Atomistry » Magnesium » PDB 4lj9-4lse » 4lqh
Atomistry »
  Magnesium »
    PDB 4lj9-4lse »
      4lqh »

Magnesium in PDB 4lqh: High Resolution Structure of Native Frog M Ferritin

Enzymatic activity of High Resolution Structure of Native Frog M Ferritin

All present enzymatic activity of High Resolution Structure of Native Frog M Ferritin:
1.16.3.1;

Protein crystallography data

The structure of High Resolution Structure of Native Frog M Ferritin, PDB code: 4lqh was solved by S.Mangani, F.Di Pisa, C.Pozzi, P.Turano, D.Lalli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 21.73 / 1.16
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 184.410, 184.410, 184.410, 90.00, 90.00, 90.00
R / Rfree (%) 14.7 / 16

Other elements in 4lqh:

The structure of High Resolution Structure of Native Frog M Ferritin also contains other interesting chemical elements:

Chlorine (Cl) 16 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the High Resolution Structure of Native Frog M Ferritin (pdb code 4lqh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 9 binding sites of Magnesium where determined in the High Resolution Structure of Native Frog M Ferritin, PDB code: 4lqh:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Magnesium binding site 1 out of 9 in 4lqh

Go back to Magnesium Binding Sites List in 4lqh
Magnesium binding site 1 out of 9 in the High Resolution Structure of Native Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of High Resolution Structure of Native Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg201

b:13.7
occ:0.60
 O A:HOH593 2.0 15.1 0.6
O A:HOH485 2.1 14.6 0.6
O A:HOH618 2.1 16.9 0.6
O A:HOH423 2.1 11.9 0.6
O A:HOH508 2.1 17.7 0.6
O A:HOH479 2.1 18.0 0.6
O A:HOH321 4.0 10.2 1.0
O A:HOH337 4.6 15.2 1.0

Magnesium binding site 2 out of 9 in 4lqh

Go back to Magnesium Binding Sites List in 4lqh
Magnesium binding site 2 out of 9 in the High Resolution Structure of Native Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of High Resolution Structure of Native Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg202

b:10.2
occ:0.50
 O A:HOH628 1.9 12.4 0.5
OE2 A:GLU136 1.9 11.8 0.5
OE1 A:GLN137 2.0 13.4 0.5
OE1 A:GLN137 2.0 9.0 0.5
O A:HOH627 2.1 10.2 0.5
O A:HOH610 2.1 10.9 0.5
O A:HOH365 2.2 11.0 0.5
MG A:MG209 2.4 15.8 0.5
CD A:GLU136 2.9 11.9 0.5
CD A:GLN137 3.0 9.0 0.5
CD A:GLN137 3.2 13.1 0.5
OE1 A:GLU136 3.2 11.7 0.5
OD2 A:ASP140 3.5 13.9 0.5
NE2 A:GLN137 3.5 9.0 0.5
ND1 A:HIS61 3.9 17.9 0.7
NE2 A:GLN137 3.9 13.2 0.5
CE1 A:HIS61 3.9 17.7 0.7
OE1 A:GLU103 4.0 8.9 0.5
OE2 A:GLU58 4.1 17.8 1.0
OE1 A:GLU58 4.1 15.4 1.0
CB A:GLN137 4.2 12.7 0.5
CA A:GLN137 4.2 12.2 0.5
OE1 A:GLU103 4.2 11.7 0.5
CG A:GLU136 4.2 11.9 0.5
CG A:GLN137 4.2 13.0 0.5
CA A:GLN137 4.3 9.2 0.5
OD2 A:ASP140 4.3 9.0 0.5
CG A:GLN137 4.3 9.1 0.5
CB A:GLN137 4.4 9.2 0.5
OE2 A:GLU57 4.4 10.9 0.5
N A:GLN137 4.5 11.0 1.0
OE2 A:GLU23 4.5 9.3 0.5
CD A:GLU58 4.5 14.4 1.0
CG A:ASP140 4.6 13.5 0.5
MG A:MG203 4.8 11.1 0.5
O A:TYR133 4.9 12.1 1.0
C A:GLU136 4.9 11.6 1.0
O A:HOH433 4.9 21.3 1.0
CG1 A:VAL106 4.9 9.6 1.0

