Atomistry » Magnesium » PDB 3cfx-3cpj » 3cmw
Atomistry »
  Magnesium »
    PDB 3cfx-3cpj »
      3cmw »

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

Protein crystallography data

The structure of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures, PDB code: 3cmw 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) 20.00 / 2.80
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 159.000, 300.500, 80.100, 90.00, 90.00, 90.00
R / Rfree (%) 21.4 / 23.6

Other elements in 3cmw:

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

Fluorine (F) 40 atoms
Aluminium (Al) 10 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures (pdb code 3cmw). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 10 binding sites of Magnesium where determined in the Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures, PDB code: 3cmw:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 1 out of 10 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:57.2
occ:1.00
 F2 A:ALF501 2.0 64.9 1.0
OG1 A:THR73 2.1 60.0 1.0
O1B A:ADP502 2.2 52.0 1.0
CB A:THR73 3.2 58.8 1.0
PB A:ADP502 3.3 55.8 1.0
O3B A:ADP502 3.4 56.6 1.0
AL A:ALF501 3.5 60.7 1.0
OE1 A:GLU96 3.6 69.2 1.0
F4 A:ALF501 3.6 62.0 1.0
OD1 A:ASP144 3.8 72.7 1.0
O2A A:ADP502 3.8 57.0 1.0
OD2 A:ASP144 3.9 75.6 1.0
N A:THR73 4.0 57.8 1.0
CE A:LYS1250 4.1 60.9 1.0
CA A:THR73 4.1 57.8 1.0
NZ A:LYS1250 4.2 62.2 1.0
CG2 A:THR73 4.3 58.5 1.0
CG A:ASP144 4.3 70.9 1.0
F3 A:ALF501 4.3 60.3 1.0
O2B A:ADP502 4.4 54.7 1.0
O3A A:ADP502 4.5 52.6 1.0
PA A:ADP502 4.6 54.6 1.0
CD A:GLU96 4.6 66.2 1.0
OE2 A:GLU96 4.9 67.5 1.0
O1A A:ADP502 4.9 55.5 1.0

Magnesium binding site 2 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 2 out of 10 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:47.4
occ:1.00
 F2 A:ALF1501 1.9 53.5 1.0
OG1 A:THR1073 2.1 59.0 1.0
O1B A:ADP1502 2.2 43.9 1.0
CB A:THR1073 3.3 59.0 1.0
PB A:ADP1502 3.4 45.1 1.0
F4 A:ALF1501 3.4 48.7 1.0
OE1 A:GLU1096 3.4 75.8 1.0
AL A:ALF1501 3.5 45.9 1.0
O3B A:ADP1502 3.5 46.2 1.0
OD1 A:ASP1144 3.5 77.1 1.0
OD2 A:ASP1144 3.7 81.3 1.0
N A:THR1073 4.0 57.2 1.0
O2A A:ADP1502 4.0 39.2 1.0
CG A:ASP1144 4.1 74.9 1.0
CA A:THR1073 4.2 57.8 1.0
CE A:LYS2250 4.3 60.1 1.0
F3 A:ALF1501 4.3 47.9 1.0
CG2 A:THR1073 4.4 60.4 1.0
O2B A:ADP1502 4.4 43.6 1.0
NZ A:LYS2250 4.4 63.8 1.0
CD A:GLU1096 4.4 67.6 1.0
O3A A:ADP1502 4.5 42.8 1.0
OE2 A:GLU1096 4.7 67.1 1.0
PA A:ADP1502 4.8 40.3 1.0
CB A:LYS1072 5.0 56.7 1.0

