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Magnesium in PDB 1uw9: L290F-A222T Chlamydomonas Rubisco Mutant

Enzymatic activity of L290F-A222T Chlamydomonas Rubisco Mutant

All present enzymatic activity of L290F-A222T Chlamydomonas Rubisco Mutant:
4.1.1.39;

Protein crystallography data

The structure of L290F-A222T Chlamydomonas Rubisco Mutant, PDB code: 1uw9 was solved by S.Karkehabadi, T.C.Taylor, R.J.Spreitzer, I.Andersson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.05
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 126.073, 178.196, 120.463, 90.00, 120.35, 90.00
R / Rfree (%) 15.7 / 19.4

Magnesium Binding Sites:

The binding sites of Magnesium atom in the L290F-A222T Chlamydomonas Rubisco Mutant (pdb code 1uw9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the L290F-A222T Chlamydomonas Rubisco Mutant, PDB code: 1uw9:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 1uw9

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Magnesium binding site 1 out of 8 in the L290F-A222T Chlamydomonas Rubisco Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of L290F-A222T Chlamydomonas Rubisco Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1476

b:17.1
occ:1.00
OD1 A:ASP203 1.9 13.9 1.0
OE1 A:GLU204 2.0 14.1 1.0
OQ2 A:KCX201 2.0 13.6 1.0
O6 A:CAP1477 2.1 16.5 1.0
O3 A:CAP1477 2.2 13.5 1.0
O2 A:CAP1477 2.3 15.1 1.0
C2 A:CAP1477 2.9 14.8 1.0
C A:CAP1477 2.9 15.0 1.0
CD A:GLU204 3.0 14.6 1.0
CX A:KCX201 3.1 13.8 1.0
C3 A:CAP1477 3.1 14.1 1.0
CG A:ASP203 3.2 13.9 1.0
OQ1 A:KCX201 3.4 14.3 1.0
OE2 A:GLU204 3.5 14.9 1.0
NZ A:LYS177 3.7 11.9 1.0
N A:GLU204 3.7 12.7 1.0
ND2 B:ASN123 3.9 13.1 1.0
OD2 A:ASP203 3.9 14.8 1.0
CG2 A:THR173 3.9 12.6 1.0
NZ A:LYS175 4.0 12.5 1.0
NE2 A:HIS294 4.0 12.1 1.0
CA A:ASP203 4.1 12.8 1.0
CB A:ASP203 4.2 12.9 1.0
O7 A:CAP1477 4.2 14.8 1.0
NZ A:KCX201 4.2 12.9 1.0
C4 A:CAP1477 4.3 13.7 1.0
CG A:GLU204 4.3 12.9 1.0
OG1 A:THR173 4.3 13.3 1.0
C1 A:CAP1477 4.4 14.4 1.0
C A:ASP203 4.4 12.8 1.0
CB A:GLU204 4.5 12.7 1.0
CD2 A:HIS294 4.6 11.5 1.0
CB A:THR173 4.7 13.5 1.0
CA A:GLU204 4.7 12.7 1.0
C5 A:CAP1477 4.7 13.0 1.0
O1 A:CAP1477 4.9 15.1 1.0
CE1 A:HIS294 4.9 11.8 1.0

Magnesium binding site 2 out of 8 in 1uw9

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Magnesium binding site 2 out of 8 in the L290F-A222T Chlamydomonas Rubisco Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of L290F-A222T Chlamydomonas Rubisco Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1476

