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Magnesium in PDB 3lqr: Structure of Ced-4:Ced-3 Complex

Protein crystallography data

The structure of Structure of Ced-4:Ced-3 Complex, PDB code: 3lqr was solved by S.Qi, Y.Pang, Y.Shi, N.Yan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.78 / 3.90
Space group I 4 2 2
Cell size a, b, c (Å), α, β, γ (°) 181.330, 181.330, 202.880, 90.00, 90.00, 90.00
R / Rfree (%) 25.5 / 28.3

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Ced-4:Ced-3 Complex (pdb code 3lqr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Ced-4:Ced-3 Complex, PDB code: 3lqr:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3lqr

Go back to Magnesium Binding Sites List in 3lqr
Magnesium binding site 1 out of 2 in the Structure of Ced-4:Ced-3 Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Ced-4:Ced-3 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg601

b:0.5
occ:1.00
O2G A:ATP602 2.5 0.2 1.0
O2A A:ATP602 3.2 0.7 1.0
OD2 A:ASP250 3.4 1.0 1.0
OG A:SER166 3.6 94.5 1.0
NZ A:LYS191 3.8 0.4 1.0
PG A:ATP602 4.0 0.6 1.0
O1B A:ATP602 4.0 0.1 1.0
CB A:SER166 4.1 0.1 1.0
CG A:ASP250 4.3 0.6 1.0
OD1 A:ASP250 4.3 0.9 1.0
OG A:SER370 4.4 0.9 1.0
O3B A:ATP602 4.5 0.0 1.0
O3G A:ATP602 4.6 0.8 1.0
PA A:ATP602 4.6 0.1 1.0
CE1 A:TYR369 4.6 0.6 1.0
CE A:LYS191 4.7 0.9 1.0
CD A:LYS191 4.7 0.3 1.0
PB A:ATP602 4.8 0.4 1.0

Magnesium binding site 2 out of 2 in 3lqr

Go back to Magnesium Binding Sites List in 3lqr
Magnesium binding site 2 out of 2 in the Structure of Ced-4:Ced-3 Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Ced-4:Ced-3 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg601

b:0.6
occ:1.00
OG B:SER166 2.8 93.7 1.0
O2G B:ATP602 2.8 0.4 1.0
OD2 B:ASP250 3.0 0.8 1.0
O2A B:ATP602 3.1 0.9 1.0
CB B:SER166 3.4 0.2 1.0
O1B B:ATP602 3.5 0.5 1.0
OD1 B:ASP250 3.6 0.4 1.0
CG B:ASP250 3.7 0.9 1.0
PG B:ATP602 3.8 0.5 1.0
O1G B:ATP602 3.9 96.0 1.0
NZ B:LYS191 4.1 0.7 1.0
PA B:ATP602 4.3 0.2 1.0
O3B B:ATP602 4.4 0.7 1.0
PB B:ATP602 4.5 0.1 1.0
CA B:SER166 4.8 0.2 1.0
CD B:LYS191 4.8 0.7 1.0
O3A B:ATP602 4.8 0.3 1.0
O1A B:ATP602 4.9 0.8 1.0
CE B:LYS191 4.9 0.4 1.0

Reference:

S.Qi, Y.Pang, Q.Hu, Q.Liu, H.Li, Y.Zhou, T.He, Q.Liang, Y.Liu, X.Yuan, G.Luo, H.Li, J.Wang, N.Yan, Y.Shi. Crystal Structure of the Caenorhabditis Elegans Apoptosome Reveals An Octameric Assembly of Ced-4. Cell(Cambridge,Mass.) V. 141 446 2010.
ISSN: ISSN 0092-8674
PubMed: 20434985
DOI: 10.1016/J.CELL.2010.03.017
Page generated: Wed Aug 14 18:38:27 2024

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