Atomistry » Magnesium » PDB 3hx0-3i5x » 3hy3
Atomistry »
  Magnesium »
    PDB 3hx0-3i5x »
      3hy3 »

Magnesium in PDB 3hy3: Structure of Human Mthfs with 10-Formyltetrahydrofolate

Enzymatic activity of Structure of Human Mthfs with 10-Formyltetrahydrofolate

All present enzymatic activity of Structure of Human Mthfs with 10-Formyltetrahydrofolate:
6.3.3.2;

Protein crystallography data

The structure of Structure of Human Mthfs with 10-Formyltetrahydrofolate, PDB code: 3hy3 was solved by D.Wu, Y.Li, G.Song, C.Cheng, N.Shaw, Z.-J.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.30 / 1.80
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 48.861, 144.974, 59.408, 90.00, 90.00, 90.00
R / Rfree (%) 21.5 / 23.2

Other elements in 3hy3:

The structure of Structure of Human Mthfs with 10-Formyltetrahydrofolate also contains other interesting chemical elements:

Nickel (Ni) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Human Mthfs with 10-Formyltetrahydrofolate (pdb code 3hy3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 9 binding sites of Magnesium where determined in the Structure of Human Mthfs with 10-Formyltetrahydrofolate, PDB code: 3hy3:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Magnesium binding site 1 out of 9 in 3hy3

Go back to Magnesium Binding Sites List in 3hy3
Magnesium binding site 1 out of 9 in the Structure of Human Mthfs with 10-Formyltetrahydrofolate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Human Mthfs with 10-Formyltetrahydrofolate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg206

b:11.3
occ:1.00
 OH A:TYR156 3.0 15.6 1.0
N A:MET92 3.3 12.7 1.0
O A:HOH218 3.3 24.6 1.0
N A:LEU124 3.4 19.7 1.0
N A:ALA123 3.4 15.3 1.0
O A:MET92 3.6 14.2 1.0
CE1 A:TYR156 3.6 14.4 1.0
CZ A:TYR156 3.8 16.2 1.0
CB A:GLU122 3.8 16.7 1.0
CG A:LEU124 3.8 21.3 1.0
CB A:LEU124 4.0 21.3 1.0
CA A:ASP91 4.1 14.5 1.0
CA A:MET92 4.1 14.6 1.0
CB A:ASP91 4.1 13.8 1.0
CB A:MET92 4.1 15.1 1.0
CA A:ALA123 4.1 16.5 1.0
CB A:ALA123 4.1 15.2 1.0
C A:GLU122 4.1 18.0 1.0
C A:ASP91 4.2 14.3 1.0
OD1 A:ASP91 4.2 18.8 1.0
C A:ALA123 4.2 17.6 1.0
C A:MET92 4.3 13.2 1.0
CD1 A:LEU124 4.3 18.7 1.0
CA A:LEU124 4.3 22.1 1.0
CA A:GLU122 4.3 17.2 1.0
NH2 A:ARG159 4.5 30.3 1.0
NH1 A:ARG159 4.6 27.1 1.0
CG A:GLU122 4.7 21.7 1.0
CG A:ASP91 4.7 16.4 1.0
CG A:MET92 4.8 14.1 1.0
OE1 A:GLU122 4.9 28.1 1.0
CZ A:ARG159 4.9 32.0 1.0
CD1 A:TYR156 4.9 16.8 1.0