b:12.4
occ:1.00
OD1 B:ASP203 1.9 14.1 1.0
O6 B:CAP1477 2.0 13.0 1.0
OE1 B:GLU204 2.0 14.2 1.0
OQ2 B:KCX201 2.1 14.0 1.0
O3 B:CAP1477 2.2 13.0 1.0
O2 B:CAP1477 2.3 13.9 1.0
C B:CAP1477 2.8 13.1 1.0
C2 B:CAP1477 2.9 13.3 1.0
C3 B:CAP1477 3.1 12.8 1.0
CD B:GLU204 3.1 14.7 1.0
CX B:KCX201 3.1 13.8 1.0
CG B:ASP203 3.2 14.0 1.0
OQ1 B:KCX201 3.4 14.2 1.0
OE2 B:GLU204 3.5 14.7 1.0
NZ B:LYS177 3.6 11.8 1.0
OD2 B:ASP203 3.8 14.7 1.0
N B:GLU204 3.8 12.7 1.0
NZ B:LYS175 3.8 12.6 1.0
ND2 A:ASN123 3.8 13.0 1.0
CG2 B:THR173 3.9 12.4 1.0
O7 B:CAP1477 4.1 12.9 1.0
NE2 B:HIS294 4.1 11.8 1.0
CA B:ASP203 4.1 12.8 1.0
CB B:ASP203 4.2 12.8 1.0
OG1 B:THR173 4.3 13.4 1.0
C4 B:CAP1477 4.3 13.4 1.0
NZ B:KCX201 4.3 13.2 1.0
CG B:GLU204 4.3 12.8 1.0
C1 B:CAP1477 4.4 13.7 1.0
C B:ASP203 4.5 12.8 1.0
CB B:GLU204 4.5 12.7 1.0
CB B:THR173 4.6 13.3 1.0
C5 B:CAP1477 4.7 13.1 1.0
CD2 B:HIS294 4.7 11.9 1.0
CA B:GLU204 4.8 12.8 1.0
O1 B:CAP1477 4.8 13.4 1.0
O A:HOH2039 5.0 11.4 1.0
O B:HOH2105 5.0 16.3 1.0

Magnesium binding site 3 out of 8 in 1uw9

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Magnesium binding site 3 out of 8 in the L290F-A222T Chlamydomonas Rubisco Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of L290F-A222T Chlamydomonas Rubisco Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg1476

b:14.6
occ:1.00
OD1 E:ASP203 2.0 13.6 1.0
OE1 E:GLU204 2.0 14.2 1.0
OQ2 E:KCX201 2.0 13.7 1.0
O3 E:CAP1477 2.1 14.4 1.0
O6 E:CAP1477 2.2 14.9 1.0
O2 E:CAP1477 2.3 15.0 1.0
C2 E:CAP1477 2.9 15.0 1.0
C E:CAP1477 2.9 15.2 1.0
CX E:KCX201 3.0 13.8 1.0
C3 E:CAP1477 3.0 15.5 1.0
CD E:GLU204 3.1 14.7 1.0
CG E:ASP203 3.2 13.7 1.0
OQ1 E:KCX201 3.3 14.2 1.0
OE2 E:GLU204 3.6 15.0 1.0
N E:GLU204 3.7 12.8 1.0
NZ E:LYS177 3.8 12.0 1.0
CG2 E:THR173 3.8 12.4 1.0
OD2 E:ASP203 3.9 14.6 1.0
ND2 K:ASN123 3.9 13.2 1.0
NZ E:LYS175 3.9 12.6 1.0
NE2 E:HIS294 4.0 11.9 1.0
CA E:ASP203 4.1 12.8 1.0
NZ E:KCX201 4.2 12.9 1.0
O7 E:CAP1477 4.2 14.7 1.0
CB E:ASP203 4.2 12.9 1.0
OG1 E:THR173 4.2 13.5 1.0
C4 E:CAP1477 4.3 15.8 1.0
CG E:GLU204 4.3 12.9 1.0
C1 E:CAP1477 4.4 14.8 1.0
C E:ASP203 4.5 12.8 1.0
CB E:GLU204 4.5 12.8 1.0
CD2 E:HIS294 4.6 11.7 1.0
CB E:THR173 4.6 13.3 1.0
C5 E:CAP1477 4.7 14.0 1.0
CA E:GLU204 4.7 12.7 1.0
O1 E:CAP1477 4.8 15.2 1.0
CE1 E:HIS294 4.9 12.0 1.0

