:ATP737 4.2 21.7 1.0 NH2 A:ARG54 4.2 17.3 1.0 N A:GLY50 4.3 11.5 1.0 O6 A:POP3953 4.3 39.7 1.0 O1 A:POP3953 4.4 35.0 1.0 O5' A:ATP737 4.4 19.8 1.0 O3G A:ATP737 4.5 35.8 1.0 O2B A:ATP737 4.6 31.6 1.0 NH1 A:ARG72 4.6 29.5 1.0 NH1 A:ARG54 4.8 15.5 1.0

Magnesium binding site 2 out of 4 in the Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg5002 b:42.1 occ:1.00 O2 B:POP3954 1.7 42.1 1.0 O2A B:ATP738 1.9 27.5 1.0 O4 B:POP3954 2.1 40.5 1.0 O1B B:ATP738 2.5 37.1 1.0 O3B B:ATP738 2.7 42.9 1.0 P1 B:POP3954 2.9 43.3 1.0 PB B:ATP738 3.0 37.9 1.0 P2 B:POP3954 3.2 39.6 1.0 PA B:ATP738 3.2 28.1 1.0 O1 B:POP3954 3.2 43.0 1.0 O B:POP3954 3.4 41.3 1.0 O3A B:ATP738 3.6 32.3 1.0 O5 B:POP3954 3.8 41.2 1.0 PG B:ATP738 4.0 46.6 1.0 O1G B:ATP738 4.0 47.7 1.0 O1A B:ATP738 4.0 27.7 1.0 O3 B:POP3954 4.1 42.9 1.0 CA B:GLY50 4.2 12.4 1.0 NH2 B:ARG54 4.4 20.2 1.0 O5' B:ATP738 4.4 24.4 1.0 N B:GLY50 4.4 12.5 1.0 O6 B:POP3954 4.5 38.5 1.0 O2B B:ATP738 4.5 39.0 1.0 NZ B:LYS8 4.6 23.0 1.0 O3G B:ATP738 4.8 47.1 1.0 NH1 B:ARG54 4.8 19.2 1.0

Magnesium binding site 3 out of 4 in the Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg5003 b:37.1 occ:1.00 O2 C:POP3955 1.9 63.6 1.0 O2A C:ATP739 2.1 29.2 1.0 O4 C:POP3955 2.1 63.2 1.0 O1B C:ATP739 2.3 37.0 1.0 O2G C:ATP739 2.3 48.0 1.0 PB C:ATP739 3.1 38.6 1.0 P2 C:POP3955 3.1 63.2 1.0 P1 C:POP3955 3.2 64.1 1.0 O3B C:ATP739 3.2 43.2 1.0 PA C:ATP739 3.3 29.9 1.0 PG C:ATP739 3.3 47.4 1.0 O5 C:POP3955 3.5 63.4 1.0 O C:POP3955 3.5 63.5 1.0 O3A C:ATP739 3.6 34.3 1.0 O1A C:ATP739 4.1 29.2 1.0 O1 C:POP3955 4.1 63.7 1.0 O3G C:ATP739 4.1 48.8 1.0 O3 C:POP3955 4.2 63.6 1.0 NH2 C:ARG54 4.5 20.7 1.0 CA C:GLY50 4.5 12.4 1.0 O1G C:ATP739 4.5 48.6 1.0 O6 C:POP3955 4.5 62.9 1.0 O2B C:ATP739 4.5 39.3 1.0 O5' C:ATP739 4.5 26.4 1.0 NH1 C:ARG54 4.6 20.7 1.0 N C:GLY50 4.7 13.1 1.0

Magnesium binding site 4 out of 4 in the Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg5004 b:29.6 occ:1.00 O4 D:POP3956 1.7 36.2 1.0 O2A D:ATP740 1.9 18.9 1.0 O2 D:POP3956 2.0 33.4 1.0 O1B D:ATP740 2.1 26.9 1.0 O1G D:ATP740 2.2 37.2 1.0 P2 D:POP3956 3.0 37.9 1.0 P1 D:POP3956 3.1 31.4 1.0 PB D:ATP740 3.2 29.9 1.0 PA D:ATP740 3.2 20.2 1.0 PG D:ATP740 3.4 37.4 1.0 O D:POP3956 3.5 34.6 1.0 O3 D:POP3956 3.6 34.1 1.0 O3A D:ATP740 3.6 24.4 1.0 O3B D:ATP740 3.7 32.6 1.0 O5 D:POP3956 3.7 36.1 1.0 O1A D:ATP740 4.1 20.3 1.0 O3G D:ATP740 4.1 36.9 1.0 CA D:GLY50 4.2 10.7 1.0 O6 D:POP3956 4.2 37.0 1.0 N D:GLY50 4.3 10.9 1.0 O5' D:ATP740 4.3 19.0 1.0 NH2 D:ARG54 4.4 18.3 1.0 O1 D:POP3956 4.4 29.6 1.0 O2B D:ATP740 4.5 31.1 1.0 O2G D:ATP740 4.6 36.3 1.0 NH1 D:ARG54 4.9 17.1 1.0

J.Liu, Y.Lou, H.Yokota, P.D.Adams, R.Kim, S.H.Kim. Crystal Structures of An Nad Kinase From Archaeoglobus Fulgidus in Complex with Atp, Nad, or Nadp J.Mol.Biol. V. 354 289 2005.
ISSN: ISSN 0022-2836
PubMed: 16242716
DOI: 10.1016/J.JMB.2005.09.026