Atomistry » Magnesium » PDB 6x43-6xez » 6xed
Atomistry »
  Magnesium »
    PDB 6x43-6xez »
      6xed »

Magnesium in PDB 6xed: Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate

Enzymatic activity of Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate

All present enzymatic activity of Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate:
3.1.3.48;

Protein crystallography data

The structure of Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate, PDB code: 6xed was solved by K.J.Olsen, R.Shen, S.J.Johnson, A.C.Hengge, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.44 / 1.80
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 88.871, 88.871, 104.351, 90, 90, 120
R / Rfree (%) 15.7 / 17.9

Other elements in 6xed:

The structure of Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate also contains other interesting chemical elements:

Tungsten (W) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate (pdb code 6xed). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate, PDB code: 6xed:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 6xed

Go back to Magnesium Binding Sites List in 6xed
Magnesium binding site 1 out of 4 in the Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg405

b:53.6
occ:1.00
OD2 A:ASP265 2.5 42.5 1.0
N A:ALA184 2.9 28.7 1.0
O A:HOH519 3.3 42.9 1.0
CG A:ASP265 3.5 42.5 1.0
CA A:THR183 3.5 26.4 1.0
O A:HOH533 3.7 46.0 1.0
C A:THR183 3.7 27.0 1.0
CB A:ALA184 3.8 28.9 1.0
CB A:ASP265 3.8 32.3 1.0
CB A:THR183 3.8 28.7 1.0
O A:HOH668 3.9 49.7 1.0
CA A:ALA184 3.9 25.9 1.0
O A:ALA184 4.5 32.5 1.0
OD1 A:ASP265 4.6 45.4 1.0
O A:GLN182 4.6 32.7 1.0
CG2 A:THR183 4.7 31.7 1.0
C A:ALA184 4.7 29.2 1.0
N A:THR183 4.8 28.2 1.0
O A:THR183 4.9 25.9 1.0
OG1 A:THR183 4.9 33.1 1.0

Magnesium binding site 2 out of 4 in 6xed

Go back to Magnesium Binding Sites List in 6xed
Magnesium binding site 2 out of 4 in the Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg406

b:46.0
occ:1.00
OD1 A:ASP181 2.5 41.9 1.0
O A:HOH774 2.7 34.7 1.0
N A:ASP181 2.9 27.5 1.0
OE2 A:GLU115 3.2 26.8 1.0
CG A:ASP181 3.4 38.3 1.0
CD A:GLU115 3.5 28.0 1.0
CA A:PRO180 3.6 27.3 1.0
CB A:ASP181 3.6 28.7 1.0
CB A:GLU115 3.6 25.0 1.0
C A:PRO180 3.7 27.0 1.0
CB A:PRO180 3.8 29.6 1.0
CA A:ASP181 3.8 29.3 1.0
CE A:LYS116 3.9 39.5 1.0
O A:HOH692 4.0 53.0 1.0
OE1 A:GLU115 4.1 25.5 1.0
CG A:GLU115 4.1 26.5 1.0
NH1 A:ARG221 4.2 22.3 1.0
CG A:LYS116 4.3 33.2 1.0
NZ A:LYS116 4.3 43.7 1.0
CD A:LYS116 4.4 36.8 1.0
O A:ASP181 4.5 27.6 1.0
OD2 A:ASP181 4.6 38.1 1.0
O A:HOH790 4.6 34.6 1.0
O A:HOH757 4.6 42.5 1.0
C A:ASP181 4.7 25.4 1.0
NH2 A:ARG221 4.7 22.9 1.0
CZ A:ARG221 4.7 21.5 1.0
CA A:GLU115 4.9 27.0 1.0
O A:PRO180 4.9 24.2 1.0
O A:HOH535 4.9 42.1 1.0
N A:PRO180 5.0 27.1 1.0
O A:HOH554 5.0 30.2 1.0

Magnesium binding site 3 out of 4 in 6xed

Go back to Magnesium Binding Sites List in 6xed
Magnesium binding site 3 out of 4 in the Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg407

b:63.0
occ:1.00
OE1 A:GLU6 2.4 48.5 1.0
O A:HOH632 2.6 37.9 1.0
OE2 A:GLU2 2.9 57.7 1.0
CD A:GLU6 3.5 48.8 1.0
CA A:MET3 3.8 38.1 1.0
CB A:GLU6 3.9 36.8 1.0
CD A:GLU2 4.0 59.0 1.0
N A:MET3 4.2 38.3 1.0
CG A:GLU6 4.2 42.4 1.0
O A:GLU2 4.2 44.3 1.0
OH A:TYR271 4.2 34.4 1.0
CB A:MET3 4.3 41.1 1.0
OE2 A:GLU6 4.3 53.4 1.0
OD1 A:ASP245 4.3 41.4 1.0
NZ A:LYS247 4.4 41.4 1.0
C A:GLU2 4.4 45.3 1.0
OE1 A:GLU2 4.4 62.0 1.0
CE2 A:TYR271 4.5 34.3 1.0
O A:VAL244 4.6 35.6 1.0
CA A:ASP245 4.6 28.3 1.0
N A:ILE246 4.7 28.0 1.0
CZ A:TYR271 4.9 33.9 1.0
CG A:ASP245 4.9 39.2 1.0
C A:MET3 5.0 38.9 1.0

Magnesium binding site 4 out of 4 in 6xed

Go back to Magnesium Binding Sites List in 6xed
Magnesium binding site 4 out of 4 in the Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of the PTP1B Yoph Wpd Loop Chimera 3 Bound to Tungstate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg408

b:55.2
occ:1.00
OE1 A:GLU167 2.2 55.1 1.0
OG1 A:THR165 2.7 43.9 1.0
O A:HOH635 2.9 47.4 1.0
CB A:GLU167 3.1 35.4 1.0
CD A:GLU167 3.3 51.2 1.0
CB A:THR165 3.5 46.0 1.0
CZ2 A:TRP100 3.6 30.5 1.0
CG A:GLU167 3.8 40.8 1.0
CG2 A:THR165 3.8 46.2 1.0
ND2 A:ASN162 4.2 40.8 1.0
OE2 A:GLU167 4.3 42.0 1.0
CA A:GLU167 4.4 33.6 1.0
CE2 A:TRP100 4.5 28.4 1.0
CH2 A:TRP100 4.5 27.2 1.0
N A:GLU167 4.6 35.3 1.0
NE1 A:TRP100 4.6 25.6 1.0
CB A:ASN162 4.7 36.5 1.0
CG A:ASN162 4.8 43.5 1.0
CA A:THR165 4.9 43.1 1.0

Reference:

R.Shen, K.J.Olsen, S.J.Johnson, A.C.Hengge. Insights From PTP1B Yoph Chimeras Into the Importance of Wpd-Loop Sequence For Activity and Structure in Protein Tyrosine Phosphatases To Be Published.
Page generated: Tue Oct 1 23:29:45 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