Magnesium in PDB 6yxh: Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect

Enzymatic activity of Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect

All present enzymatic activity of Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect:
3.5.1.23;

Protein crystallography data

The structure of Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect, PDB code: 6yxh was solved by R.D.Healey, S.Basu, A.S.Humm, C.Leyrat, F.Dupeux, A.Pica, S.Granier, J.A.Marquez, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.18 / 2.60
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 61.47, 69.97, 259.49, 90, 90, 90
R / Rfree (%) 23.2 / 28

Other elements in 6yxh:

The structure of Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect also contains other interesting chemical elements:

Sodium (Na) 2 atoms
Calcium (Ca) 1 atom
Zinc (Zn) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect (pdb code 6yxh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect, PDB code: 6yxh:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6yxh

Go back to Magnesium Binding Sites List in 6yxh
Magnesium binding site 1 out of 2 in the Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg411

b:73.4
occ:0.50
O3 A:SO4406 3.5 139.1 1.0
S A:SO4406 4.8 139.1 1.0

Magnesium binding site 2 out of 2 in 6yxh

Go back to Magnesium Binding Sites List in 6yxh
Magnesium binding site 2 out of 2 in the Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryogenic Human Alkaline Ceramidase 3 (ACER3) at 2.6 A Resolution Determined By Serial Crystallography (Ssx) Using Crystaldirect within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg412

b:70.1
occ:1.00
O1 A:SO4402 2.6 97.6 1.0
N A:ASN115 2.8 59.9 1.0
OE1 A:GLU60 2.8 62.3 1.0
CA A:ASN115 3.6 61.1 1.0
CG A:GLU60 3.6 61.6 1.0
CD A:GLU60 3.6 62.9 1.0
CA A:LYS114 3.7 60.5 1.0
C A:LYS114 3.7 60.3 1.0
S A:SO4402 4.0 97.3 1.0
CB A:LYS114 4.1 61.4 1.0
CG A:ASN115 4.2 62.4 1.0
OD1 A:ASN115 4.2 62.8 1.0
O A:HOH516 4.3 67.8 1.0
O2 A:SO4402 4.3 97.2 1.0
NH2 A:ARG239 4.3 55.3 1.0
NH1 A:ARG62 4.4 74.1 1.0
ND2 A:ASN115 4.5 62.7 1.0
CG A:LYS114 4.5 63.8 1.0
CB A:ASN115 4.5 61.3 1.0
N A:SER116 4.6 64.4 1.0
C A:ASN115 4.6 63.0 1.0
O3 A:SO4402 4.7 97.4 1.0
CB A:GLU60 4.7 62.0 1.0
O A:ILE113 4.8 62.7 1.0
OE2 A:GLU60 4.8 66.5 1.0
CE A:LYS114 4.9 76.8 1.0
O A:LYS114 4.9 60.9 1.0
O4 A:SO4402 4.9 97.0 1.0
N A:LYS114 5.0 60.7 1.0

Reference:

R.D.Healey, S.Basu, A.S.Humm, C.Leyrat, F.Dupeux, A.Pica, S.Granier, J.A.Marquez. Rapid, Automated Serial Crystallography Analysis of Membrane Proteins Through Crystaldirect To Be Published.
Page generated: Sun Jul 11 15:04:10 2021

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