Atomistry » Magnesium » PDB 3fps-3fzi » 3fxg
Atomistry »
  Magnesium »
    PDB 3fps-3fzi »
      3fxg »

Magnesium in PDB 3fxg: Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg

Protein crystallography data

The structure of Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg, PDB code: 3fxg was solved by A.A.Fedorov, E.V.Fedorov, J.M.Sauder, S.K.Burley, J.A.Gerlt, S.C.Almo, Newyork Sgx Research Center For Structural Genomics (Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.94 / 1.90
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 200.898, 201.085, 82.090, 90.00, 90.00, 90.00
R / Rfree (%) 16.3 / 19.6

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg (pdb code 3fxg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg, PDB code: 3fxg:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 3fxg

Go back to Magnesium Binding Sites List in 3fxg
Magnesium binding site 1 out of 8 in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg


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 Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:20.6
occ:1.00
OE2 A:GLU274 2.2 25.5 1.0
OD2 A:ASP221 2.2 21.5 1.0
OE2 A:GLU247 2.2 16.8 1.0
O A:HOH506 2.3 22.8 1.0
O A:HOH750 2.5 18.8 1.0
O A:HOH2059 2.8 35.5 1.0
CD A:GLU274 3.1 24.7 1.0
CG A:ASP221 3.3 19.2 1.0
CD A:GLU247 3.3 15.6 1.0
OE1 A:GLU274 3.4 24.3 1.0
OD1 A:ASP221 3.7 17.6 1.0
O A:HOH1019 3.8 18.0 1.0
NZ A:LYS184 3.8 15.6 1.0
CG A:GLU247 3.9 15.9 1.0
CD2 A:HIS324 4.1 26.5 1.0
O A:HOH487 4.2 14.4 1.0
OE1 A:GLU247 4.3 14.7 1.0
OE2 A:GLU248 4.4 21.4 1.0
CG A:GLU274 4.4 20.3 1.0
O A:HOH2780 4.5 49.2 1.0
CE A:LYS184 4.5 14.1 1.0
CB A:ASP221 4.6 17.2 1.0
NE2 A:HIS324 4.7 26.9 1.0
OE2 A:GLU344 4.9 14.3 1.0
CB A:GLU247 4.9 12.7 1.0

Magnesium binding site 2 out of 8 in 3fxg

Go back to Magnesium Binding Sites List in 3fxg
Magnesium binding site 2 out of 8 in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg


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 Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:18.7
occ:1.00
OE2 B:GLU274 2.0 23.2 1.0
OD2 B:ASP221 2.2 19.0 1.0
O B:HOH494 2.2 23.2 1.0
OE2 B:GLU247 2.3 15.2 1.0
O B:HOH542 2.5 19.5 1.0
O B:HOH1404 3.0 35.7 1.0
CD B:GLU274 3.0 24.0 1.0
CG B:ASP221 3.2 16.7 1.0
CD B:GLU247 3.3 13.9 1.0
OE1 B:GLU274 3.4 24.2 1.0
OD1 B:ASP221 3.6 18.0 1.0
NZ B:LYS184 3.8 15.1 1.0
CG B:GLU247 3.8 12.1 1.0
O B:HOH469 3.9 17.0 1.0
CD2 B:HIS324 4.1 22.4 1.0
O B:HOH459 4.2 13.7 1.0
OE1 B:GLU247 4.3 13.1 1.0
CG B:GLU274 4.4 20.9 1.0
OE2 B:GLU248 4.4 19.1 1.0
CB B:ASP221 4.5 12.2 1.0
CE B:LYS184 4.5 15.2 1.0
NE2 B:HIS324 4.8 23.5 1.0
CB B:GLU247 4.9 12.0 1.0

Magnesium binding site 3 out of 8 in 3fxg

Go back to Magnesium Binding Sites List in 3fxg
Magnesium binding site 3 out of 8 in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg


