Magnesium in PDB 5gqz: Crystal Structure of Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142

All present enzymatic activity of Crystal Structure of Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142:
2.4.1.18;

The structure of Crystal Structure of Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142, PDB code: 5gqz was solved by R.Suzuki, E.Suzuki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.35 / 1.85
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	133.928, 133.928, 184.734, 90.00, 90.00, 90.00
R / Rfree (%)	15.8 / 17.9

The binding sites of Magnesium atom in the Crystal Structure of Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142 (pdb code 5gqz). 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 Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142, PDB code: 5gqz:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Crystal Structure of Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142


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 Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg810 b:42.3 occ:1.00 O A:HOH905 2.1 46.8 1.0 O A:HOH1700 2.2 30.2 1.0 O A:HOH1443 2.3 28.1 1.0 OE1 A:GLU487 4.1 26.1 1.0 OD1 A:ASP434 4.2 34.0 1.0 O A:HOH1047 4.2 22.1 1.0 O A:HOH1189 4.2 31.3 1.0 OD2 A:ASP555 4.4 27.4 1.0 CD A:GLU487 4.7 21.6 1.0 O A:HOH1088 4.7 26.5 1.0 OE2 A:GLU487 4.8 28.0 1.0 O A:HOH1521 4.9 16.5 1.0 CB A:ALA435 4.9 25.0 1.0

Magnesium binding site 2 out of 4 in the Crystal Structure of Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142


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 Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg811 b:21.6 occ:1.00 O A:HOH1458 2.0 25.6 1.0 OD1 A:ASP612 2.0 17.1 1.0 O A:HOH1234 2.0 27.0 1.0 O A:HOH1252 2.1 22.2 1.0 O A:HOH1239 2.1 21.4 1.0 CG A:ASP612 3.1 15.2 1.0 OD2 A:ASP612 3.7 18.1 1.0 O A:HOH1221 3.9 35.6 1.0 O A:LEU613 4.0 16.3 1.0 O A:ASP612 4.1 14.6 1.0 N A:ASP612 4.2 17.1 1.0 O A:HOH1733 4.2 40.6 1.0 O A:HOH1161 4.3 22.7 1.0 C A:ASP612 4.3 16.2 1.0 O A:HOH1353 4.3 25.9 1.0 CB A:ASP612 4.3 15.6 1.0 CA A:ASP612 4.4 13.9 1.0 O A:HOH1437 4.6 26.8 1.0 OE2 A:GLU614 4.8 45.9 1.0 C A:LEU613 4.9 17.7 1.0

Magnesium binding site 3 out of 4 in the Crystal Structure of Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142


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 Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg812 b:27.9 occ:1.00 O A:HOH1610 1.9 26.3 1.0 O A:HOH1506 2.1 27.6 1.0 O A:HOH1199 2.1 28.6 1.0 O A:HOH962 2.2 32.6 1.0 O A:HOH1122 3.9 32.6 1.0 OE1 A:GLU194 4.0 25.0 1.0 O A:TRP163 4.2 23.9 1.0 OE2 A:GLU194 4.4 27.2 1.0 OD1 A:ASP164 4.4 25.9 1.0 CA A:ASP164 4.5 21.4 1.0 O A:HOH1502 4.5 44.0 1.0 CD A:GLU194 4.6 29.3 1.0 O A:HOH1283 4.7 43.3 1.0 N A:GLY165 4.9 24.9 1.0 CG A:ASP164 5.0 27.2 1.0 CB A:ASP164 5.0 24.2 1.0

Magnesium binding site 4 out of 4 in the Crystal Structure of Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142


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 Branching Enzyme Y500A Mutant From Cyanothece Sp. Atcc 51142 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg813 b:44.7 occ:1.00 O A:HOH1598 1.9 37.3 1.0 O A:HOH1175 2.3 49.2 1.0 O A:HOH974 2.3 26.0 1.0 O A:HOH1511 3.8 29.8 1.0 OD1 A:ASN535 4.1 28.4 1.0 ND1 A:HIS532 4.1 23.2 1.0 O A:HOH1004 4.2 32.2 1.0 ND2 A:ASN534 4.3 25.0 1.0 OD1 A:ASN534 4.5 23.6 1.0 CE1 A:HIS532 4.6 20.6 1.0 CG A:ASN534 4.8 21.9 1.0

M.Hayashi, R.Suzuki, C.Colleoni, S.G.Ball, N.Fujita, E.Suzuki. Structural Basis For Substrate Binding and Catalysis of Branching Enzyme From Cyanothece Sp. Atcc 51142 To Be Published.