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Magnesium in PDB 1gk8: Rubisco From Chlamydomonas Reinhardtii

Enzymatic activity of Rubisco From Chlamydomonas Reinhardtii

All present enzymatic activity of Rubisco From Chlamydomonas Reinhardtii:
4.1.1.39;

Protein crystallography data

The structure of Rubisco From Chlamydomonas Reinhardtii, PDB code: 1gk8 was solved by T.C.Taylor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.40
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 171.375, 142.638, 124.717, 90.00, 124.13, 90.00
R / Rfree (%) 14.9 / 16.2

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Rubisco From Chlamydomonas Reinhardtii (pdb code 1gk8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Rubisco From Chlamydomonas Reinhardtii, PDB code: 1gk8:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 1gk8

Go back to Magnesium Binding Sites List in 1gk8
Magnesium binding site 1 out of 4 in the Rubisco From Chlamydomonas Reinhardtii


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rubisco From Chlamydomonas Reinhardtii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1476

b:7.4
occ:1.00
OD1 A:ASP203 2.0 8.6 1.0
OE1 A:GLU204 2.0 7.6 1.0
OQ2 A:KCX201 2.0 7.3 1.0
O6 A:CAP1477 2.1 8.7 1.0
O3 A:CAP1477 2.2 8.0 1.0
O2 A:CAP1477 2.2 8.7 1.0
C A:CAP1477 2.8 8.1 1.0
C2 A:CAP1477 2.8 8.2 1.0
CX A:KCX201 3.0 6.8 1.0
C3 A:CAP1477 3.0 8.6 1.0
CD A:GLU204 3.1 7.4 1.0
CG A:ASP203 3.2 8.7 1.0
OQ1 A:KCX201 3.3 7.4 1.0
OE2 A:GLU204 3.5 8.3 1.0
NZ A:LYS177 3.7 8.4 1.0
N A:GLU204 3.8 6.3 1.0
OD2 A:ASP203 3.9 9.6 1.0
NZ A:LYS175 4.0 8.8 1.0
NE2 A:HIS294 4.0 6.8 1.0
O7 A:CAP1477 4.0 8.5 1.0
CG2 A:THR173 4.0 8.0 1.0
CA A:ASP203 4.1 7.0 1.0
C4 A:CAP1477 4.2 9.1 1.0
CB A:ASP203 4.2 7.0 1.0
NZ A:KCX201 4.2 7.1 1.0
OG1 A:THR173 4.3 7.9 1.0
C1 A:CAP1477 4.3 8.6 1.0
CG A:GLU204 4.3 7.8 1.0
C A:ASP203 4.5 7.3 1.0
CB A:GLU204 4.5 7.3 1.0
CD2 A:HIS294 4.6 6.4 1.0
CB A:THR173 4.6 8.2 1.0
C5 A:CAP1477 4.7 9.3 1.0
CA A:GLU204 4.8 6.8 1.0
O1 A:CAP1477 4.8 8.4 1.0
CE1 A:HIS294 4.9 6.9 1.0

Magnesium binding site 2 out of 4 in 1gk8

Go back to Magnesium Binding Sites List in 1gk8
Magnesium binding site 2 out of 4 in the Rubisco From Chlamydomonas Reinhardtii


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rubisco From Chlamydomonas Reinhardtii within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1476

b:6.0
occ:1.00
OD1 C:ASP203 1.9 7.7 1.0
OQ2 C:KCX201 2.0 6.7 1.0
OE1 C:GLU204 2.0 7.0 1.0
O6 C:CAP1477 2.1 6.8 1.0
O3 C:CAP1477 2.2 7.5 1.0
O2 C:CAP1477 2.3 7.8 1.0
C C:CAP1477 2.8 7.7 1.0
C2 C:CAP1477 2.9 7.8 1.0
CX C:KCX201 3.0 6.4 1.0
C3 C:CAP1477 3.1 7.6 1.0
CD C:GLU204 3.1 6.5 1.0
CG C:ASP203 3.1 7.9 1.0
OQ1 C:KCX201 3.3 6.7 1.0
OE2 C:GLU204 3.6 8.1 1.0
NZ C:LYS177 3.7 7.7 1.0
N C:GLU204 3.8 6.4 1.0
OD2 C:ASP203 3.9 8.7 1.0
NZ C:LYS175 4.0 8.0 1.0
NE2 C:HIS294 4.0 6.4 1.0
CG2 C:THR173 4.0 7.5 1.0
O7 C:CAP1477 4.0 7.6 1.0
CA C:ASP203 4.1 6.4 1.0
NZ C:KCX201 4.2 6.6 1.0
CB C:ASP203 4.2 7.2 1.0
C4 C:CAP1477 4.2 7.8 1.0
OG1 C:THR173 4.3 7.8 1.0
C1 C:CAP1477 4.3 8.1 1.0
CG C:GLU204 4.3 7.2 1.0
C C:ASP203 4.5 6.6 1.0
CB C:GLU204 4.5 6.8 1.0
CD2 C:HIS294 4.6 6.1 1.0
CB C:THR173 4.6 7.5 1.0
C5 C:CAP1477 4.7 7.9 1.0
CA C:GLU204 4.8 6.5 1.0
O1 C:CAP1477 4.9 8.4 1.0
CE1 C:HIS294 4.9 5.8 1.0