Magnesium binding site 4 out of 8 in 1uw9

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Magnesium binding site 4 out of 8 in the L290F-A222T Chlamydomonas Rubisco Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of L290F-A222T Chlamydomonas Rubisco Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg1476

b:14.2
occ:1.00
OD1 H:ASP203 1.9 13.9 1.0
OE1 H:GLU204 2.0 13.8 1.0
OQ2 H:KCX201 2.0 13.9 1.0
O6 O:CAP1478 2.1 14.6 1.0
O3 O:CAP1478 2.2 15.8 1.0
O2 O:CAP1478 2.4 13.6 1.0
C O:CAP1478 2.9 15.1 1.0
C2 O:CAP1478 3.0 15.7 1.0
CD H:GLU204 3.0 14.5 1.0
C3 O:CAP1478 3.1 15.7 1.0
CX H:KCX201 3.1 13.8 1.0
CG H:ASP203 3.1 13.8 1.0
OQ1 H:KCX201 3.4 14.1 1.0
OE2 H:GLU204 3.4 14.8 1.0
NZ H:LYS177 3.6 11.8 1.0
N H:GLU204 3.7 12.6 1.0
OD2 H:ASP203 3.8 14.7 1.0
ND2 R:ASN123 3.8 13.2 1.0
CG2 H:THR173 3.9 12.4 1.0
NZ H:LYS175 3.9 12.6 1.0
NE2 H:HIS294 4.0 11.9 1.0
CA H:ASP203 4.1 12.8 1.0
CB H:ASP203 4.1 12.8 1.0
O7 O:CAP1478 4.2 14.7 1.0
NZ H:KCX201 4.3 13.0 1.0
CG H:GLU204 4.3 12.8 1.0
OG1 H:THR173 4.3 12.9 1.0
C4 O:CAP1478 4.3 16.1 1.0
C1 O:CAP1478 4.4 15.6 1.0
C H:ASP203 4.4 12.8 1.0
CB H:GLU204 4.5 12.7 1.0
CD2 H:HIS294 4.7 11.7 1.0
CB H:THR173 4.7 13.5 1.0
CA H:GLU204 4.7 12.7 1.0
C5 O:CAP1478 4.8 14.9 1.0
O1 O:CAP1478 4.9 17.6 1.0
CE1 H:HIS294 4.9 12.0 1.0
O R:HOH2038 5.0 14.7 1.0

Magnesium binding site 5 out of 8 in 1uw9

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Magnesium binding site 5 out of 8 in the L290F-A222T Chlamydomonas Rubisco Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of L290F-A222T Chlamydomonas Rubisco Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Mg1476

b:13.1
occ:1.00
OD1 K:ASP203 1.9 14.1 1.0
O6 R:CAP1478 2.0 16.9 1.0
OQ2 K:KCX201 2.0 13.7 1.0
OE1 K:GLU204 2.0 14.1 1.0
O3 R:CAP1478 2.2 15.2 1.0
O2 R:CAP1478 2.3 16.8 1.0
C R:CAP1478 2.8 16.2 1.0
C2 R:CAP1478 2.9 16.3 1.0
CX K:KCX201 3.1 13.8 1.0
CD K:GLU204 3.1 14.7 1.0
C3 R:CAP1478 3.1 16.0 1.0
CG K:ASP203 3.2 13.9 1.0
OQ1 K:KCX201 3.4 14.2 1.0
OE2 K:GLU204 3.6 14.8 1.0
NZ K:LYS177 3.7 12.0 1.0
N K:GLU204 3.8 12.7 1.0
OD2 K:ASP203 3.8 14.6 1.0
ND2 E:ASN123 3.9 13.4 1.0
CG2 K:THR173 3.9 12.4 1.0
NZ K:LYS175 3.9 12.6 1.0
O7 R:CAP1478 4.0 16.3 1.0
NE2 K:HIS294 4.1 12.0 1.0
CA K:ASP203 4.1 12.8 1.0
CB K:ASP203 4.2 12.8 1.0
NZ K:KCX201 4.2 13.0 1.0
OG1 K:THR173 4.2 13.3 1.0
C4 R:CAP1478 4.3 15.0 1.0
CG K:GLU204 4.3 12.8 1.0
C1 R:CAP1478 4.4 16.7 1.0
C K:ASP203 4.5 12.9 1.0
CB K:GLU204 4.5 12.8 1.0
CB K:THR173 4.6 13.5 1.0
CD2 K:HIS294 4.7 11.7 1.0
C5 R:CAP1478 4.7 14.9 1.0
CA K:GLU204 4.8 12.7 1.0
O1 R:CAP1478 4.8 16.3 1.0
CE1 K:HIS294 4.9 12.0 1.0

