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Magnesium in PDB 4rw3: Structural Insights Into Substrate Binding of Brown Spider Venom Class II Phospholipases D

Enzymatic activity of Structural Insights Into Substrate Binding of Brown Spider Venom Class II Phospholipases D

All present enzymatic activity of Structural Insights Into Substrate Binding of Brown Spider Venom Class II Phospholipases D:
3.1.4.4;

Protein crystallography data

The structure of Structural Insights Into Substrate Binding of Brown Spider Venom Class II Phospholipases D, PDB code: 4rw3 was solved by M.A.Coronado, A.Ullah, L.S.Da Silva, D.Chaves-Moreira, L.Vuitika, O.M.Chaim, S.S.Veiga, J.Chahine, M.T.Murakami, R.K.Arni, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 1.72
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 49.810, 49.300, 56.300, 90.00, 105.83, 90.00
R / Rfree (%) 18.3 / 22.3

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structural Insights Into Substrate Binding of Brown Spider Venom Class II Phospholipases D (pdb code 4rw3). 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 Structural Insights Into Substrate Binding of Brown Spider Venom Class II Phospholipases D, PDB code: 4rw3:

Magnesium binding site 1 out of 1 in 4rw3

Go back to Magnesium Binding Sites List in 4rw3
Magnesium binding site 1 out of 1 in the Structural Insights Into Substrate Binding of Brown Spider Venom Class II Phospholipases D


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural Insights Into Substrate Binding of Brown Spider Venom Class II Phospholipases D within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg301

b:12.9
occ:1.00
 O5 A:IPD304 1.8 21.4 1.0
OE2 A:GLU32 2.0 12.9 1.0
OD1 A:ASP34 2.0 13.3 1.0
O A:HOH410 2.1 13.5 1.0
OD2 A:ASP92 2.1 12.3 1.0
C6 A:IPD304 2.2 22.6 0.7
C5 A:IPD304 2.3 24.0 1.0
O6 A:IPD304 2.6 30.1 1.0
CD A:GLU32 3.0 12.6 1.0
CG A:ASP34 3.1 14.2 1.0
CG A:ASP92 3.1 12.0 1.0
OE1 A:GLU32 3.3 13.2 1.0
CB A:ASP92 3.4 11.7 1.0
OD2 A:ASP34 3.5 14.1 1.0
C4 A:IPD304 3.7 22.4 1.0
C1 A:IPD304 3.8 23.5 1.0
NZ A:LYS94 3.9 13.8 1.0
CE A:LYS94 4.0 13.5 1.0
CD2 A:HIS48 4.1 19.2 1.0
O4 A:IPD304 4.1 24.6 0.7
OD1 A:ASP92 4.3 12.9 1.0
O3 A:IPD304 4.3 22.6 1.0
CG A:GLU32 4.3 12.1 1.0
CB A:ASP34 4.3 13.7 1.0
O1 A:IPD304 4.4 19.1 0.7
C3 A:IPD304 4.4 24.4 0.7
NE2 A:HIS12 4.5 14.9 1.0
NE2 A:HIS48 4.5 19.0 1.0
C2 A:IPD304 4.6 23.6 0.7
CA A:ASP34 4.7 13.3 1.0
CD2 A:HIS12 4.7 14.3 1.0
N A:ASP34 4.8 12.4 1.0
CA A:ASP92 4.9 11.4 1.0

Reference:

M.A.Coronado, A.Ullah, L.S.Da Silva, D.Chaves-Moreira, L.Vuitika, O.M.Chaim, S.S.Veiga, J.Chahine, M.T.Murakami, R.K.Arni. Structural Insights Into Substrate Binding of Brown Spider Venom Class II Phospholipases D. Curr Protein Pept Sci V. 16 768 2015.
PubMed: 25961401
Page generated: Tue Aug 20 03:31:56 2024

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