Magnesium in PDB 3cmu: Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures

The structure of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures, PDB code: 3cmu was solved by N.P.Pavletich, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	12.00 / 4.20
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	156.000, 156.000, 211.000, 90.00, 90.00, 120.00
R / Rfree (%)	27.5 / 29.8

The structure of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures also contains other interesting chemical elements:

Fluorine	(F)	24 atoms
Aluminium	(Al)	6 atoms

The binding sites of Magnesium atom in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures (pdb code 3cmu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures, PDB code: 3cmu:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg500 b:0.4 occ:1.00 F2 A:ALF501 1.9 0.1 1.0 OG1 A:THR73 2.2 0.1 1.0 O1B A:ADP502 2.2 0.3 1.0 CB A:THR73 2.7 0.5 1.0 O2A A:ADP502 2.9 0.4 1.0 OE1 A:GLU96 3.0 0.8 1.0 CE A:LYS1250 3.3 0.5 1.0 F3 A:ALF501 3.3 1.0 1.0 AL A:ALF501 3.4 0.3 1.0 CG2 A:THR73 3.5 0.9 1.0 PB A:ADP502 3.5 0.8 1.0 OD2 A:ASP144 3.7 0.9 1.0 PA A:ADP502 3.8 0.4 1.0 OD1 A:ASP144 3.9 0.5 1.0 O3A A:ADP502 4.0 0.3 1.0 O3B A:ADP502 4.0 0.5 1.0 NZ A:LYS1250 4.0 0.5 1.0 CA A:THR73 4.1 0.2 1.0 CD A:GLU96 4.1 0.9 1.0 O1A A:ADP502 4.2 0.3 1.0 N A:THR73 4.2 0.9 1.0 CG A:ASP144 4.3 0.9 1.0 F4 A:ALF501 4.4 0.8 1.0 CD A:LYS1250 4.5 0.2 1.0 OE2 A:GLU96 4.5 0.8 1.0 CG A:LYS1250 4.6 0.9 1.0 O2B A:ADP502 4.7 0.1 1.0 O A:ALA98 4.9 0.1 1.0

Magnesium binding site 2 out of 6 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1500 b:0.2 occ:1.00 F2 A:ALF1501 2.0 0.6 1.0 OG1 A:THR1073 2.1 0.6 1.0 O1B A:ADP1502 2.2 1.0 1.0 CB A:THR1073 2.6 0.2 1.0 O2A A:ADP1502 2.8 0.1 1.0 F3 A:ALF1501 3.1 0.2 1.0 OE1 A:GLU1096 3.2 0.8 1.0 CE A:LYS2250 3.2 0.8 1.0 CG2 A:THR1073 3.4 0.2 1.0 AL A:ALF1501 3.4 0.7 1.0 PB A:ADP1502 3.4 0.9 1.0 OD2 A:ASP1144 3.8 0.0 1.0 PA A:ADP1502 3.8 0.6 1.0 O3A A:ADP1502 3.9 0.1 1.0 CA A:THR1073 3.9 0.8 1.0 NZ A:LYS2250 3.9 0.5 1.0 O3B A:ADP1502 3.9 0.1 1.0 OD1 A:ASP1144 4.0 0.4 1.0 N A:THR1073 4.1 0.1 1.0 O1A A:ADP1502 4.3 0.8 1.0 CD A:GLU1096 4.3 0.5 1.0 CG A:ASP1144 4.4 0.9 1.0 F4 A:ALF1501 4.4 1.0 1.0 CD A:LYS2250 4.4 0.2 1.0 CG A:LYS2250 4.5 0.7 1.0 O2B A:ADP1502 4.7 0.1 1.0 OE2 A:GLU1096 4.7 0.7 1.0 C A:THR1073 5.0 0.9 1.0 O A:ALA1098 5.0 0.6 1.0

Magnesium binding site 3 out of 6 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2500 b:0.5 occ:1.00 F2 A:ALF2501 2.0 0.8 1.0 OG1 A:THR2073 2.1 0.1 1.0 O1B A:ADP2502 2.2 0.6 1.0 CB A:THR2073 2.8 0.1 1.0 OE1 A:GLU2096 2.9 0.8 1.0 O2A A:ADP2502 2.9 0.2 1.0 CE A:LYS3250 3.0 0.5 1.0 F3 A:ALF2501 3.2 0.5 1.0 AL A:ALF2501 3.4 0.7 1.0 PB A:ADP2502 3.5 0.5 1.0 NZ A:LYS3250 3.6 0.3 1.0 CG2 A:THR2073 3.6 0.5 1.0 OD2 A:ASP2144 3.8 0.1 1.0 OD1 A:ASP2144 3.8 0.7 1.0 PA A:ADP2502 3.8 0.2 1.0 O3A A:ADP2502 3.9 0.7 1.0 CD A:GLU2096 3.9 0.2 1.0 O3B A:ADP2502 4.0 0.2 1.0 CA A:THR2073 4.0 0.7 1.0 N A:THR2073 4.1 0.2 1.0 CG A:ASP2144 4.2 0.1 1.0 CD A:LYS3250 4.2 0.9 1.0 O1A A:ADP2502 4.3 0.1 1.0 OE2 A:GLU2096 4.3 0.3 1.0 CG A:LYS3250 4.4 0.6 1.0 F4 A:ALF2501 4.4 0.5 1.0 O2B A:ADP2502 4.7 0.6 1.0

