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Magnesium in PDB 3th4: MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+

Enzymatic activity of MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+

All present enzymatic activity of MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+:
3.4.21.21;

Protein crystallography data

The structure of MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+, PDB code: 3th4 was solved by K.Vadivel, S.Agah, D.Cascio, K.Padmanabhan, S.P.Bajaj, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 68.36 / 1.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 69.919, 81.230, 126.534, 90.00, 90.00, 90.00
R / Rfree (%) 20.4 / 23.5

Other elements in 3th4:

The structure of MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+ also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms
Calcium (Ca) 7 atoms
Sodium (Na) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+ (pdb code 3th4). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+, PDB code: 3th4:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3th4

Go back to Magnesium Binding Sites List in 3th4
Magnesium binding site 1 out of 2 in the MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg203

b:30.5
occ:1.00
O L:HOH357 1.9 26.1 1.0
OE12 L:CGU25 1.9 25.2 1.0
OE21 L:CGU25 2.1 31.5 1.0
OE21 L:CGU29 2.1 31.1 1.0
O L:HOH364 2.1 29.1 1.0
OE12 L:CGU29 2.1 35.0 1.0
CD1 L:CGU25 2.9 29.4 1.0
CD1 L:CGU29 2.9 34.1 1.0
CD2 L:CGU29 2.9 24.9 1.0
CD2 L:CGU25 3.0 26.8 1.0
CG L:CGU29 3.2 28.2 1.0
CG L:CGU25 3.2 26.6 1.0
O L:HOH365 3.5 28.6 1.0
OE11 L:CGU25 4.1 27.3 1.0
CA L:CA204 4.1 28.4 1.0
NH2 L:ARG28 4.1 35.4 1.0
OE22 L:CGU25 4.1 30.0 1.0
O L:HOH361 4.2 29.9 1.0
OE11 L:CGU29 4.2 35.2 1.0
OE22 L:CGU29 4.3 24.9 1.0
CB L:CGU29 4.7 27.9 1.0
O L:CGU25 4.7 25.1 1.0
CB L:CGU25 4.7 24.7 1.0

Magnesium binding site 2 out of 2 in 3th4

Go back to Magnesium Binding Sites List in 3th4
Magnesium binding site 2 out of 2 in the MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg209

b:42.4
occ:1.00
OE11 L:CGU14 1.8 37.5 1.0
O L:HOH370 2.0 39.6 1.0
OE21 L:CGU19 2.0 41.0 1.0
OE21 L:CGU14 2.0 32.5 1.0
OE11 L:CGU19 2.0 39.9 1.0
O L:HOH369 2.2 44.0 1.0
CD1 L:CGU14 2.8 36.5 1.0
CD2 L:CGU14 2.8 33.2 1.0
CD2 L:CGU19 2.9 37.1 1.0
CD1 L:CGU19 3.0 40.7 1.0
CG L:CGU14 3.2 31.9 1.0
CG L:CGU19 3.2 35.7 1.0
OE22 L:CGU14 3.9 32.6 1.0
OE12 L:CGU14 3.9 41.4 1.0
OE22 L:CGU19 4.0 36.0 1.0
OE12 L:CGU19 4.1 40.3 1.0
CB L:CGU14 4.7 24.7 1.0
CB L:CGU19 4.8 32.7 1.0

Reference:

K.Vadivel, S.Agah, A.Messer, D.Cascio, S.M.Bajaj, S.Krishnaswamy, C.T.Esmon, K.Padmanabhan, S.P.Bajaj. MG2+ Is Required For Optimal Folding of the Gamma-Carboxyglutamic Acid (Gla) Domains of Vitamin K-Dependent Clotting Factors at Physiological CA2+ To Be Published.
Page generated: Thu Aug 15 12:06:49 2024

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