Magnesium binding site 3 out of 4 in 1gk8

Go back to Magnesium Binding Sites List in 1gk8
Magnesium binding site 3 out of 4 in the Rubisco From Chlamydomonas Reinhardtii


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Rubisco From Chlamydomonas Reinhardtii within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg1476

b:6.3
occ:1.00
OD1 E:ASP203 2.0 7.5 1.0
OQ2 E:KCX201 2.0 6.4 1.0
OE1 E:GLU204 2.0 7.0 1.0
O6 E:CAP1477 2.1 7.2 1.0
O3 E:CAP1477 2.2 7.1 1.0
O2 E:CAP1477 2.2 7.2 1.0
C E:CAP1477 2.8 6.9 1.0
C2 E:CAP1477 2.8 7.5 1.0
CX E:KCX201 3.0 5.5 1.0
C3 E:CAP1477 3.0 7.5 1.0
CD E:GLU204 3.1 6.6 1.0
CG E:ASP203 3.2 7.5 1.0
OQ1 E:KCX201 3.3 7.1 1.0
OE2 E:GLU204 3.6 7.9 1.0
NZ E:LYS177 3.7 7.8 1.0
N E:GLU204 3.8 6.3 1.0
OD2 E:ASP203 3.9 8.4 1.0
NZ E:LYS175 3.9 7.3 1.0
CG2 E:THR173 4.0 6.7 1.0
NE2 E:HIS294 4.0 5.8 1.0
O7 E:CAP1477 4.0 7.4 1.0
CA E:ASP203 4.1 6.5 1.0
NZ E:KCX201 4.2 6.5 1.0
CB E:ASP203 4.2 6.3 1.0
C4 E:CAP1477 4.2 8.3 1.0
OG1 E:THR173 4.3 7.6 1.0
C1 E:CAP1477 4.3 7.4 1.0
CG E:GLU204 4.3 7.1 1.0
CB E:GLU204 4.5 6.9 1.0
C E:ASP203 4.5 6.8 1.0
CD2 E:HIS294 4.6 6.3 1.0
CB E:THR173 4.6 7.0 1.0
C5 E:CAP1477 4.7 8.1 1.0
O1 E:CAP1477 4.8 7.2 1.0
CA E:GLU204 4.8 6.3 1.0
CE1 E:HIS294 4.9 6.3 1.0

Magnesium binding site 4 out of 4 in 1gk8

Go back to Magnesium Binding Sites List in 1gk8
Magnesium binding site 4 out of 4 in the Rubisco From Chlamydomonas Reinhardtii


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Rubisco From Chlamydomonas Reinhardtii within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg1476

b:6.8
occ:1.00
OD1 G:ASP203 1.9 8.4 1.0
OE1 G:GLU204 2.0 7.5 1.0
OQ2 G:KCX201 2.0 7.5 1.0
O6 G:CAP1477 2.1 7.4 1.0
O3 G:CAP1477 2.2 7.8 1.0
O2 G:CAP1477 2.2 8.2 1.0
C2 G:CAP1477 2.8 8.2 1.0
C G:CAP1477 2.8 7.9 1.0
C3 G:CAP1477 3.0 8.3 1.0
CX G:KCX201 3.0 6.6 1.0
CD G:GLU204 3.1 7.5 1.0
CG G:ASP203 3.1 8.6 1.0
OQ1 G:KCX201 3.3 8.2 1.0
OE2 G:GLU204 3.6 8.8 1.0
NZ G:LYS177 3.7 8.2 1.0
N G:GLU204 3.8 7.0 1.0
OD2 G:ASP203 3.9 9.7 1.0
NZ G:LYS175 3.9 8.4 1.0
NE2 G:HIS294 4.0 7.1 1.0
O7 G:CAP1477 4.0 9.0 1.0
CG2 G:THR173 4.0 8.3 1.0
CA G:ASP203 4.1 7.2 1.0
CB G:ASP203 4.2 8.1 1.0
C4 G:CAP1477 4.2 8.9 1.0
NZ G:KCX201 4.2 6.7 1.0
C1 G:CAP1477 4.3 8.6 1.0
OG1 G:THR173 4.3 8.6 1.0
CG G:GLU204 4.3 7.3 1.0
C G:ASP203 4.5 7.5 1.0
CB G:GLU204 4.5 7.4 1.0
CD2 G:HIS294 4.6 6.7 1.0
CB G:THR173 4.6 8.3 1.0
C5 G:CAP1477 4.7 8.9 1.0
CA G:GLU204 4.8 7.0 1.0
O1 G:CAP1477 4.8 7.8 1.0
CE1 G:HIS294 4.9 6.5 1.0

Reference:

T.C.Taylor, A.Backlund, K.Bjorhall, R.J.Spreitzer, I.Andersson. First Crystal Structure of Rubisco From A Green Alga, Chlamydomonas Reinhardtii. J.Biol.Chem. V. 276 48159 2001.
ISSN: ISSN 0021-9258
PubMed: 11641402
DOI: 10.1074/JBC.M107765200
Page generated: Mon Dec 14 05:57:55 2020

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