Magnesium binding site 2 out of 9 in 3hy3

Go back to Magnesium Binding Sites List in 3hy3
Magnesium binding site 2 out of 9 in the Structure of Human Mthfs with 10-Formyltetrahydrofolate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Human Mthfs with 10-Formyltetrahydrofolate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg207

b:38.4
occ:1.00
 N A:SER108 3.0 20.7 1.0
O A:HOH327 3.1 53.9 1.0
OG A:SER108 3.6 25.6 1.0
CA A:THR107 3.6 17.7 1.0
CB A:SER108 3.7 23.8 1.0
CB A:THR107 3.7 17.0 1.0
CE2 A:PHE85 3.7 31.5 1.0
C A:THR107 3.8 17.6 1.0
CZ A:PHE85 3.9 32.0 1.0
CA A:SER108 4.0 21.7 1.0
CD2 A:PHE85 4.1 34.4 1.0
CE1 A:PHE85 4.4 33.8 1.0
O A:HOH254 4.4 44.0 1.0
CG2 A:THR107 4.6 18.8 1.0
CG A:PHE85 4.6 31.1 1.0
CD1 A:PHE85 4.7 36.1 1.0
OG1 A:THR107 4.8 16.6 1.0
O A:THR107 4.9 17.9 1.0
N A:THR107 5.0 18.2 1.0

Magnesium binding site 3 out of 9 in 3hy3

Go back to Magnesium Binding Sites List in 3hy3
Magnesium binding site 3 out of 9 in the Structure of Human Mthfs with 10-Formyltetrahydrofolate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Human Mthfs with 10-Formyltetrahydrofolate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg208

b:98.1
occ:1.00
 OE1 A:GLU16 3.4 54.0 1.0
CD A:GLU16 4.1 47.8 1.0
CG A:GLU16 4.6 38.6 1.0
OE2 A:GLU16 4.8 53.0 1.0

Magnesium binding site 4 out of 9 in 3hy3

Go back to Magnesium Binding Sites List in 3hy3
Magnesium binding site 4 out of 9 in the Structure of Human Mthfs with 10-Formyltetrahydrofolate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Human Mthfs with 10-Formyltetrahydrofolate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg209

b:52.2
occ:1.00
 OE1 A:GLN86 2.9 39.5 1.0
N A:PHE85 3.2 24.1 1.0
CD2 A:PHE85 3.5 34.4 1.0
CA A:ARG84 3.6 23.3 1.0
C A:ARG84 3.8 23.0 1.0
O A:TYR83 3.8 18.7 1.0
CD A:GLN86 3.8 44.8 1.0
CB A:PHE85 4.2 28.8 1.0
CG A:ARG84 4.2 26.4 1.0
CA A:PHE85 4.2 26.5 1.0
NE2 A:GLN86 4.2 45.9 1.0
CG A:PHE85 4.3 31.1 1.0
O A:HOH337 4.3 42.7 1.0
CB A:ARG84 4.4 24.8 1.0
CE2 A:PHE85 4.4 31.5 1.0
N A:GLN86 4.5 28.4 1.0
N A:ARG84 4.6 21.0 1.0
C A:TYR83 4.6 19.0 1.0
C A:PHE85 4.9 27.3 1.0

Magnesium binding site 5 out of 9 in 3hy3

Go back to Magnesium Binding Sites List in 3hy3
Magnesium binding site 5 out of 9 in the Structure of Human Mthfs with 10-Formyltetrahydrofolate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of Human Mthfs with 10-Formyltetrahydrofolate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg210

b:44.5
occ:1.00
 O A:HOH348 4.4 72.7 1.0
CG A:ARG31 4.9 32.2 1.0
CD A:ARG31 5.0 31.5 1.0

Magnesium binding site 6 out of 9 in 3hy3

Go back to Magnesium Binding Sites List in 3hy3
Magnesium binding site 6 out of 9 in the Structure of Human Mthfs with 10-Formyltetrahydrofolate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of Human Mthfs with 10-Formyltetrahydrofolate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg211

b:50.8
occ:1.00
 O A:GLY15 3.3 26.0 1.0
CA A:GLY15 4.0 22.2 1.0
C A:GLY15 4.0 23.7 1.0
N A:GLN19 4.0 26.0 1.0
CB A:LYS18 4.1 25.2 1.0
CB A:GLN19 4.3 28.6 1.0
CA A:GLN19 4.4 28.0 1.0
C A:LYS18 4.6 25.1 1.0
CA A:LYS18 4.9 24.1 1.0