Magnesium binding site 3 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 3 out of 10 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:42.2
occ:1.00
 F2 A:ALF2501 2.0 48.0 1.0
OG1 A:THR2073 2.1 57.1 1.0
O1B A:ADP2502 2.1 41.0 1.0
CB A:THR2073 3.2 59.3 1.0
PB A:ADP2502 3.3 41.6 1.0
O3B A:ADP2502 3.4 42.4 1.0
AL A:ALF2501 3.5 40.4 1.0
F4 A:ALF2501 3.6 45.6 1.0
OE1 A:GLU2096 3.6 70.5 1.0
O2A A:ADP2502 3.7 40.0 1.0
OD1 A:ASP2144 3.8 80.1 1.0
OD2 A:ASP2144 3.9 78.4 1.0
N A:THR2073 4.0 59.0 1.0
CA A:THR2073 4.1 59.9 1.0
CE A:LYS3250 4.2 60.4 1.0
CG2 A:THR2073 4.3 58.6 1.0
CG A:ASP2144 4.3 75.5 1.0
F3 A:ALF2501 4.3 44.5 1.0
NZ A:LYS3250 4.3 64.9 1.0
O3A A:ADP2502 4.4 38.1 1.0
O2B A:ADP2502 4.5 43.2 1.0
PA A:ADP2502 4.5 38.8 1.0
CD A:GLU2096 4.6 66.0 1.0
OE2 A:GLU2096 4.9 66.8 1.0
O1A A:ADP2502 4.9 37.0 1.0

Magnesium binding site 4 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 4 out of 10 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:46.4
occ:1.00
 F2 A:ALF3501 2.0 51.4 1.0
O1B A:ADP3502 2.2 39.4 1.0
OG1 A:THR3073 2.2 61.7 1.0
CB A:THR3073 3.2 60.2 1.0
PB A:ADP3502 3.4 34.3 1.0
AL A:ALF3501 3.6 42.6 1.0
O3B A:ADP3502 3.6 36.2 1.0
OE1 A:GLU3096 3.6 69.6 1.0
O2A A:ADP3502 3.6 34.4 1.0
F4 A:ALF3501 3.8 46.9 1.0
CE A:LYS4250 3.9 62.2 1.0
OD1 A:ASP3144 4.0 76.0 1.0
OD2 A:ASP3144 4.0 77.1 1.0
N A:THR3073 4.1 59.8 1.0
NZ A:LYS4250 4.1 67.4 1.0
CA A:THR3073 4.2 59.8 1.0
F3 A:ALF3501 4.2 49.4 1.0
CG2 A:THR3073 4.2 58.2 1.0
O3A A:ADP3502 4.4 33.0 1.0
CG A:ASP3144 4.4 73.9 1.0
PA A:ADP3502 4.5 35.5 1.0
O2B A:ADP3502 4.5 37.1 1.0
CD A:GLU3096 4.7 64.5 1.0
O1A A:ADP3502 4.9 32.4 1.0
OE2 A:GLU3096 5.0 66.2 1.0

Magnesium binding site 5 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 5 out of 10 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:60.2
occ:1.00
 F2 A:ALF4501 1.9 78.4 1.0
O1B A:ADP4502 2.1 47.9 1.0
OG1 A:THR4073 2.3 57.9 1.0
CB A:THR4073 3.4 58.6 1.0
PB A:ADP4502 3.4 50.6 1.0
OE1 A:GLU4096 3.5 77.2 1.0
AL A:ALF4501 3.6 82.0 1.0
O3B A:ADP4502 3.7 53.2 1.0
F4 A:ALF4501 3.8 79.3 1.0
O2A A:ADP4502 3.8 53.5 1.0
OD1 A:ASP4144 3.9 72.9 1.0
OD2 A:ASP4144 4.0 77.5 1.0
N A:THR4073 4.2 58.2 1.0
F3 A:ALF4501 4.3 80.7 1.0
CA A:THR4073 4.3 59.0 1.0
CG A:ASP4144 4.4 73.3 1.0
CG2 A:THR4073 4.4 58.9 1.0
O2B A:ADP4502 4.5 52.4 1.0
O3A A:ADP4502 4.5 49.9 1.0
CD A:GLU4096 4.5 70.3 1.0
PA A:ADP4502 4.7 52.1 1.0
OE2 A:GLU4096 4.8 72.3 1.0