Magnesium binding site 6 out of 8 in 1uw9

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Magnesium binding site 6 out of 8 in the L290F-A222T Chlamydomonas Rubisco Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of L290F-A222T Chlamydomonas Rubisco Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Mg1477

b:13.3
occ:1.00
OD1 O:ASP203 2.0 14.1 1.0
OQ2 O:KCX201 2.0 13.9 1.0
OE1 O:GLU204 2.0 14.2 1.0
O6 O:CAP1476 2.1 13.4 1.0
O2 O:CAP1476 2.2 12.4 1.0
O3 O:CAP1476 2.2 13.3 1.0
C2 O:CAP1476 2.9 13.5 1.0
C O:CAP1476 2.9 13.2 1.0
CX O:KCX201 3.1 13.8 1.0
C3 O:CAP1476 3.1 13.9 1.0
CD O:GLU204 3.1 14.7 1.0
CG O:ASP203 3.2 13.7 1.0
OQ1 O:KCX201 3.4 14.3 1.0
OE2 O:GLU204 3.6 14.6 1.0
NZ O:LYS177 3.7 11.7 1.0
N O:GLU204 3.8 12.8 1.0
OD2 O:ASP203 3.8 14.5 1.0
NZ O:LYS175 3.9 12.5 1.0
ND2 V:ASN123 3.9 13.1 1.0
CG2 O:THR173 3.9 12.5 1.0
NE2 O:HIS294 4.0 12.1 1.0
CA O:ASP203 4.1 12.8 1.0
O7 O:CAP1476 4.2 13.4 1.0
CB O:ASP203 4.2 12.8 1.0
OG1 O:THR173 4.2 13.1 1.0
NZ O:KCX201 4.2 12.9 1.0
C4 O:CAP1476 4.3 14.4 1.0
C1 O:CAP1476 4.3 13.3 1.0
CG O:GLU204 4.4 12.9 1.0
C O:ASP203 4.5 12.8 1.0
CB O:GLU204 4.6 12.8 1.0
CB O:THR173 4.6 13.6 1.0
CD2 O:HIS294 4.6 11.5 1.0
C5 O:CAP1476 4.7 13.5 1.0
O1 O:CAP1476 4.8 13.1 1.0
CA O:GLU204 4.8 12.7 1.0
CE1 O:HIS294 5.0 12.1 1.0
O V:HOH2039 5.0 12.1 1.0

Magnesium binding site 7 out of 8 in 1uw9

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Magnesium binding site 7 out of 8 in the L290F-A222T Chlamydomonas Rubisco Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of L290F-A222T Chlamydomonas Rubisco Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Mg1477

