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Magnesium in PDB 3sdv: Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production

Enzymatic activity of Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production

All present enzymatic activity of Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production:
4.2.3.38;

Protein crystallography data

The structure of Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production, PDB code: 3sdv was solved by R.P.Mcandrew, P.P.Peralta-Yahya, A.Degiovanni, J.H.Pereira, M.Z.Hadi, J.D.Keasling, P.D.Adams, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.35 / 2.20
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 156.771, 55.002, 127.290, 90.00, 119.30, 90.00
R / Rfree (%) 17.7 / 21.2

Other elements in 3sdv:

The structure of Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production (pdb code 3sdv). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production, PDB code: 3sdv:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 3sdv

Go back to Magnesium Binding Sites List in 3sdv
Magnesium binding site 1 out of 3 in the Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg819

b:64.8
occ:0.83
 O A:HOH1073 2.1 61.0 1.0
O A:HOH1125 2.1 60.2 1.0
OD2 A:ASP570 2.1 54.6 1.0
OD2 A:ASP566 2.3 54.9 1.0
O9 A:911822 2.4 58.5 0.8
O5 A:911822 2.4 54.1 0.8
OD1 A:ASP570 2.5 57.0 1.0
CG A:ASP570 2.6 57.1 1.0
CG A:ASP566 3.1 49.2 1.0
OD1 A:ASP566 3.4 49.5 1.0
MG A:MG821 3.5 35.7 0.8
P8 A:911822 3.7 60.0 0.8
P1 A:911822 3.7 56.3 0.8
OD1 A:ASP567 3.8 51.8 1.0
O A:ASP566 4.1 47.6 1.0
CB A:ASP570 4.1 58.8 1.0
O A:HOH1134 4.2 65.1 1.0
O12 A:911822 4.2 40.9 0.8
O3 A:911822 4.3 87.9 0.8
C7 A:911822 4.3 67.5 0.8
C A:ASP566 4.3 45.4 1.0
CB A:ASP566 4.4 42.8 1.0
O A:HOH1150 4.6 52.5 1.0
N A:ASP567 4.6 46.4 1.0
CA A:ASP567 4.7 48.2 1.0
C16 A:911822 4.8 64.0 0.8
OG1 A:THR571 4.8 57.8 1.0
O A:HOH1132 4.9 37.8 1.0
CA A:ASP566 4.9 44.0 1.0
O10 A:911822 4.9 43.9 0.8
O2 A:911822 4.9 62.7 0.8
CG A:ASP567 5.0 53.0 1.0

Magnesium binding site 2 out of 3 in 3sdv

Go back to Magnesium Binding Sites List in 3sdv
Magnesium binding site 2 out of 3 in the Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg820

b:75.2
occ:0.80
 O A:HOH1136 2.1 74.6 1.0
O A:HOH1135 2.1 75.6 1.0
O3 A:911822 2.1 87.9 0.8
O12 A:911822 2.2 40.9 0.8
O14 A:911822 2.6 69.3 0.8
C7 A:911822 3.1 67.5 0.8
P1 A:911822 3.2 56.3 0.8
P8 A:911822 3.3 60.0 0.8
OD1 A:ASP713 3.9 58.7 1.0
O A:HOH1125 4.1 60.2 1.0
O2 A:911822 4.2 62.7 0.8
O10 A:911822 4.2 43.9 0.8
O5 A:911822 4.3 54.1 0.8
NH2 A:ARG710 4.4 50.7 1.0
OD2 A:ASP713 4.4 54.2 1.0
O9 A:911822 4.4 58.5 0.8
CG A:ASP713 4.5 52.8 1.0
C16 A:911822 4.6 64.0 0.8
OG1 A:THR717 4.6 73.7 1.0
O A:HOH1133 5.0 56.5 1.0

Magnesium binding site 3 out of 3 in 3sdv

Go back to Magnesium Binding Sites List in 3sdv
Magnesium binding site 3 out of 3 in the Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg821

b:35.7
occ:0.80
 OD2 A:ASP570 2.0 54.6 1.0
O A:HOH1150 2.1 52.5 1.0
O A:HOH1131 2.1 50.5 1.0
O A:HOH1132 2.1 37.8 1.0
O9 A:911822 2.1 58.5 0.8
OD1 A:ASP566 2.2 49.5 1.0
P8 A:911822 3.1 60.0 0.8
O10 A:911822 3.2 43.9 0.8
CG A:ASP570 3.2 57.1 1.0
CG A:ASP566 3.2 49.2 1.0
MG A:MG819 3.5 64.8 0.8
OD2 A:ASP566 3.6 54.9 1.0
CB A:ASP570 3.7 58.8 1.0
OE2 A:GLU644 3.9 64.8 1.0
CE1 A:TYR641 4.1 46.0 1.0
O12 A:911822 4.1 40.9 0.8
OD1 A:ASP570 4.2 57.0 1.0
O A:HOH949 4.3 42.8 1.0
O A:HOH1125 4.4 60.2 1.0
O A:ASP566 4.4 47.6 1.0
CD A:GLU644 4.5 64.5 1.0
CB A:ASP566 4.5 42.8 1.0
C7 A:911822 4.6 67.5 0.8
OE1 A:GLU644 4.6 68.5 1.0
C16 A:911822 4.7 64.0 0.8
CD1 A:TYR641 4.7 49.4 1.0
O5 A:911822 4.8 54.1 0.8
CZ A:TYR641 4.8 42.9 1.0
OH A:TYR641 4.9 39.6 1.0
CA A:ASP566 4.9 44.0 1.0
C A:ASP566 5.0 45.4 1.0

Reference:

R.P.Mcandrew, P.P.Peralta-Yahya, A.Degiovanni, J.H.Pereira, M.Z.Hadi, J.D.Keasling, P.D.Adams. Structure of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production. Structure V. 19 1876 2011.
ISSN: ISSN 0969-2126
PubMed: 22153510
DOI: 10.1016/J.STR.2011.09.013
Page generated: Thu Aug 15 10:52:59 2024

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