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Magnesium in PDB 1m2o: Crystal Structure of the SEC23-SAR1 Complex

Protein crystallography data

The structure of Crystal Structure of the SEC23-SAR1 Complex, PDB code: 1m2o was solved by X.Bi, R.A.Corpina, J.Goldberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.85 / 2.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.196, 151.158, 271.625, 90.00, 90.00, 90.00
R / Rfree (%) 23.8 / 29.4

Other elements in 1m2o:

The structure of Crystal Structure of the SEC23-SAR1 Complex also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the SEC23-SAR1 Complex (pdb code 1m2o). 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 the SEC23-SAR1 Complex, PDB code: 1m2o:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 1m2o

Go back to Magnesium Binding Sites List in 1m2o
Magnesium binding site 1 out of 2 in the Crystal Structure of the SEC23-SAR1 Complex


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 the SEC23-SAR1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg210

b:27.1
occ:1.00
OG1 B:THR37 2.2 21.8 1.0
OG1 B:THR54 2.2 24.0 1.0
O B:HOH5203 2.3 17.2 1.0
O2G B:GNP5200 2.3 24.1 1.0
O B:HOH5211 2.5 47.3 1.0
O2B B:GNP5200 2.5 19.5 1.0
CB B:THR54 3.1 22.5 1.0
CB B:THR37 3.3 17.1 1.0
N B:THR54 3.3 22.5 1.0
PG B:GNP5200 3.3 20.5 1.0
N3B B:GNP5200 3.4 20.1 1.0
PB B:GNP5200 3.5 20.1 1.0
CA B:THR54 3.8 21.8 1.0
O B:GLN52 4.1 24.8 1.0
CG2 B:THR37 4.1 14.6 1.0
OD2 B:ASP73 4.1 17.8 1.0
O2A B:GNP5200 4.2 19.2 1.0
O3G B:GNP5200 4.2 22.0 1.0
N B:THR37 4.3 19.2 1.0
O1G B:GNP5200 4.3 22.2 1.0
OD1 A:ASN600 4.3 29.0 1.0
C B:PRO53 4.3 22.1 1.0
CA B:THR37 4.4 18.6 1.0
CG2 B:THR54 4.4 19.8 1.0
O3A B:GNP5200 4.4 20.2 1.0
OD1 B:ASP73 4.5 21.3 1.0
O1B B:GNP5200 4.6 17.5 1.0
CA B:PRO53 4.6 21.1 1.0
ND2 A:ASN600 4.7 25.1 1.0
PA B:GNP5200 4.7 17.1 1.0
NH1 A:ARG722 4.7 24.8 1.0
CG B:ASP73 4.7 19.9 1.0
O1A B:GNP5200 4.8 17.4 1.0
CG A:ASN600 4.9 29.4 1.0
O B:LEU74 4.9 22.4 1.0

Magnesium binding site 2 out of 2 in 1m2o

Go back to Magnesium Binding Sites List in 1m2o
Magnesium binding site 2 out of 2 in the Crystal Structure of the SEC23-SAR1 Complex


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 the SEC23-SAR1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg210

b:60.6
occ:1.00
OG1 D:THR37 2.5 66.9 1.0
O2G D:GNP7200 2.7 68.6 1.0
OG1 D:THR54 2.7 61.4 1.0
O2B D:GNP7200 2.9 71.5 1.0
CB D:THR37 3.1 69.6 1.0
O2A D:GNP7200 3.5 79.2 1.0
N D:THR54 3.6 63.4 1.0
N3B D:GNP7200 3.6 73.1 1.0
PG D:GNP7200 3.6 71.3 1.0
CB D:THR54 3.6 62.2 1.0
PB D:GNP7200 3.7 74.0 1.0
O D:GLN52 3.8 64.2 1.0
ND2 C:ASN600 4.0 55.6 1.0
CG2 D:THR37 4.1 69.5 1.0
PA D:GNP7200 4.1 78.8 1.0
CA D:THR54 4.1 63.4 1.0
O1A D:GNP7200 4.1 75.9 1.0
N D:THR37 4.1 69.9 1.0
CA D:THR37 4.2 70.2 1.0
O3A D:GNP7200 4.3 76.4 1.0
OD1 C:ASN600 4.3 54.1 1.0
O1G D:GNP7200 4.4 71.1 1.0
OD2 D:ASP73 4.5 60.7 1.0
CG C:ASN600 4.5 56.7 1.0
C D:PRO53 4.5 62.8 1.0
CA D:PRO53 4.7 62.4 1.0
O3G D:GNP7200 4.8 71.7 1.0
C D:GLN52 4.8 64.7 1.0
NH1 C:ARG722 4.9 66.2 1.0
CG2 D:THR54 5.0 60.4 1.0
OD1 D:ASP73 5.0 57.0 1.0

Reference:

X.Bi, R.A.Corpina, J.Goldberg. Structure of the SEC23/24-SAR1 Pre-Budding Complex of the Copii Vesicle Coat Nature V. 419 271 2002.
ISSN: ISSN 0028-0836
PubMed: 12239560
DOI: 10.1038/NATURE01040
Page generated: Mon Dec 14 06:23:51 2020

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