b:12.7
occ:1.00
OD1 R:ASP203 1.9 14.2 1.0
OQ2 R:KCX201 2.0 13.7 1.0
OE1 R:GLU204 2.0 14.3 1.0
O3 R:CAP1476 2.1 16.7 1.0
O6 R:CAP1476 2.2 16.0 1.0
O2 R:CAP1476 2.2 16.6 1.0
C2 R:CAP1476 2.9 16.6 1.0
C R:CAP1476 3.0 16.1 1.0
CX R:KCX201 3.0 13.9 1.0
C3 R:CAP1476 3.0 16.0 1.0
CD R:GLU204 3.1 14.6 1.0
CG R:ASP203 3.1 13.8 1.0
OQ1 R:KCX201 3.3 14.2 1.0
OE2 R:GLU204 3.6 14.8 1.0
NZ R:LYS177 3.7 12.1 1.0
N R:GLU204 3.8 12.8 1.0
OD2 R:ASP203 3.8 14.5 1.0
CG2 R:THR173 3.8 12.5 1.0
ND2 H:ASN123 3.9 13.0 1.0
NZ R:LYS175 4.0 12.7 1.0
NE2 R:HIS294 4.0 12.2 1.0
CA R:ASP203 4.1 12.8 1.0
CB R:ASP203 4.2 12.9 1.0
NZ R:KCX201 4.2 13.2 1.0
OG1 R:THR173 4.2 13.2 1.0
O7 R:CAP1476 4.2 15.2 1.0
C4 R:CAP1476 4.3 15.9 1.0
C1 R:CAP1476 4.3 16.1 1.0
CG R:GLU204 4.4 13.1 1.0
C R:ASP203 4.5 12.8 1.0
CB R:GLU204 4.5 12.7 1.0
CB R:THR173 4.6 13.4 1.0
CD2 R:HIS294 4.6 11.8 1.0
C5 R:CAP1476 4.7 15.7 1.0
CA R:GLU204 4.8 12.7 1.0
O1 R:CAP1476 4.8 16.8 1.0
CE1 R:HIS294 4.9 11.9 1.0

Magnesium binding site 8 out of 8 in 1uw9

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Magnesium binding site 8 out of 8 in the L290F-A222T Chlamydomonas Rubisco Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of L290F-A222T Chlamydomonas Rubisco Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
V:Mg1477

b:13.6
occ:1.00
OD1 V:ASP203 1.9 14.0 1.0
OE1 V:GLU204 2.0 14.1 1.0
OQ2 V:KCX201 2.1 13.7 1.0
O6 V:CAP1476 2.1 11.9 1.0
O3 V:CAP1476 2.2 14.8 1.0
O2 V:CAP1476 2.3 13.7 1.0
C2 V:CAP1476 2.9 13.6 1.0
C V:CAP1476 2.9 12.7 1.0
CD V:GLU204 3.0 14.7 1.0
C3 V:CAP1476 3.0 13.7 1.0
CX V:KCX201 3.1 13.8 1.0
CG V:ASP203 3.1 13.8 1.0
OQ1 V:KCX201 3.4 14.4 1.0
OE2 V:GLU204 3.5 14.8 1.0
NZ V:LYS177 3.7 11.8 1.0
N V:GLU204 3.7 12.7 1.0
ND2 O:ASN123 3.8 13.1 1.0
OD2 V:ASP203 3.8 14.6 1.0
NZ V:LYS175 3.9 12.5 1.0
CG2 V:THR173 3.9 12.3 1.0
NE2 V:HIS294 4.0 12.3 1.0
CA V:ASP203 4.1 12.9 1.0
O7 V:CAP1476 4.2 11.7 1.0
CB V:ASP203 4.2 12.8 1.0
C4 V:CAP1476 4.3 14.6 1.0
NZ V:KCX201 4.3 13.1 1.0
CG V:GLU204 4.3 12.8 1.0
C1 V:CAP1476 4.3 12.5 1.0
OG1 V:THR173 4.3 13.2 1.0
C V:ASP203 4.5 12.7 1.0
CB V:GLU204 4.5 12.8 1.0
CD2 V:HIS294 4.6 11.5 1.0
CB V:THR173 4.7 13.5 1.0
C5 V:CAP1476 4.7 12.3 1.0
CA V:GLU204 4.7 12.7 1.0
O1 V:CAP1476 4.8 14.7 1.0
CE1 V:HIS294 5.0 11.7 1.0
CG O:ASN123 5.0 14.4 1.0

Reference:

S.Karkehabadi, T.C.Taylor, R.J.Spreitzer, I.Andersson. Altered Intersubunit Interactions in Crystal Structures of Catalytically Compromised Ribulose-1,5-Bisphosphate Carboxylase/Oxygenase Biochemistry V. 44 113 2005.
ISSN: ISSN 0006-2960
PubMed: 15628851
DOI: 10.1021/BI047928E
Page generated: Mon Dec 14 06:53:40 2020

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