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 Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg501

b:19.6
occ:1.00
OD2 C:ASP221 2.1 20.9 1.0
OE2 C:GLU274 2.1 24.0 1.0
OE2 C:GLU247 2.3 16.6 1.0
O C:HOH504 2.3 21.6 1.0
O C:HOH519 2.4 18.4 1.0
O C:HOH1494 2.9 36.4 1.0
CD C:GLU274 3.1 22.0 1.0
CG C:ASP221 3.2 18.4 1.0
CD C:GLU247 3.3 14.3 1.0
OE1 C:GLU274 3.5 22.1 1.0
OD1 C:ASP221 3.7 19.2 1.0
NZ C:LYS184 3.8 14.7 1.0
CG C:GLU247 3.9 13.5 1.0
O C:HOH548 4.0 19.5 1.0
CD2 C:HIS324 4.1 22.9 1.0
O C:HOH514 4.3 13.9 1.0
OE1 C:GLU247 4.3 14.1 1.0
CE C:LYS184 4.4 13.4 1.0
CG C:GLU274 4.5 18.9 1.0
CB C:ASP221 4.5 15.1 1.0
OE2 C:GLU248 4.6 19.6 1.0
NE2 C:HIS324 4.9 23.5 1.0
CB C:GLU247 4.9 9.1 1.0
OE2 C:GLU344 5.0 16.2 1.0

Magnesium binding site 4 out of 8 in 3fxg

Go back to Magnesium Binding Sites List in 3fxg
Magnesium binding site 4 out of 8 in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg


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 Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg501

b:20.7
occ:1.00
OD2 D:ASP221 2.1 19.9 1.0
OE2 D:GLU247 2.2 16.8 1.0
OE1 D:GLU274 2.3 23.0 1.0
O D:HOH1156 2.3 23.9 1.0
O D:HOH1217 2.4 25.3 1.0
O D:HOH2001 3.1 31.3 1.0
CG D:ASP221 3.2 16.4 1.0
CD D:GLU247 3.2 15.8 1.0
CD D:GLU274 3.2 23.4 1.0
OE2 D:GLU274 3.5 24.9 1.0
NZ D:LYS184 3.5 18.5 1.0
OD1 D:ASP221 3.6 18.9 1.0
O D:HOH832 3.8 18.8 1.0
CG D:GLU247 3.8 15.6 1.0
OE1 D:GLU247 4.1 16.2 1.0
CD2 D:HIS324 4.2 27.6 1.0
O D:HOH3088 4.3 16.6 1.0
CE D:LYS184 4.3 14.2 1.0
CB D:ASP221 4.4 14.7 1.0
CG D:GLU274 4.5 20.6 1.0
OE2 D:GLU248 4.6 21.1 1.0
CB D:GLU247 4.8 12.9 1.0
OE2 D:GLU344 4.9 16.0 1.0
NE2 D:HIS324 4.9 27.1 1.0

Magnesium binding site 5 out of 8 in 3fxg

Go back to Magnesium Binding Sites List in 3fxg
Magnesium binding site 5 out of 8 in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg501

b:20.5
occ:1.00
OE2 E:GLU274 2.2 21.4 1.0
OD1 E:ASP221 2.2 22.4 1.0
OE2 E:GLU247 2.2 16.5 1.0
O E:HOH1533 2.3 20.1 1.0
O E:HOH509 2.4 25.1 1.0
O E:HOH1926 3.1 48.1 1.0
CD E:GLU274 3.1 22.8 1.0
CD E:GLU247 3.3 16.7 1.0
CG E:ASP221 3.3 19.0 1.0
OE1 E:GLU274 3.5 22.3 1.0
OD2 E:ASP221 3.8 19.7 1.0
O E:HOH978 3.8 22.1 1.0
NZ E:LYS184 3.8 15.2 1.0
CG E:GLU247 3.9 16.4 1.0
O E:HOH479 4.1 15.6 1.0
CD2 E:HIS324 4.1 25.8 1.0
OE1 E:GLU247 4.3 15.6 1.0
CG E:GLU274 4.4 19.9 1.0
OE2 E:GLU248 4.5 20.1 1.0
CE E:LYS184 4.5 13.3 1.0
CB E:ASP221 4.6 15.3 1.0
NE2 E:HIS324 4.8 24.9 1.0
CB E:GLU247 4.9 14.1 1.0
OE2 E:GLU344 5.0 18.4 1.0

Magnesium binding site 6 out of 8 in 3fxg

Go back to Magnesium Binding Sites List in 3fxg
Magnesium binding site 6 out of 8 in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg501

