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Magnesium in PDB 5m7p: Crystal Structure of Ntrx From Brucella Abortus in Complex with Adp Processed with the Crystaldirect Automated Mounting and Cryo-Cooling Technology

Protein crystallography data

The structure of Crystal Structure of Ntrx From Brucella Abortus in Complex with Adp Processed with the Crystaldirect Automated Mounting and Cryo-Cooling Technology, PDB code: 5m7p was solved by I.Cornaciu, I.Fernandez, G.Hoffmann, M.C.Carrica, F.A.Goldbaum, J.A.Marquez, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.87 / 2.36
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 116.979, 190.840, 111.883, 90.00, 90.00, 90.00
R / Rfree (%) 19.9 / 22.9

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Ntrx From Brucella Abortus in Complex with Adp Processed with the Crystaldirect Automated Mounting and Cryo-Cooling Technology (pdb code 5m7p). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Ntrx From Brucella Abortus in Complex with Adp Processed with the Crystaldirect Automated Mounting and Cryo-Cooling Technology, PDB code: 5m7p:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5m7p

Go back to Magnesium Binding Sites List in 5m7p
Magnesium binding site 1 out of 2 in the Crystal Structure of Ntrx From Brucella Abortus in Complex with Adp Processed with the Crystaldirect Automated Mounting and Cryo-Cooling Technology


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 Ntrx From Brucella Abortus in Complex with Adp Processed with the Crystaldirect Automated Mounting and Cryo-Cooling Technology within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:74.5
occ:1.00
OD1 A:ASP10 2.2 65.7 1.0
OD1 A:ASP9 2.8 78.0 1.0
OD2 A:ASP53 3.0 74.3 1.0
CG A:ASP53 3.1 70.0 1.0
OD1 A:ASP53 3.1 70.7 1.0
CG A:ASP10 3.2 65.8 1.0
CG A:ASP9 3.6 76.4 1.0
OD2 A:ASP10 3.7 70.0 1.0
OD2 A:ASP9 3.8 80.4 1.0
N A:GLU11 4.0 62.6 1.0
N A:ASP10 4.1 60.2 1.0
CB A:ASP53 4.1 56.8 1.0
CB A:GLU11 4.2 64.3 1.0
CB A:ASP10 4.4 60.6 1.0
NZ A:LYS105 4.4 0.4 1.0
CA A:ASP10 4.6 59.5 1.0
C A:ASP10 4.7 64.9 1.0
CA A:GLU11 4.7 62.9 1.0
CB A:ASP9 4.8 62.5 1.0
C A:ASP9 4.9 64.2 1.0
CA A:ASP9 5.0 60.0 1.0

Magnesium binding site 2 out of 2 in 5m7p

Go back to Magnesium Binding Sites List in 5m7p
Magnesium binding site 2 out of 2 in the Crystal Structure of Ntrx From Brucella Abortus in Complex with Adp Processed with the Crystaldirect Automated Mounting and Cryo-Cooling Technology


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 Ntrx From Brucella Abortus in Complex with Adp Processed with the Crystaldirect Automated Mounting and Cryo-Cooling Technology within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:62.5
occ:1.00
OE1 B:GLU11 2.5 78.2 1.0
O B:HOH665 2.6 65.8 1.0
OD2 B:ASP53 2.7 84.1 1.0
OD2 B:ASP9 2.8 81.1 1.0
OD1 B:ASP9 2.9 75.6 1.0
OD1 B:ASP10 2.9 74.7 1.0
NZ B:LYS105 3.0 0.7 1.0
CG B:ASP9 3.2 74.3 1.0
CG B:ASP53 3.2 76.8 1.0
OD1 B:ASP53 3.3 76.9 1.0
CD B:GLU11 3.5 91.8 1.0
CG B:ASP10 4.0 74.3 1.0
CG B:GLU11 4.1 73.2 1.0
CB B:ASP53 4.3 63.6 1.0
CE B:LYS105 4.4 0.4 1.0
OD2 B:ASP10 4.4 81.1 1.0
N B:ASP10 4.5 61.6 1.0
OE2 B:GLU11 4.5 88.0 1.0
CB B:ASP9 4.6 60.4 1.0
CG1 B:ILE14 4.6 53.7 1.0
CB B:GLU11 4.6 62.0 1.0
N B:GLU11 4.6 60.9 1.0
O B:TRP55 4.7 79.0 1.0

Reference:

I.Fernandez, I.Cornaciu, M.D.Carrica, E.Uchikawa, G.Hoffmann, R.Sieira, J.A.Marquez, F.A.Goldbaum. Three-Dimensional Structure of Full-Length Ntrx, An Unusual Member of the Ntrc Family of Response Regulators. J. Mol. Biol. V. 429 1192 2017.
ISSN: ESSN 1089-8638
PubMed: 28088479
DOI: 10.1016/J.JMB.2016.12.022
Page generated: Mon Dec 14 20:50:51 2020

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