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Magnesium in PDB 3rrz: H-Ras in 70% Glycerol: One of 10 in Mscs Set

Protein crystallography data

The structure of H-Ras in 70% Glycerol: One of 10 in Mscs Set, PDB code: 3rrz was solved by C.Mattos, G.Buhrman, B.Kearney, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.81 / 1.60
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 89.278, 89.278, 134.703, 90.00, 90.00, 120.00
R / Rfree (%) 18.3 / 20.5

Other elements in 3rrz:

The structure of H-Ras in 70% Glycerol: One of 10 in Mscs Set also contains other interesting chemical elements:

Calcium (Ca) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the H-Ras in 70% Glycerol: One of 10 in Mscs Set (pdb code 3rrz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the H-Ras in 70% Glycerol: One of 10 in Mscs Set, PDB code: 3rrz:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3rrz

Go back to Magnesium Binding Sites List in 3rrz
Magnesium binding site 1 out of 2 in the H-Ras in 70% Glycerol: One of 10 in Mscs Set


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of H-Ras in 70% Glycerol: One of 10 in Mscs Set within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg192

b:20.2
occ:1.00
O2G A:GNP190 2.0 21.6 1.0
O2B A:GNP190 2.1 18.3 1.0
O A:HOH303 2.1 19.6 1.0
OG A:SER17 2.2 19.4 1.0
OG1 A:THR35 2.2 20.5 1.0
O A:HOH301 2.2 23.4 1.0
CB A:THR35 3.1 23.2 1.0
PG A:GNP190 3.2 19.8 1.0
CB A:SER17 3.2 17.4 1.0
PB A:GNP190 3.2 19.2 1.0
N3B A:GNP190 3.3 18.4 1.0
N A:THR35 3.8 24.2 1.0
N A:SER17 3.8 18.6 1.0
OD2 A:ASP57 4.0 22.5 1.0
O3G A:GNP190 4.0 23.1 1.0
CA A:THR35 4.1 26.5 1.0
CA A:SER17 4.1 17.5 1.0
O2A A:GNP190 4.1 22.7 1.0
CG2 A:THR35 4.2 25.5 1.0
OD1 A:ASP57 4.2 21.6 1.0
O3A A:GNP190 4.2 18.3 1.0
O1B A:GNP190 4.3 18.9 1.0
O1G A:GNP190 4.3 21.3 1.0
O1 A:GOL203 4.3 37.6 1.0
CG A:ASP57 4.5 19.9 1.0
O A:THR58 4.5 21.7 1.0
O A:ASP33 4.5 23.2 1.0
PA A:GNP190 4.5 19.4 1.0
C1 A:GOL203 4.6 33.9 1.0
C2 A:GOL203 4.7 36.2 1.0
O1A A:GNP190 4.7 18.5 1.0
C A:PRO34 4.8 25.5 1.0
CB A:LYS16 4.8 16.3 1.0
C A:LYS16 4.9 17.4 1.0
CE A:LYS16 4.9 18.3 1.0
NZ A:LYS16 5.0 17.3 1.0

Magnesium binding site 2 out of 2 in 3rrz

Go back to Magnesium Binding Sites List in 3rrz
Magnesium binding site 2 out of 2 in the H-Ras in 70% Glycerol: One of 10 in Mscs Set


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of H-Ras in 70% Glycerol: One of 10 in Mscs Set within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg194

b:29.1
occ:0.35
O A:HOH364 2.7 46.9 1.0
O A:HOH342 2.7 39.8 1.0
O A:HOH432 3.5 54.9 0.9
O A:THR124 4.4 22.9 1.0
OE1 A:GLN129 4.5 30.1 1.0
O A:HOH338 4.5 37.0 1.0
O A:HOH453 4.6 35.6 0.6
CD A:GLN129 5.0 29.9 1.0

Reference:

G.Buhrman, C.O Connor, B.Zerbe, B.M.Kearney, R.Napoleon, E.A.Kovrigina, S.Vajda, D.Kozakov, E.L.Kovrigin, C.Mattos. Analysis of Binding Site Hot Spots on the Surface of Ras Gtpase. J.Mol.Biol. V. 413 773 2011.
ISSN: ISSN 0022-2836
PubMed: 21945529
DOI: 10.1016/J.JMB.2011.09.011
Page generated: Mon Dec 14 08:45:55 2020

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