b:18.9
occ:1.00
OD2 F:ASP221 2.1 20.3 1.0
OE2 F:GLU274 2.1 24.1 1.0
OE2 F:GLU247 2.2 16.8 1.0
O F:HOH522 2.3 20.2 1.0
O F:HOH1331 2.4 20.3 1.0
O F:HOH1838 2.9 36.2 1.0
CD F:GLU274 3.1 23.8 1.0
CG F:ASP221 3.2 18.2 1.0
CD F:GLU247 3.3 14.1 1.0
OE1 F:GLU274 3.5 23.7 1.0
OD1 F:ASP221 3.6 17.7 1.0
NZ F:LYS184 3.7 14.6 1.0
CG F:GLU247 3.8 12.7 1.0
O F:HOH506 4.0 17.5 1.0
CD2 F:HIS324 4.2 25.1 1.0
O F:HOH514 4.2 15.7 1.0
OE1 F:GLU247 4.2 12.7 1.0
CE F:LYS184 4.4 12.2 1.0
CB F:ASP221 4.5 16.3 1.0
CG F:GLU274 4.5 18.6 1.0
OE2 F:GLU248 4.5 18.2 1.0
NE2 F:HIS324 4.8 25.6 1.0
CB F:GLU247 4.9 10.6 1.0
OE2 F:GLU344 5.0 16.7 1.0

Magnesium binding site 7 out of 8 in 3fxg

Go back to Magnesium Binding Sites List in 3fxg
Magnesium binding site 7 out of 8 in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg501

b:16.4
occ:1.00
OE2 G:GLU247 2.1 16.6 1.0
OD2 G:ASP221 2.1 18.1 1.0
OE2 G:GLU274 2.2 22.8 1.0
O G:HOH624 2.3 20.8 1.0
O G:HOH972 2.4 20.3 1.0
CD G:GLU274 3.2 23.5 1.0
CG G:ASP221 3.2 16.6 1.0
CD G:GLU247 3.2 14.5 1.0
O G:HOH2391 3.4 52.3 1.0
OE1 G:GLU274 3.6 23.1 1.0
OD1 G:ASP221 3.6 15.6 1.0
CG G:GLU247 3.8 13.9 1.0
NZ G:LYS184 3.8 17.9 1.0
O G:HOH1305 3.9 19.4 1.0
CD2 G:HIS324 4.1 29.1 1.0
OE1 G:GLU247 4.2 13.9 1.0
O G:HOH545 4.2 13.6 1.0
CG G:GLU274 4.5 18.5 1.0
CB G:ASP221 4.5 11.8 1.0
OE2 G:GLU248 4.5 19.6 1.0
CE G:LYS184 4.5 14.5 1.0
NE2 G:HIS324 4.8 29.5 1.0
CB G:GLU247 4.9 10.7 1.0
OE2 G:GLU344 4.9 15.7 1.0

Magnesium binding site 8 out of 8 in 3fxg

Go back to Magnesium Binding Sites List in 3fxg
Magnesium binding site 8 out of 8 in the Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg501

b:20.8
occ:1.00
OE2 H:GLU274 2.2 18.8 1.0
OE2 H:GLU247 2.2 16.2 1.0
OD1 H:ASP221 2.2 19.6 1.0
O H:HOH467 2.4 17.6 1.0
O H:HOH495 2.4 15.4 1.0
O H:HOH1994 2.8 32.5 1.0
CD H:GLU274 3.1 21.6 1.0
CD H:GLU247 3.3 15.3 1.0
CG H:ASP221 3.3 15.7 1.0
OE1 H:GLU274 3.4 21.9 1.0
OD2 H:ASP221 3.7 17.4 1.0
NZ H:LYS184 3.8 15.8 1.0
O H:HOH773 3.8 17.9 1.0
CG H:GLU247 3.9 12.7 1.0
CD2 H:HIS324 4.0 22.1 1.0
O H:HOH579 4.1 13.3 1.0
OE1 H:GLU247 4.2 16.7 1.0
CG H:GLU274 4.4 18.5 1.0
OE2 H:GLU248 4.6 22.1 1.0
CE H:LYS184 4.6 15.9 1.0
CB H:ASP221 4.6 13.9 1.0
NE2 H:HIS324 4.6 20.7 1.0
CB H:GLU247 5.0 12.1 1.0
OE2 H:GLU344 5.0 15.9 1.0

Reference:

A.A.Fedorov, E.V.Fedorov, J.M.Sauder, S.K.Burley, J.A.Gerlt, S.C.Almo. Crystal Structure of Rhamnonate Dehydratase From Gibberella Zeae Complexed with Mg To Be Published.
Page generated: Wed Aug 14 13:57:56 2024

Last articles

Mg in 4Y52
Mg in 4Y30
Mg in 4Y2V
Mg in 4Y2X
Mg in 4Y2Y
Mg in 4Y2U
Mg in 4Y2T
Mg in 4Y2Q
Mg in 4Y2R
Mg in 4Y2S
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy