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Magnesium in PDB 2i55: Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana

Enzymatic activity of Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana

All present enzymatic activity of Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana:
5.4.2.8;

Protein crystallography data

The structure of Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana, PDB code: 2i55 was solved by B.J.Smith, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.70 / 2.90
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 92.224, 92.224, 172.824, 90.00, 90.00, 120.00
R / Rfree (%) 19.2 / 26.8

Other elements in 2i55:

The structure of Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana (pdb code 2i55). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana, PDB code: 2i55:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 2i55

Go back to Magnesium Binding Sites List in 2i55
Magnesium binding site 1 out of 5 in the Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg2002

b:0.8
occ:1.00
 OD2 A:ASP207 2.1 61.9 1.0
OD2 A:ASP10 2.1 70.4 1.0
CG A:ASP207 2.8 62.9 1.0
CG A:ASP10 3.0 68.6 1.0
OD1 A:ASP207 3.0 62.8 1.0
OD2 A:ASP215 3.3 67.0 1.0
O A:ASP12 3.3 68.6 1.0
OG1 A:THR14 3.4 67.8 1.0
CB A:ASP10 3.5 68.4 1.0
N A:ASP207 3.8 63.4 1.0
OD1 A:ASP10 3.8 69.9 1.0
OD1 A:ASP215 4.1 65.2 1.0
CG A:ASP215 4.1 65.5 1.0
CB A:ASP207 4.1 63.5 1.0
N A:LYS208 4.2 64.0 1.0
CA A:ASP207 4.4 63.6 1.0
C A:ASP12 4.4 68.7 1.0
CB A:THR14 4.6 68.2 1.0
CA A:GLY206 4.7 63.5 1.0
C A:GLY206 4.8 63.5 1.0
N A:THR14 4.8 68.5 1.0
C A:ASP207 4.8 63.8 1.0
ND2 A:ASN214 4.8 66.2 1.0
CB A:LYS208 4.9 64.2 1.0
CA A:ASP10 4.9 68.2 1.0

Magnesium binding site 2 out of 5 in 2i55

Go back to Magnesium Binding Sites List in 2i55
Magnesium binding site 2 out of 5 in the Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg2001

b:67.1
occ:1.00
 OD2 B:ASP10 2.6 70.3 1.0
OD2 B:ASP207 2.9 67.4 1.0
CG B:LYS208 3.1 66.0 1.0
OD2 B:ASP215 3.2 66.9 1.0
CB B:LYS208 3.3 64.5 1.0
OD1 B:ASN214 3.5 66.3 1.0
CG B:ASP207 3.6 65.0 1.0
CG B:ASP10 3.7 67.5 1.0
OD1 B:ASP207 3.9 66.0 1.0
CG B:ASP215 4.0 62.6 1.0
OD1 B:ASP215 4.2 59.1 1.0
N B:LYS208 4.2 63.7 1.0
O B:ASP12 4.2 67.3 1.0
OD1 B:ASP10 4.2 70.8 1.0
O3P B:B16249 4.3 61.7 1.0
CG B:ASN214 4.4 63.1 1.0
CA B:LYS208 4.4 64.2 1.0
ND2 B:ASN214 4.6 63.8 1.0
O1P B:B16249 4.6 59.9 1.0
CD B:LYS208 4.6 68.4 1.0
C B:ASP207 4.6 63.2 1.0
N B:ASP207 4.6 62.2 1.0
CB B:ASP207 4.9 63.2 1.0
CB B:ASP10 4.9 66.7 1.0
P B:B16249 4.9 64.0 1.0
CA B:ASP207 4.9 62.9 1.0

Magnesium binding site 3 out of 5 in 2i55

Go back to Magnesium Binding Sites List in 2i55
Magnesium binding site 3 out of 5 in the Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg2004

b:55.4
occ:1.00
 O B:ASP221 2.2 60.6 1.0
O B:PHE219 2.4 60.8 1.0
CG2 B:THR224 2.6 60.3 1.0
O B:THR224 2.7 58.9 1.0
C B:ASP221 3.2 60.9 1.0
C B:PHE219 3.2 60.3 1.0
N B:ASP221 3.4 61.1 1.0
C B:THR220 3.4 60.8 1.0
CA B:THR220 3.7 60.6 1.0
C B:THR224 3.7 59.1 1.0
N B:THR220 3.7 60.4 1.0
CA B:ASP221 3.9 60.9 1.0
CB B:THR224 3.9 60.0 1.0
O B:THR220 4.0 61.9 1.0
O B:ILE218 4.0 61.0 1.0
CA B:THR224 4.2 59.6 1.0
N B:SER222 4.2 60.5 1.0
N B:THR224 4.3 59.7 1.0
CA B:PHE219 4.3 60.5 1.0
N B:GLY226 4.5 58.0 1.0
CA B:SER222 4.6 59.9 1.0
CB B:ASP221 4.7 61.4 1.0
OG1 B:THR224 4.8 60.2 1.0
N B:ILE225 4.8 58.6 1.0
C B:SER222 4.8 59.8 1.0
CA B:GLY226 4.8 58.2 1.0
C B:ILE218 4.9 60.8 1.0

Magnesium binding site 4 out of 5 in 2i55

Go back to Magnesium Binding Sites List in 2i55
Magnesium binding site 4 out of 5 in the Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg2003

b:0.6
occ:1.00
 OD2 C:ASP10 2.1 69.3 1.0
OD2 C:ASP207 2.5 63.7 1.0
OD2 C:ASP215 3.2 68.8 1.0
CG C:ASP10 3.2 68.1 1.0
CG C:ASP207 3.4 63.2 1.0
O1P C:B161249 3.5 69.1 1.0
OD1 C:ASP207 3.6 62.6 1.0
O C:ASP12 3.7 67.5 1.0
CG C:LYS208 3.7 65.4 1.0
OD1 C:ASP10 3.8 71.7 1.0
CG C:ASP215 4.2 66.5 1.0
CB C:LYS208 4.3 64.9 1.0
CB C:ASP10 4.4 65.8 1.0
OD1 C:ASP215 4.4 65.8 1.0
OD1 C:ASN214 4.4 66.1 1.0
N C:LYS208 4.5 63.9 1.0
N C:ASP207 4.7 62.1 1.0
P C:B161249 4.7 68.3 1.0
NZ C:LYS208 4.8 66.1 1.0
OG1 C:THR14 4.8 66.3 1.0
CB C:ASP207 4.8 62.8 1.0
C C:ASP12 4.8 67.4 1.0
C6 C:B161249 5.0 61.8 1.0

Magnesium binding site 5 out of 5 in 2i55

Go back to Magnesium Binding Sites List in 2i55
Magnesium binding site 5 out of 5 in the Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Complex of Glucose-1,6-Bisphosphate with Phosphomannomutase From Leishmania Mexicana within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg2005

b:80.9
occ:1.00
 O C:PHE219 2.2 63.6 1.0
O C:ASP221 2.4 61.9 1.0
OG1 C:THR224 2.6 60.2 1.0
O C:THR224 3.1 59.7 1.0
C C:PHE219 3.3 63.5 1.0
C C:THR220 3.4 62.8 1.0
C C:ASP221 3.4 62.0 1.0
N C:ASP221 3.5 62.4 1.0
CA C:THR220 3.6 63.0 1.0
O C:THR220 3.8 62.7 1.0
C C:THR224 3.9 59.4 1.0
CB C:THR224 3.9 59.8 1.0
N C:THR220 3.9 63.1 1.0
CA C:ASP221 4.1 62.2 1.0
CA C:THR224 4.3 59.8 1.0
N C:THR224 4.3 60.1 1.0
N C:SER222 4.4 61.7 1.0
N C:GLY226 4.5 57.4 1.0
CA C:PHE219 4.5 63.6 1.0
CA C:SER222 4.6 61.5 1.0
O C:ILE218 4.7 63.6 1.0
N C:ILE225 4.9 58.5 1.0
CB C:ASP221 4.9 62.2 1.0
CA C:GLY226 5.0 57.5 1.0

Reference:

L.Kedzierski, R.L.Malby, B.J.Smith, M.A.Perugini, A.N.Hodder, T.Ilg, P.M.Colman, E.Handman. Structure of Leishmania Mexicana Phosphomannomutase Highlights Similarities with Human Isoforms J.Mol.Biol. V. 363 215 2006.
ISSN: ISSN 0022-2836
PubMed: 16963079
DOI: 10.1016/J.JMB.2006.08.023
Page generated: Wed Aug 14 00:03:49 2024

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