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Magnesium in PDB 2fge: Crystal Structure of Presequence Protease Prep From Arabidopsis Thaliana

Protein crystallography data

The structure of Crystal Structure of Presequence Protease Prep From Arabidopsis Thaliana, PDB code: 2fge was solved by T.Eneqvist, K.A.Johnson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 93.66 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 110.834, 114.332, 162.984, 90.00, 90.00, 90.00
R / Rfree (%) 20.6 / 25.6

Other elements in 2fge:

The structure of Crystal Structure of Presequence Protease Prep From Arabidopsis Thaliana also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms
Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Presequence Protease Prep From Arabidopsis Thaliana (pdb code 2fge). 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 Presequence Protease Prep From Arabidopsis Thaliana, PDB code: 2fge:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 2fge

Go back to Magnesium Binding Sites List in 2fge
Magnesium binding site 1 out of 4 in the Crystal Structure of Presequence Protease Prep From Arabidopsis Thaliana


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 Presequence Protease Prep From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg998

b:38.1
occ:1.00
O A:HOH1003 2.0 34.8 1.0
O A:HOH1004 2.1 35.4 1.0
OD2 A:ASP705 2.1 33.7 1.0
O A:HOH1000 2.2 30.4 1.0
O A:HOH1001 2.2 31.9 1.0
O A:HOH1002 2.2 44.0 1.0
CG A:ASP705 3.0 32.5 1.0
OD1 A:ASP705 3.2 35.0 1.0
O A:HOH1108 4.0 34.8 1.0
O A:HOH1117 4.1 28.3 1.0
O A:HOH1118 4.1 26.1 1.0
O A:HOH1104 4.2 32.5 1.0
OD1 A:ASP859 4.2 40.1 1.0
CB A:ASP705 4.3 31.2 1.0
OD2 A:ASP861 4.4 30.4 1.0
O A:HOH1493 4.5 39.5 1.0
O A:ALA701 4.8 30.6 1.0
CB A:ASP861 4.9 29.5 1.0
O A:HOH1114 4.9 33.3 1.0

Magnesium binding site 2 out of 4 in 2fge

Go back to Magnesium Binding Sites List in 2fge
Magnesium binding site 2 out of 4 in the Crystal Structure of Presequence Protease Prep From Arabidopsis Thaliana


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 Presequence Protease Prep From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg999

b:29.9
occ:1.00
O A:HOH1007 2.0 27.3 1.0
O A:HOH1006 2.0 47.3 1.0
O A:HOH1009 2.0 28.1 1.0
O A:HOH1010 2.1 30.1 1.0
O A:HOH1008 2.1 43.8 1.0
O A:HOH1005 2.2 29.9 1.0
OG1 A:THR947 3.9 31.4 1.0
OD2 A:ASP952 4.0 33.7 1.0
OD1 A:ASP828 4.0 35.9 1.0
OD2 A:ASP828 4.1 36.3 1.0
O A:THR947 4.4 31.5 1.0
OD1 A:ASP952 4.4 36.1 1.0
CG A:ASP828 4.5 33.9 1.0
CG A:ASP952 4.7 33.3 1.0
O A:GLU944 4.7 28.0 1.0
CB A:THR947 4.9 30.7 1.0
C A:THR947 4.9 31.1 1.0

Magnesium binding site 3 out of 4 in 2fge

Go back to Magnesium Binding Sites List in 2fge
Magnesium binding site 3 out of 4 in the Crystal Structure of Presequence Protease Prep From Arabidopsis Thaliana


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 Presequence Protease Prep From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg998

b:35.7
occ:1.00
O B:HOH1003 1.9 31.6 1.0
O B:HOH1001 2.0 36.4 1.0
O B:HOH1002 2.1 27.5 1.0
O B:HOH1004 2.1 33.0 1.0
OD2 B:ASP705 2.1 33.0 1.0
O B:HOH1000 2.3 27.0 1.0
CG B:ASP705 3.0 30.8 1.0
OD1 B:ASP705 3.2 32.3 1.0
O B:HOH1022 3.9 22.9 1.0
OD1 B:ASP859 4.0 39.5 1.0
O B:HOH1343 4.0 35.2 1.0
O B:HOH1018 4.1 28.4 1.0
O B:HOH1038 4.1 28.3 1.0
CB B:ASP705 4.4 27.4 1.0
O B:HOH1342 4.5 37.2 1.0
OD2 B:ASP861 4.6 33.5 1.0
CB B:ASP861 4.8 30.9 1.0
O B:HOH1019 4.9 25.5 1.0

Magnesium binding site 4 out of 4 in 2fge

Go back to Magnesium Binding Sites List in 2fge
Magnesium binding site 4 out of 4 in the Crystal Structure of Presequence Protease Prep From Arabidopsis Thaliana


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 Presequence Protease Prep From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg999

b:40.8
occ:1.00
O B:HOH1010 1.9 32.5 1.0
O B:HOH1006 2.0 38.4 1.0
O B:HOH1008 2.1 37.6 1.0
O B:HOH1009 2.1 48.7 1.0
O B:HOH1005 2.1 36.0 1.0
O B:HOH1007 2.2 28.2 1.0
OD2 B:ASP952 3.6 39.0 1.0
O B:THR947 3.8 37.5 1.0
OD1 B:ASP828 4.0 32.3 1.0
OD1 B:ASP952 4.0 37.6 1.0
OG1 B:THR947 4.1 37.3 1.0
CG B:ASP952 4.2 37.3 1.0
OD2 B:ASP828 4.2 35.2 1.0
O B:HOH1431 4.3 48.3 1.0
CG B:ASP828 4.5 33.5 1.0
C B:THR947 4.6 37.2 1.0
O B:GLU944 4.7 31.8 1.0
CB B:THR947 4.8 37.1 1.0
CA B:THR948 4.9 37.6 1.0
O B:HOH1430 5.0 52.6 1.0
O B:HOH1432 5.0 44.0 1.0

Reference:

K.A.Johnson, S.Bhushan, B.M.Hallberg, A.Frohn, E.Glaser, T.Eneqvist. The Closed Structure of Presequence Protease Prep Forms A Unique 10 000 A(3) Chamber For Proteolysis Embo J. V. 25 1977 2006.
ISSN: ISSN 0261-4189
PubMed: 16601675
DOI: 10.1038/SJ.EMBOJ.7601080
Page generated: Mon Dec 14 07:22:51 2020

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