Magnesium binding site 6 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 6 out of 10 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
C:Mg500

b:50.4
occ:1.00
 F2 C:ALF501 2.0 52.2 1.0
OG1 C:THR73 2.2 63.3 1.0
O1B C:ADP502 2.2 40.3 1.0
CB C:THR73 3.3 60.6 1.0
PB C:ADP502 3.3 38.7 1.0
O3B C:ADP502 3.4 37.9 1.0
OE1 C:GLU96 3.5 73.0 1.0
AL C:ALF501 3.6 44.3 1.0
F4 C:ALF501 3.8 49.8 1.0
O2A C:ADP502 3.9 39.5 1.0
OD1 C:ASP144 3.9 75.6 1.0
OD2 C:ASP144 3.9 78.4 1.0
CE C:LYS1250 3.9 65.0 1.0
N C:THR73 4.1 59.6 1.0
NZ C:LYS1250 4.2 71.9 1.0
CA C:THR73 4.2 60.2 1.0
F3 C:ALF501 4.2 49.6 1.0
CG2 C:THR73 4.3 59.9 1.0
CG C:ASP144 4.3 73.6 1.0
O3A C:ADP502 4.4 39.5 1.0
O2B C:ADP502 4.5 40.1 1.0
CD C:GLU96 4.6 69.4 1.0
PA C:ADP502 4.6 37.5 1.0
OE2 C:GLU96 4.9 70.5 1.0

Magnesium binding site 7 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 7 out of 10 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 7 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1500

b:45.4
occ:1.00
 F2 C:ALF1501 2.0 46.3 1.0
OG1 C:THR1073 2.2 59.3 1.0
O1B C:ADP1502 2.2 38.8 1.0
CB C:THR1073 3.3 59.1 1.0
PB C:ADP1502 3.4 37.4 1.0
F4 C:ALF1501 3.5 47.5 1.0
OE1 C:GLU1096 3.5 72.5 1.0
AL C:ALF1501 3.5 40.2 1.0
O3B C:ADP1502 3.6 37.3 1.0
OD1 C:ASP1144 3.7 72.6 1.0
OD2 C:ASP1144 3.8 78.9 1.0
N C:THR1073 4.0 59.5 1.0
O2A C:ADP1502 4.0 41.8 1.0
CA C:THR1073 4.2 59.9 1.0
CG C:ASP1144 4.2 72.7 1.0
CE C:LYS2250 4.3 62.0 1.0
F3 C:ALF1501 4.4 44.4 1.0
CG2 C:THR1073 4.4 55.9 1.0
NZ C:LYS2250 4.5 70.2 1.0
O3A C:ADP1502 4.5 40.9 1.0
CD C:GLU1096 4.5 68.3 1.0
O2B C:ADP1502 4.5 37.5 1.0
PA C:ADP1502 4.7 37.8 1.0
OE2 C:GLU1096 4.7 71.3 1.0
CB C:LYS1072 4.9 55.9 1.0

Magnesium binding site 8 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 8 out of 10 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 8 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg2500

b:48.9
occ:1.00
 F2 C:ALF2501 1.9 50.7 1.0
OG1 C:THR2073 2.2 57.4 1.0
O1B C:ADP2502 2.2 49.4 1.0
CB C:THR2073 3.2 57.8 1.0
PB C:ADP2502 3.4 46.8 1.0
AL C:ALF2501 3.5 45.6 1.0
O3B C:ADP2502 3.6 45.2 1.0
OE1 C:GLU2096 3.6 68.2 1.0
O2A C:ADP2502 3.7 49.2 1.0
F4 C:ALF2501 3.7 47.8 1.0
CE C:LYS3250 3.9 58.4 1.0
OD2 C:ASP2144 4.0 78.8 1.0
OD1 C:ASP2144 4.0 80.0 1.0
N C:THR2073 4.1 58.3 1.0
NZ C:LYS3250 4.1 63.2 1.0
F3 C:ALF2501 4.2 50.2 1.0
CG2 C:THR2073 4.2 59.7 1.0
CA C:THR2073 4.2 58.6 1.0
CG C:ASP2144 4.4 75.9 1.0
O3A C:ADP2502 4.4 46.4 1.0
O2B C:ADP2502 4.5 46.0 1.0
PA C:ADP2502 4.5 45.1 1.0
CD C:GLU2096 4.7 65.9 1.0
O1A C:ADP2502 4.9 46.3 1.0