Magnesium binding site 4 out of 6 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3500 b:0.4 occ:1.00 F2 A:ALF3501 2.0 0.8 1.0 OG1 A:THR3073 2.1 0.9 1.0 O1B A:ADP3502 2.2 0.2 1.0 CB A:THR3073 2.6 0.4 1.0 O2A A:ADP3502 2.9 0.2 1.0 F3 A:ALF3501 3.2 0.0 1.0 CE A:LYS4250 3.2 0.1 1.0 OE1 A:GLU3096 3.2 0.5 1.0 CG2 A:THR3073 3.4 0.2 1.0 AL A:ALF3501 3.4 0.5 1.0 PB A:ADP3502 3.5 0.2 1.0 PA A:ADP3502 3.8 0.1 1.0 OD2 A:ASP3144 3.8 0.2 1.0 CA A:THR3073 3.9 0.7 1.0 O3A A:ADP3502 3.9 0.8 1.0 O3B A:ADP3502 4.0 0.8 1.0 NZ A:LYS4250 4.0 0.9 1.0 N A:THR3073 4.0 0.6 1.0 OD1 A:ASP3144 4.1 0.9 1.0 O1A A:ADP3502 4.2 0.6 1.0 CD A:GLU3096 4.4 0.6 1.0 F4 A:ALF3501 4.4 0.2 1.0 CG A:ASP3144 4.4 0.3 1.0 CD A:LYS4250 4.5 0.6 1.0 CG A:LYS4250 4.5 0.8 1.0 OE2 A:GLU3096 4.7 0.1 1.0 O2B A:ADP3502 4.7 0.4 1.0 C A:THR3073 4.9 0.8 1.0

Magnesium binding site 5 out of 6 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg4500 b:0.1 occ:1.00 F2 A:ALF4501 2.0 0.7 1.0 OG1 A:THR4073 2.2 0.4 1.0 O1B A:ADP4502 2.2 0.8 1.0 CB A:THR4073 2.6 0.9 1.0 O2A A:ADP4502 2.8 0.8 1.0 F3 A:ALF4501 3.0 0.2 1.0 OE1 A:GLU4096 3.1 0.2 1.0 CE A:LYS5250 3.2 0.1 1.0 AL A:ALF4501 3.4 0.7 1.0 CG2 A:THR4073 3.4 0.6 1.0 PB A:ADP4502 3.5 0.7 1.0 PA A:ADP4502 3.8 1.0 1.0 OD2 A:ASP4144 3.8 0.2 1.0 O3A A:ADP4502 3.9 0.5 1.0 NZ A:LYS5250 3.9 1.0 1.0 CA A:THR4073 4.0 0.3 1.0 O3B A:ADP4502 4.0 0.5 1.0 OD1 A:ASP4144 4.0 1.0 1.0 N A:THR4073 4.1 0.7 1.0 CD A:GLU4096 4.2 0.8 1.0 O1A A:ADP4502 4.2 0.2 1.0 CG A:ASP4144 4.4 0.1 1.0 CD A:LYS5250 4.4 0.9 1.0 F4 A:ALF4501 4.4 0.5 1.0 CG A:LYS5250 4.5 0.7 1.0 OE2 A:GLU4096 4.6 0.4 1.0 O2B A:ADP4502 4.8 0.6 1.0 O A:ALA4098 5.0 0.9 1.0

Magnesium binding site 6 out of 6 in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg5500 b:53.4 occ:1.00 F2 A:ALF5501 2.2 0.7 1.0 O1B A:ADP5502 2.3 0.5 1.0 OG1 A:THR5073 2.3 0.6 1.0 O2A A:ADP5502 2.7 0.2 1.0 OE1 A:GLU5096 2.7 0.3 1.0 CB A:THR5073 3.0 0.4 1.0 F3 A:ALF5501 3.5 0.5 1.0 PB A:ADP5502 3.6 0.4 1.0 PA A:ADP5502 3.7 0.2 1.0 AL A:ALF5501 3.8 0.1 1.0 OD2 A:ASP5144 3.8 0.8 1.0 CG2 A:THR5073 3.8 0.9 1.0 CD A:GLU5096 3.8 0.4 1.0 OD1 A:ASP5144 3.9 0.7 1.0 O3A A:ADP5502 3.9 0.3 1.0 O1A A:ADP5502 4.1 0.2 1.0 O3B A:ADP5502 4.1 0.5 1.0 OE2 A:GLU5096 4.2 0.6 1.0 CA A:THR5073 4.3 0.7 1.0 CG A:ASP5144 4.3 0.7 1.0 N A:THR5073 4.4 0.2 1.0 F4 A:ALF5501 4.8 0.3 1.0 O2B A:ADP5502 4.8 0.2 1.0

Z.Chen, H.Yang, N.P.Pavletich. Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures. Nature V. 453 489 2008.
ISSN: ISSN 0028-0836
PubMed: 18497818
DOI: 10.1038/NATURE06971