Magnesium binding site 3 out of 9 in 4lqh

Go back to Magnesium Binding Sites List in 4lqh
Magnesium binding site 3 out of 9 in the High Resolution Structure of Native Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of High Resolution Structure of Native Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg203

b:11.1
occ:0.50
 O A:HOH623 2.0 13.6 0.5
OE2 A:GLU57 2.0 10.9 0.5
OE1 A:GLU136 2.1 11.7 0.5
O A:HOH629 2.1 12.4 0.5
O A:HOH606 2.1 9.8 0.5
OD2 A:ASP140 2.1 9.0 0.5
OD1 A:ASP140 2.6 13.6 0.5
OD2 A:ASP140 3.0 13.9 0.5
CD A:GLU57 3.0 10.9 0.5
CG A:ASP140 3.1 9.1 0.5
CG A:ASP140 3.1 13.5 0.5
CD A:GLU136 3.3 11.9 0.5
OD1 A:ASP140 3.4 9.3 0.5
OE1 A:GLU57 3.4 11.1 0.5
O A:GLU136 3.8 11.9 1.0
CB A:GLU136 3.9 14.3 1.0
O A:HOH628 3.9 12.4 0.5
O A:HOH627 4.1 10.2 0.5
CG A:GLU136 4.1 11.9 0.5
OE2 A:GLU136 4.2 11.8 0.5
C A:GLU136 4.3 11.6 1.0
CG A:GLU57 4.3 10.8 0.5
CB A:ASP140 4.4 9.1 0.5
O A:HOH592 4.4 45.5 1.0
O A:HOH537 4.4 47.8 1.0
CA A:GLU136 4.5 12.7 1.0
CB A:ASP140 4.6 13.2 0.5
MG A:MG209 4.7 15.8 0.5
O A:HOH506 4.7 67.3 1.0
MG A:MG202 4.8 10.2 0.5
NH2 A:ARG143 4.8 17.3 0.5
CE1 A:HIS61 4.9 17.7 0.7
O A:HOH433 4.9 21.3 1.0

Magnesium binding site 4 out of 9 in 4lqh

Go back to Magnesium Binding Sites List in 4lqh
Magnesium binding site 4 out of 9 in the High Resolution Structure of Native Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of High Resolution Structure of Native Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg204

b:13.4
occ:0.70
 O A:HOH395 2.0 13.9 0.7
O A:HOH603 2.0 17.8 0.7
O A:HOH617 2.1 16.3 0.7
O A:HOH355 2.1 10.1 0.7
O A:HOH404 2.1 17.0 0.7
OG A:SER10 2.1 12.0 1.0
CB A:SER10 3.2 10.6 1.0
CA A:SER10 3.9 9.2 1.0
O A:HOH575 4.0 33.5 1.0
O A:SER10 4.1 8.9 1.0
OE1 A:GLU13 4.2 9.7 1.0
O A:HOH470 4.3 30.2 1.0
O A:HOH334 4.3 15.9 1.0
C A:SER10 4.4 8.8 1.0
O A:HOH391 4.4 14.2 1.0
O A:HOH605 4.4 38.7 1.0
O A:HOH607 4.5 34.0 1.0
CD A:GLU13 4.6 8.5 1.0
O A:HOH514 4.6 33.8 1.0

Magnesium binding site 5 out of 9 in 4lqh

Go back to Magnesium Binding Sites List in 4lqh
Magnesium binding site 5 out of 9 in the High Resolution Structure of Native Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of High Resolution Structure of Native Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg205

b:5.9
occ:0.40
 O A:HOH431 1.9 11.7 0.8
O A:HOH349 1.9 10.0 0.8
O A:HOH359 2.0 8.6 0.4
O A:HOH438 2.1 9.5 0.4
OD2 A:ASP80 4.0 8.2 1.0
O A:HOH420 4.2 14.0 1.0
OD1 A:ASP80 4.2 6.9 1.0
CG A:ASP80 4.5 7.0 1.0
CL A:CL224 4.5 14.5 0.8

Magnesium binding site 6 out of 9 in 4lqh

Go back to Magnesium Binding Sites List in 4lqh
Magnesium binding site 6 out of 9 in the High Resolution Structure of Native Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of High Resolution Structure of Native Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg206

b:13.0
occ:0.70
 O A:HOH476 2.0 16.9 0.7
O A:HOH614 2.1 16.3 0.7
O A:HOH399 2.1 13.9 0.7
O A:HOH406 2.1 17.0 0.7
O A:HOH616 2.1 14.7 0.7
O A:HOH394 2.1 14.5 0.7
OD2 A:ASP127 4.0 14.5 1.0
OD1 A:ASP127 4.4 14.9 1.0
O A:HOH540 4.6 43.8 1.0
O A:HOH498 4.6 30.1 1.0
CG A:ASP127 4.7 13.0 1.0
OG A:SER131 4.7 12.0 0.5
O A:HOH549 4.8 31.7 1.0
OG A:SER131 4.9 15.0 0.5

Magnesium binding site 7 out of 9 in 4lqh

Go back to Magnesium Binding Sites List in 4lqh
Magnesium binding site 7 out of 9 in the High Resolution Structure of Native Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of High Resolution Structure of Native Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg207

b:13.4
occ:0.20
 O A:HOH632 1.6 16.2 0.6
O A:HOH583 2.2 21.6 0.6
OD1 A:ASP127 3.7 14.9 1.0
OE1 A:GLU130 3.7 14.2 0.4
OG A:SER131 4.2 12.0 0.5
O A:HOH498 4.2 30.1 1.0
OE1 A:GLU130 4.3 9.7 0.6
CG A:ASP127 4.8 13.0 1.0
O A:HOH394 4.8 14.5 0.7
CB A:GLU130 4.9 13.3 0.4
CD A:GLU130 4.9 13.7 0.4
CB A:GLU130 5.0 9.9 0.6

Magnesium binding site 8 out of 9 in 4lqh

Go back to Magnesium Binding Sites List in 4lqh
Magnesium binding site 8 out of 9 in the High Resolution Structure of Native Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of High Resolution Structure of Native Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg208

b:9.1
occ:0.30
 O A:HOH384 2.1 11.4 0.9
O A:HOH345 2.1 10.2 0.9
OE2 A:GLU130 3.8 13.8 0.4
OE2 A:GLU130 3.9 9.7 0.6
O A:HOH499 4.1 16.3 0.5
OE1 A:GLU130 4.3 9.7 0.6
O A:HOH419 4.3 12.9 1.0
O A:HOH381 4.3 18.5 1.0
OE1 A:GLU130 4.4 14.2 0.4
CD A:GLU130 4.5 13.7 0.4
CD A:GLU130 4.5 9.8 0.6

Magnesium binding site 9 out of 9 in 4lqh

Go back to Magnesium Binding Sites List in 4lqh
Magnesium binding site 9 out of 9 in the High Resolution Structure of Native Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of High Resolution Structure of Native Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg209

b:15.8
occ:0.50
 O A:HOH627 1.4 10.2 0.5
OE1 A:GLU103 2.0 8.9 0.5
O A:HOH365 2.0 11.0 0.5
OE1 A:GLU103 2.0 11.7 0.5
OD2 A:ASP140 2.2 13.9 0.5
OE1 A:GLN137 2.4 13.4 0.5
MG A:MG202 2.4 10.2 0.5
O A:HOH628 2.6 12.4 0.5
CD A:GLU103 2.8 8.9 0.5
CD A:GLU103 3.0 11.5 0.5
OE2 A:GLU103 3.0 8.9 0.5
O A:HOH433 3.1 21.3 1.0
CD A:GLN137 3.2 13.1 0.5
OD2 A:ASP140 3.3 9.0 0.5
CG A:ASP140 3.3 13.5 0.5
OE2 A:GLU103 3.3 11.9 0.5
OE1 A:GLN137 3.4 9.0 0.5
NE2 A:GLN137 3.4 9.0 0.5
NE2 A:GLN137 3.4 13.2 0.5
OE2 A:GLU58 3.6 17.8 1.0
CD A:GLN137 3.6 9.0 0.5
CB A:ASP140 3.7 13.2 0.5
CB A:ASP140 3.8 9.1 0.5
OE2 A:GLU136 3.9 11.8 0.5
CG A:ASP140 3.9 9.1 0.5
OE1 A:GLU136 4.0 11.7 0.5
OE1 A:GLU58 4.1 15.4 1.0
CD A:GLU58 4.2 14.4 1.0
CG A:GLU103 4.2 8.8 0.5
O A:HOH610 4.2 10.9 0.5
CD A:GLU136 4.4 11.9 0.5
CG A:GLU103 4.4 11.2 0.5
OD1 A:ASP140 4.4 13.6 0.5
OE2 A:GLU57 4.4 10.9 0.5
CG A:GLN137 4.6 13.0 0.5
CA A:GLN137 4.6 12.2 0.5
MG A:MG203 4.7 11.1 0.5
CA A:GLN137 4.7 9.2 0.5
CB A:GLU103 4.7 8.8 0.5
CG A:GLN137 4.8 9.1 0.5
CB A:GLU103 5.0 11.0 0.5
CB A:GLN137 5.0 12.7 0.5

Reference:

S.Mangani, F.Di Pisa, C.Pozzi, P.Turano, D.Lalli. Crystallographic Snapshots of Iron in Frog M Ferritin To Be Published.
Page generated: Mon Aug 19 20:00:37 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy