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Magnesium in PDB 3pmg: Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity

Enzymatic activity of Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity

All present enzymatic activity of Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity:
5.4.2.2;

Protein crystallography data

The structure of Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity, PDB code: 3pmg was solved by W.J.Ray Junior, Y.Liu, S.Baranidharan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 2.40
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 174.420, 174.420, 101.120, 90.00, 90.00, 90.00
R / Rfree (%) 16.3 / 19.1

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity (pdb code 3pmg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity, PDB code: 3pmg:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3pmg

Go back to Magnesium Binding Sites List in 3pmg
Magnesium binding site 1 out of 2 in the Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg562

b:51.6
occ:1.00
 OD1 A:ASP291 1.7 38.9 1.0
OD1 A:ASP289 1.8 35.0 1.0
OD2 A:ASP287 1.9 35.9 1.0
O A:HOH733 1.9 46.4 1.0
O2P A:SEP116 2.1 55.6 1.0
OG A:SEP116 2.6 59.6 1.0
H1 A:HOH733 2.7 0.0 1.0
H2 A:HOH733 2.7 0.0 1.0
CG A:ASP291 2.8 35.6 1.0
CG A:ASP289 2.8 32.8 1.0
P A:SEP116 2.9 60.9 1.0
CG A:ASP287 2.9 33.3 1.0
OD2 A:ASP289 3.1 32.4 1.0
OD1 A:ASP287 3.3 33.0 1.0
OD2 A:ASP291 3.3 36.8 1.0
H A:ASP291 3.5 0.0 1.0
HE A:ARG292 3.6 0.0 1.0
O1P A:SEP116 3.8 61.3 1.0
CB A:SEP116 3.8 52.1 1.0
H A:ASP289 3.8 0.0 1.0
O3P A:SEP116 4.0 60.6 1.0
CB A:ASP291 4.0 33.9 1.0
H2 A:HOH584 4.0 0.0 1.0
N A:ASP291 4.0 31.7 1.0
O A:HOH584 4.0 37.1 1.0
CB A:ASP289 4.2 31.2 1.0
CB A:ASP287 4.2 33.6 1.0
CG A:ARG292 4.3 36.6 1.0
NE A:ARG292 4.4 42.1 1.0
HH21 A:ARG292 4.4 0.0 1.0
CA A:ASP291 4.4 35.1 1.0
CA A:SEP116 4.4 45.4 1.0
N A:ASP289 4.5 33.0 1.0
C A:ASP291 4.6 36.1 1.0
N A:ARG292 4.6 33.8 1.0
H A:ARG292 4.6 0.0 1.0
CA A:ASP289 4.7 30.3 1.0
C A:ASP289 4.7 26.0 1.0
H A:HIS117 4.8 0.0 1.0
N A:GLY290 4.8 25.1 1.0
CB A:ARG292 4.9 33.9 1.0
CD A:ARG292 4.9 38.6 1.0
H A:GLY290 5.0 0.0 1.0
HZ2 A:LYS388 5.0 0.0 1.0
O A:ASP289 5.0 27.3 1.0

Magnesium binding site 2 out of 2 in 3pmg

Go back to Magnesium Binding Sites List in 3pmg
Magnesium binding site 2 out of 2 in the Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Rabbit Muscle Phosphoglucomutase at 2.4 Angstroms Resolution. Use of Freezing Point Depressant and Reduced Temperature to Enhance Diffractivity within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg562

b:28.6
occ:1.00
 O2P B:SEP116 2.0 51.9 1.0
O B:HOH758 2.0 17.3 1.0
OD2 B:ASP291 2.1 19.3 1.0
OD2 B:ASP287 2.1 24.1 1.0
OG B:SEP116 2.1 48.7 1.0
OD2 B:ASP289 2.1 18.1 1.0
P B:SEP116 2.6 54.5 1.0
H2 B:HOH758 2.6 0.0 1.0
H1 B:HOH758 2.6 0.0 1.0
CG B:ASP289 3.1 18.3 1.0
CG B:ASP291 3.1 22.3 1.0
CB B:SEP116 3.2 41.8 1.0
CG B:ASP287 3.3 21.9 1.0
OD1 B:ASP289 3.4 16.1 1.0
OD1 B:ASP291 3.5 26.0 1.0
HE B:ARG292 3.5 0.0 1.0
O1P B:SEP116 3.6 53.0 1.0
H2 B:HOH609 3.6 0.0 1.0
O3P B:SEP116 3.7 52.8 1.0
CA B:SEP116 3.9 40.0 1.0
OD1 B:ASP287 3.9 22.8 1.0
H B:ASP289 3.9 0.0 1.0
H B:ASP291 3.9 0.0 1.0
H B:HIS117 3.9 0.0 1.0
HH21 B:ARG292 4.3 0.0 1.0
O B:HOH609 4.4 33.8 1.0
NE B:ARG292 4.4 21.3 1.0
C B:SEP116 4.4 39.6 1.0
CB B:ASP291 4.5 19.1 1.0
N B:HIS117 4.5 43.8 1.0
CB B:ASP287 4.5 17.0 1.0
CB B:ASP289 4.5 16.5 1.0
H B:ARG292 4.7 0.0 1.0
N B:ASP291 4.8 17.7 1.0
N B:ASP289 4.8 18.9 1.0
HH22 B:ARG22 4.8 0.0 1.0
CG B:ARG292 4.8 19.8 1.0
H1 B:HOH609 4.9 0.0 1.0

Reference:

Y.Liu, W.J.Ray, S.Baranidharan. Structure of Rabbit Muscle Phosphoglucomutase Refined at 2.4 A Resolution. Acta Crystallogr.,Sect.D V. 53 392 1997.
ISSN: ISSN 0907-4449
PubMed: 15299905
DOI: 10.1107/S0907444997000875
Page generated: Thu Aug 15 09:36:20 2024

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