Magnesium binding site 9 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 9 out of 10 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 9 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg3500

b:45.3
occ:1.00
 F2 C:ALF3501 2.0 52.9 1.0
O1B C:ADP3502 2.2 40.5 1.0
OG1 C:THR3073 2.2 59.3 1.0
CB C:THR3073 3.1 58.2 1.0
O2A C:ADP3502 3.3 46.3 1.0
PB C:ADP3502 3.3 44.2 1.0
O3B C:ADP3502 3.5 42.2 1.0
AL C:ALF3501 3.5 47.7 1.0
CE C:LYS4250 3.7 65.3 1.0
OE1 C:GLU3096 3.8 72.8 1.0
F4 C:ALF3501 4.0 49.9 1.0
F3 C:ALF3501 4.0 52.8 1.0
NZ C:LYS4250 4.0 66.0 1.0
OD2 C:ASP3144 4.1 76.0 1.0
N C:THR3073 4.1 57.2 1.0
CG2 C:THR3073 4.1 59.4 1.0
CA C:THR3073 4.2 58.3 1.0
OD1 C:ASP3144 4.2 73.8 1.0
O3A C:ADP3502 4.2 46.5 1.0
PA C:ADP3502 4.3 47.3 1.0
CG C:ASP3144 4.6 72.4 1.0
O2B C:ADP3502 4.6 44.4 1.0
CD C:GLU3096 4.9 66.7 1.0
O1A C:ADP3502 4.9 43.9 1.0

Magnesium binding site 10 out of 10 in 3cmw

Go back to Magnesium Binding Sites List in 3cmw
Magnesium binding site 10 out of 10 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 10 of Mechanism of Homologous Recombination From the Reca-Ssdna/Dsdna Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg4500

b:56.9
occ:1.00
 F2 C:ALF4501 2.0 67.3 1.0
OG1 C:THR4073 2.2 57.7 1.0
O1B C:ADP4502 2.2 56.9 1.0
CB C:THR4073 3.3 57.8 1.0
PB C:ADP4502 3.5 58.0 1.0
OE1 C:GLU4096 3.5 74.8 1.0
O3B C:ADP4502 3.7 61.9 1.0
AL C:ALF4501 3.7 71.9 1.0
O2A C:ADP4502 3.8 56.5 1.0
OD1 C:ASP4144 3.8 75.5 1.0
F4 C:ALF4501 3.9 73.9 1.0
OD2 C:ASP4144 3.9 78.0 1.0
N C:THR4073 4.1 58.7 1.0
CA C:THR4073 4.2 58.4 1.0
CG C:ASP4144 4.3 73.9 1.0
CG2 C:THR4073 4.3 58.2 1.0
F3 C:ALF4501 4.4 75.8 1.0
O3A C:ADP4502 4.5 58.9 1.0
PA C:ADP4502 4.5 58.8 1.0
CD C:GLU4096 4.5 69.6 1.0
O2B C:ADP4502 4.6 54.9 1.0
OE2 C:GLU4096 4.8 71.6 1.0
O1A C:ADP4502 4.9 60.1 1.0

Reference:

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
Page generated: Wed Aug 14 11:29:51 2024

Last articles

Ca in 2WXT
Ca in 2WW8
Ca in 2WVZ
Ca in 2WVX
Ca in 2WUV
Ca in 2WUW
Ca in 2WTF
Ca in 2WR9
Ca in 2WRA
Ca in 2WQZ
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy