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Magnesium in PDB 3wzv: 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis Mr-1 at 0.1MPA - Complex with Ipm and Mg

Enzymatic activity of 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis Mr-1 at 0.1MPA - Complex with Ipm and Mg

All present enzymatic activity of 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis Mr-1 at 0.1MPA - Complex with Ipm and Mg:
1.1.1.85;

Protein crystallography data

The structure of 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis Mr-1 at 0.1MPA - Complex with Ipm and Mg, PDB code: 3wzv was solved by T.Nagae, N.Watanabe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 22.07 / 1.90
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 104.630, 58.867, 76.876, 90.00, 118.92, 90.00
R / Rfree (%) 13.6 / 17.3

Magnesium Binding Sites:

The binding sites of Magnesium atom in the 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis Mr-1 at 0.1MPA - Complex with Ipm and Mg (pdb code 3wzv). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis Mr-1 at 0.1MPA - Complex with Ipm and Mg, PDB code: 3wzv:

Magnesium binding site 1 out of 1 in 3wzv

Go back to Magnesium Binding Sites List in 3wzv
Magnesium binding site 1 out of 1 in the 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis Mr-1 at 0.1MPA - Complex with Ipm and Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis Mr-1 at 0.1MPA - Complex with Ipm and Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg402

b:17.1
occ:1.00
 O A:HOH685 2.1 15.4 1.0
OD1 A:ASP249 2.1 17.4 1.0
O3 A:IPM401 2.1 18.0 1.0
O A:HOH510 2.2 17.4 1.0
O1 A:IPM401 2.2 15.7 1.0
C1 A:IPM401 2.9 18.2 1.0
C2 A:IPM401 3.1 17.2 1.0
CG A:ASP249 3.2 19.1 1.0
OD2 A:ASP249 3.7 18.4 1.0
O A:HOH615 4.0 39.1 1.0
OD2 A:ASP253 4.0 27.0 1.0
O A:ASP249 4.0 15.6 1.0
O2 A:IPM401 4.1 18.1 1.0
C4 A:IPM401 4.2 16.4 1.0
O5 A:IPM401 4.2 15.9 1.0
C3 A:IPM401 4.2 17.1 1.0
NH1 A:ARG107 4.3 20.8 0.5
O A:HOH621 4.3 44.7 1.0
OD1 A:ASP253 4.3 23.9 1.0
CG A:ASP253 4.3 21.6 1.0
CB A:ASP249 4.3 15.8 1.0
CA A:ASP249 4.5 15.6 1.0
C A:ASP249 4.5 15.4 1.0
O4 A:IPM401 4.6 17.8 1.0
O A:HOH577 4.6 36.3 1.0
NH1 A:ARG136 4.7 17.7 1.0
NH1 A:ARG107 4.8 30.2 0.5

Reference:

Y.Hamajima, T.Nagae, N.Watanabe, Y.Kato-Yamada, T.Imai, C.Kato. Pressure Adaptation of 3-Isopropylmalate Dehydrogenase From the Extremely Piezophilic Bacterium Shewanella Benthica Is Attributed to Just One Amino Acid Substitution To Be Published.
Page generated: Thu Aug 15 13:41:32 2024

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