Magnesium binding site 7 out of 9 in 3hy3

Go back to Magnesium Binding Sites List in 3hy3
Magnesium binding site 7 out of 9 in the Structure of Human Mthfs with 10-Formyltetrahydrofolate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of Human Mthfs with 10-Formyltetrahydrofolate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg212

b:66.6
occ:1.00
 O A:HOH311 2.4 50.6 1.0
OD2 A:ASP60 3.5 34.7 1.0
CG A:ASP60 3.7 32.5 1.0
OD1 A:ASP60 4.0 29.5 1.0
O A:HOH262 4.3 38.1 1.0
NZ A:LYS18 4.3 35.1 1.0
CB A:ASP60 4.3 29.3 1.0
NH1 A:ARG148 4.4 27.0 1.0
O A:HOH229 4.5 38.8 1.0
O A:HOH235 4.7 43.5 1.0
CZ3 A:TRP109 4.9 31.8 1.0

Magnesium binding site 8 out of 9 in 3hy3

Go back to Magnesium Binding Sites List in 3hy3
Magnesium binding site 8 out of 9 in the Structure of Human Mthfs with 10-Formyltetrahydrofolate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of Human Mthfs with 10-Formyltetrahydrofolate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg213

b:42.1
occ:1.00
 CD A:ARG159 2.7 29.6 1.0
O A:HOH289 3.0 18.9 1.0
NH1 A:ARG159 3.1 27.1 1.0
O A:MET90 3.2 17.7 1.0
O A:HOH293 3.3 50.0 1.0
ND1 A:HIS89 3.4 20.1 1.0
NE A:ARG159 3.6 29.8 1.0
CE1 A:HIS89 3.6 20.1 1.0
CZ A:ARG159 3.8 32.0 1.0
CG A:ARG159 3.9 32.0 1.0
CA A:TYR156 4.0 20.6 1.0
CD1 A:TYR156 4.1 16.8 1.0
N A:MET90 4.1 17.4 1.0
N A:TYR156 4.3 20.8 1.0
C A:MET90 4.3 16.0 1.0
O A:ALA155 4.3 21.8 1.0
C A:ALA155 4.5 24.0 1.0
CB A:TYR156 4.5 17.9 1.0
CG A:HIS89 4.6 21.3 1.0
CB A:ARG159 4.6 27.8 1.0
O A:HOH239 4.7 33.0 1.0
CB A:ALA155 4.7 23.2 1.0
CG A:TYR156 4.7 16.2 1.0
NE2 A:HIS89 4.8 24.5 1.0
CA A:MET90 4.8 16.0 1.0
CE1 A:TYR156 5.0 14.4 1.0
CA A:HIS89 5.0 22.4 1.0

Magnesium binding site 9 out of 9 in 3hy3

Go back to Magnesium Binding Sites List in 3hy3
Magnesium binding site 9 out of 9 in the Structure of Human Mthfs with 10-Formyltetrahydrofolate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of Human Mthfs with 10-Formyltetrahydrofolate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg214

b:52.2
occ:1.00
 O A:HOH227 3.7 26.2 1.0
O A:ARG74 4.3 23.7 1.0
O A:GLN47 4.6 19.9 1.0

Reference:

D.Wu, Y.Li, G.Song, C.Cheng, R.Zhang, A.Joachimiak, N.Shaw, Z.-J.Liu. Structural Basis For the Inhibition of Human 5,10-Methenyltetrahydrofolate Synthetase By N10-Substituted Folate Analogues Cancer Res. V. 69 7294 2009.
ISSN: ISSN 0008-5472
PubMed: 19738041
DOI: 10.1158/0008-5472.CAN-09-1927
Page generated: Wed Aug 14 15:28:42 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy