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Magnesium in PDB 3fwy: Crystal Structure of the L Protein of Rhodobacter Sphaeroides Light- Independent Protochlorophyllide Reductase (Bchl) with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein

Protein crystallography data

The structure of Crystal Structure of the L Protein of Rhodobacter Sphaeroides Light- Independent Protochlorophyllide Reductase (Bchl) with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein, PDB code: 3fwy was solved by R.Sarma, B.M.Barney, T.L.Hamilton, A.Jones, L.C.Seefeldt, J.W.Peters, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 33.02 / 1.63
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.729, 86.622, 117.169, 90.00, 90.00, 90.00
R / Rfree (%) 17.4 / 19.9

Other elements in 3fwy:

The structure of Crystal Structure of the L Protein of Rhodobacter Sphaeroides Light- Independent Protochlorophyllide Reductase (Bchl) with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the L Protein of Rhodobacter Sphaeroides Light- Independent Protochlorophyllide Reductase (Bchl) with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein (pdb code 3fwy). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of the L Protein of Rhodobacter Sphaeroides Light- Independent Protochlorophyllide Reductase (Bchl) with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein, PDB code: 3fwy:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3fwy

Go back to Magnesium Binding Sites List in 3fwy
Magnesium binding site 1 out of 2 in the Crystal Structure of the L Protein of Rhodobacter Sphaeroides Light- Independent Protochlorophyllide Reductase (Bchl) with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein


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 the L Protein of Rhodobacter Sphaeroides Light- Independent Protochlorophyllide Reductase (Bchl) with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg401

b:19.6
occ:1.00
OG A:SER45 2.0 12.8 1.0
O3B A:ADP501 2.1 19.0 1.0
O A:HOH324 2.1 21.8 1.0
O A:HOH325 2.1 20.0 1.0
O A:HOH322 2.1 19.1 1.0
O A:HOH321 2.2 19.5 1.0
CB A:SER45 3.1 13.7 1.0
PB A:ADP501 3.2 19.2 1.0
O2B A:ADP501 3.5 18.9 1.0
OD2 A:ASP68 3.8 16.8 1.0
OD2 A:ASP72 3.9 14.8 1.0
N A:SER45 3.9 12.9 1.0
CA A:SER45 4.1 11.4 1.0
O1A A:ADP501 4.1 23.0 1.0
OD2 A:ASP153 4.1 11.1 1.0
CE A:LYS70 4.2 21.2 1.0
O3A A:ADP501 4.3 19.3 1.0
OD1 A:ASP153 4.3 10.6 1.0
O1B A:ADP501 4.3 19.2 1.0
O A:LYS70 4.5 13.9 1.0
CG A:ASP68 4.6 12.8 1.0
PA A:ADP501 4.6 21.0 1.0
NZ A:LYS70 4.6 22.7 1.0
CG A:ASP153 4.6 10.4 1.0
CA A:SER73 4.8 12.0 1.0
CB A:LYS44 4.8 13.6 1.0
O2A A:ADP501 4.8 20.9 1.0
O A:HOH298 4.9 25.5 1.0
N A:SER73 4.9 11.7 1.0
CE A:LYS44 4.9 14.0 1.0
C A:LYS44 5.0 11.5 1.0
CB A:ASP68 5.0 13.9 1.0
NZ A:LYS44 5.0 15.0 1.0

Magnesium binding site 2 out of 2 in 3fwy

Go back to Magnesium Binding Sites List in 3fwy
Magnesium binding site 2 out of 2 in the Crystal Structure of the L Protein of Rhodobacter Sphaeroides Light- Independent Protochlorophyllide Reductase (Bchl) with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein


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 the L Protein of Rhodobacter Sphaeroides Light- Independent Protochlorophyllide Reductase (Bchl) with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg401

b:24.1
occ:1.00
O B:HOH301 2.0 20.7 1.0
O B:HOH302 2.0 22.1 1.0
OG B:SER45 2.1 13.4 1.0
O3B B:ADP501 2.1 24.4 1.0
O B:HOH299 2.1 22.8 1.0
O B:HOH300 2.2 25.4 1.0
CB B:SER45 3.2 14.5 1.0
PB B:ADP501 3.3 23.5 1.0
O2B B:ADP501 3.5 23.9 1.0
OD2 B:ASP68 3.8 13.2 1.0
N B:SER45 3.9 14.0 1.0
OD1 B:ASP72 4.0 14.3 1.0
OD2 B:ASP153 4.0 10.2 1.0
CA B:SER45 4.1 13.5 1.0
O1A B:ADP501 4.2 24.1 1.0
CE B:LYS70 4.2 14.0 1.0
OD1 B:ASP153 4.3 9.2 1.0
O3A B:ADP501 4.3 25.2 1.0
O1B B:ADP501 4.4 23.1 1.0
CG B:ASP68 4.5 14.2 1.0
CG B:ASP153 4.6 9.9 1.0
O B:LYS70 4.6 14.8 1.0
PA B:ADP501 4.6 25.4 1.0
NZ B:LYS70 4.7 18.0 1.0
CA B:SER73 4.8 13.1 1.0
CB B:LYS44 4.8 14.5 1.0
C B:LYS44 4.9 12.5 1.0
O B:HOH384 4.9 28.6 1.0
N B:SER73 4.9 13.8 1.0
CB B:ASP68 4.9 13.5 1.0
O2A B:ADP501 4.9 24.9 1.0
CE B:LYS44 5.0 15.0 1.0
NZ B:LYS44 5.0 13.8 1.0

Reference:

R.Sarma, B.M.Barney, T.L.Hamilton, A.Jones, L.C.Seefeldt, J.W.Peters. Crystal Structure of the L Protein of Rhodobacter Sphaeroides Light-Independent Protochlorophyllide Reductase with Mgadp Bound: A Homologue of the Nitrogenase Fe Protein. Biochemistry V. 47 13004 2008.
ISSN: ISSN 0006-2960
PubMed: 19006326
DOI: 10.1021/BI801058R
Page generated: Mon Dec 14 08:09:26 2020

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