Magnesium in PDB 2j9c: Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake

The structure of Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake, PDB code: 2j9c was solved by O.Yildiz, C.Kalthoff, S.Raunser, W.Kuehlbrandt, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	14.65 / 1.30
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	122.700, 122.700, 45.700, 90.00, 90.00, 120.00
R / Rfree (%)	14.3 / 18.7

The structure of Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Magnesium atom in the Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake (pdb code 2j9c). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake, PDB code: 2j9c:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1117 b:13.6 occ:1.00 O3G A:ATP1116 2.0 14.2 1.0 O A:HOH2077 2.0 14.1 1.0 O2B A:ATP1116 2.0 13.2 1.0 O1A A:ATP1116 2.1 12.7 1.0 O A:HOH2090 2.1 14.5 1.0 O A:HOH2177 2.1 16.7 1.0 PB A:ATP1116 3.1 12.8 1.0 PG A:ATP1116 3.2 13.7 1.0 PA A:ATP1116 3.2 12.3 1.0 O3B A:ATP1116 3.5 14.6 1.0 O3A A:ATP1116 3.5 12.7 1.0 O2G A:ATP1116 3.7 15.7 1.0 N A:GLY87 3.9 15.2 1.0 O A:HOH2085 4.0 19.6 1.0 O A:HOH2089 4.0 19.3 1.0 O2A A:ATP1116 4.0 13.2 1.0 CA A:GLY37 4.1 13.6 1.0 N A:VAL38 4.2 15.0 1.0 O A:VAL38 4.3 16.5 1.0 OE1 A:GLU44 4.3 16.9 1.0 C A:GLY37 4.4 13.0 1.0 O A:HOH2091 4.4 15.8 1.0 CB A:PRO86 4.4 19.2 1.0 CA A:GLY87 4.4 12.3 1.0 O1G A:ATP1116 4.5 15.2 1.0 N A:GLY37 4.5 13.9 1.0 O1B A:ATP1116 4.5 15.4 1.0 O5' A:ATP1116 4.5 12.1 1.0 C A:PRO86 4.5 17.2 1.0 CA A:PRO86 4.6 17.6 1.0 O A:HOH2084 4.7 21.5 1.0 O A:HOH2082 4.7 23.0 1.0 CG2 A:VAL38 4.8 20.1 1.0

Magnesium binding site 2 out of 3 in the Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1117 b:15.2 occ:1.00 O3G B:ATP1116 2.0 14.9 1.0 O1A B:ATP1116 2.0 14.2 1.0 O2B B:ATP1116 2.1 15.3 1.0 O B:HOH2070 2.1 16.3 1.0 O B:HOH2062 2.1 16.9 1.0 O B:HOH2065 2.2 17.8 1.0 PB B:ATP1116 3.1 14.9 1.0 PA B:ATP1116 3.2 13.3 1.0 PG B:ATP1116 3.2 16.1 1.0 O3A B:ATP1116 3.5 13.1 1.0 O3B B:ATP1116 3.5 15.9 1.0 O2G B:ATP1116 3.8 18.2 1.0 N B:GLY87 3.9 14.7 1.0 O2A B:ATP1116 4.0 13.6 1.0 N B:VAL38 4.2 16.0 1.0 CA B:GLY37 4.2 14.9 1.0 O B:VAL38 4.2 21.4 1.0 O B:HOH2066 4.2 22.1 1.0 CB B:PRO86 4.2 18.0 1.0 O B:HOH2072 4.3 17.9 1.0 CA B:GLY87 4.4 13.9 1.0 O B:HOH2154 4.4 24.3 1.0 OE2 B:GLU44 4.4 22.3 1.0 O B:HOH2060 4.4 23.5 1.0 O5' B:ATP1116 4.4 12.8 1.0 C B:PRO86 4.4 15.6 1.0 O1B B:ATP1116 4.5 14.6 1.0 O1G B:ATP1116 4.5 16.6 1.0 C B:GLY37 4.5 15.9 1.0 CA B:PRO86 4.6 17.1 1.0 N B:GLY37 4.7 13.3 1.0 CG2 B:VAL38 4.7 21.4 1.0 O B:GLY40 4.7 33.5 1.0 O B:HOH2071 4.9 34.4 1.0

Magnesium binding site 3 out of 3 in the Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1117 b:13.1 occ:1.00 O2G C:ATP1116 2.0 12.4 1.0 O2B C:ATP1116 2.1 11.8 1.0 O1A C:ATP1116 2.1 11.8 1.0 O C:HOH2071 2.1 13.9 1.0 O C:HOH2145 2.1 16.4 1.0 O C:HOH2061 2.1 12.7 1.0 PB C:ATP1116 3.1 11.6 1.0 PG C:ATP1116 3.2 13.2 1.0 PA C:ATP1116 3.2 11.4 1.0 O3A C:ATP1116 3.5 11.2 1.0 O3B C:ATP1116 3.5 12.2 1.0 O1G C:ATP1116 3.7 16.8 1.0 N C:GLY87 3.8 13.8 1.0 O C:HOH2068 4.0 19.1 1.0 O2A C:ATP1116 4.0 11.6 1.0 O C:HOH2073 4.1 22.6 1.0 CA C:GLY37 4.1 12.7 1.0 N C:VAL38 4.2 12.3 1.0 CB C:PRO86 4.2 16.9 1.0 O C:VAL38 4.3 16.5 1.0 OE1 C:GLU44 4.4 17.2 1.0 O C:HOH2144 4.4 17.6 1.0 CA C:GLY87 4.4 12.4 1.0 C C:GLY37 4.4 12.1 1.0 C C:PRO86 4.5 13.7 1.0 O5' C:ATP1116 4.5 11.2 1.0 O1B C:ATP1116 4.5 12.3 1.0 CA C:PRO86 4.5 15.1 1.0 O3G C:ATP1116 4.5 13.8 1.0 N C:GLY37 4.6 12.6 1.0 O C:HOH2067 4.7 22.9 1.0 O C:HOH2065 4.8 24.9 1.0 CG2 C:VAL38 4.8 15.6 1.0

O.Yildiz, C.Kalthoff, S.Raunser, W.Kuhlbrandt. Structure of GLNK1 with Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake. Embo J. V. 26 589 2007.
ISSN: ISSN 0261-4189
PubMed: 17203075
DOI: 10.1038/SJ.EMBOJ.7601492