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Magnesium in PDB 2cnw: GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy

Protein crystallography data

The structure of GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy, PDB code: 2cnw was solved by P.J.Focia, J.Gawronski-Salerno, J.S.Coon V, D.M.Freymann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 14.68 / 2.39
Space group P 32
Cell size a, b, c (Å), α, β, γ (°) 188.686, 188.686, 44.588, 90.00, 90.00, 120.00
R / Rfree (%) 18.3 / 25.3

Other elements in 2cnw:

The structure of GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy also contains other interesting chemical elements:

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

Magnesium Binding Sites:

The binding sites of Magnesium atom in the GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy (pdb code 2cnw). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy, PDB code: 2cnw:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 2cnw

Go back to Magnesium Binding Sites List in 2cnw
Magnesium binding site 1 out of 6 in the GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1002

b:12.8
occ:1.00
 F3 A:ALF1007 2.0 13.6 1.0
O A:HOH2058 2.1 13.1 1.0
O3B A:GDP1001 2.1 9.5 1.0
OG1 A:THR112 2.1 14.9 1.0
O A:HOH2038 2.1 10.9 1.0
O A:HOH2085 2.1 13.7 1.0
CB A:THR112 3.1 14.9 1.0
PB A:GDP1001 3.2 10.6 1.0
F4 A:ALF1007 3.2 16.5 1.0
O2B A:GDP1001 3.3 12.5 1.0
AL A:ALF1007 3.4 16.6 1.0
N A:THR112 3.9 14.6 1.0
OD2 A:ASP187 4.0 25.0 1.0
OD1 A:ASP187 4.0 24.2 1.0
CA A:THR112 4.0 14.5 1.0
O2A A:GDP1001 4.1 8.7 1.0
O A:HOH2086 4.1 15.3 1.0
O3A A:GDP1001 4.2 10.1 1.0
CG2 A:THR112 4.2 12.9 1.0
OD2 A:ASP135 4.3 20.7 1.0
F2 A:ALF1007 4.3 17.8 1.0
NH1 A:ARG138 4.3 12.3 1.0
O1B A:GDP1001 4.3 8.9 1.0
OE1 A:GLN144 4.4 15.6 1.0
PA A:GDP1001 4.4 9.8 1.0
O A:HOH2048 4.4 11.1 1.0
CG A:ASP187 4.5 23.4 1.0
CD A:ARG138 4.5 18.6 1.0
O1A A:GDP1001 4.5 10.5 1.0
CZ A:ARG138 4.7 16.5 1.0
NE A:ARG138 4.8 17.3 1.0

Magnesium binding site 2 out of 6 in 2cnw

Go back to Magnesium Binding Sites List in 2cnw
Magnesium binding site 2 out of 6 in the GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1002

b:17.2
occ:1.00
 F3 B:ALF1007 2.0 19.9 1.0
OG1 B:THR112 2.1 16.8 1.0
O B:HOH2064 2.1 14.8 1.0
O B:HOH2046 2.1 14.2 1.0
O B:HOH2027 2.1 14.3 1.0
O3B B:GDP1001 2.1 13.3 1.0
F4 B:ALF1007 3.1 20.4 1.0
CB B:THR112 3.2 16.2 1.0
PB B:GDP1001 3.2 14.2 1.0
AL B:ALF1007 3.4 18.9 1.0
O2B B:GDP1001 3.4 15.5 1.0
N B:THR112 3.8 16.2 1.0
CA B:THR112 4.1 16.1 1.0
OD2 B:ASP187 4.1 26.9 1.0
OD1 B:ASP187 4.1 27.7 1.0
OD2 B:ASP135 4.2 22.1 1.0
O B:HOH2065 4.2 18.2 1.0
O3A B:GDP1001 4.2 14.1 1.0
O2A B:GDP1001 4.3 13.1 1.0
CG2 B:THR112 4.3 14.2 1.0
O1B B:GDP1001 4.3 13.5 1.0
NH1 B:ARG138 4.4 20.7 1.0
F2 B:ALF1007 4.4 19.1 1.0
O B:HOH2036 4.4 23.0 1.0
OE1 B:GLN144 4.5 19.1 1.0
PA B:GDP1001 4.5 13.5 1.0
CG B:ASP187 4.5 25.9 1.0
O1A B:GDP1001 4.5 14.8 1.0
CD B:ARG138 4.6 19.8 1.0
CZ B:ARG138 4.8 21.6 1.0
NE B:ARG138 4.8 20.6 1.0
C B:LYS111 5.0 16.1 1.0

Magnesium binding site 3 out of 6 in 2cnw

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Magnesium binding site 3 out of 6 in the GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1002

b:18.5
occ:1.00
 F3 C:ALF1007 2.0 18.8 1.0
O3B C:GDP1001 2.1 15.5 1.0
OG1 C:THR112 2.1 18.5 1.0
O C:HOH2117 2.1 19.0 1.0
O C:HOH2053 2.1 16.9 1.0
O C:HOH2082 2.1 18.6 1.0
CB C:THR112 3.1 18.9 1.0
F4 C:ALF1007 3.2 20.4 1.0
PB C:GDP1001 3.2 14.8 1.0
AL C:ALF1007 3.3 18.8 1.0
O2B C:GDP1001 3.3 16.5 1.0
N C:THR112 3.9 19.1 1.0
OD1 C:ASP187 4.0 30.3 1.0
CA C:THR112 4.0 18.8 1.0
O2A C:GDP1001 4.1 14.4 1.0
OD2 C:ASP187 4.1 28.3 1.0
O3A C:GDP1001 4.2 17.0 1.0
O C:HOH2081 4.2 31.4 1.0
O C:HOH2054 4.2 24.1 1.0
CG2 C:THR112 4.2 17.0 1.0
OD2 C:ASP135 4.3 29.4 1.0
NH1 C:ARG138 4.3 21.6 1.0
O1B C:GDP1001 4.3 16.5 1.0
F2 C:ALF1007 4.3 19.5 1.0
O1A C:GDP1001 4.4 14.2 1.0
PA C:GDP1001 4.4 13.3 1.0
CG C:ASP187 4.5 26.9 1.0
OE1 C:GLN144 4.6 20.1 1.0
CD C:ARG138 4.6 24.5 1.0
CZ C:ARG138 4.7 21.8 1.0
NE C:ARG138 4.9 23.8 1.0
F1 C:ALF1007 5.0 22.4 1.0
C C:LYS111 5.0 19.5 1.0

Magnesium binding site 4 out of 6 in 2cnw

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Magnesium binding site 4 out of 6 in the GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1002

b:13.2
occ:1.00
 F3 D:ALF1007 1.9 13.5 1.0
O3B D:GDP1001 2.0 10.7 1.0
OG1 D:THR116 2.0 13.2 1.0
O D:HOH2057 2.1 14.3 1.0
O D:HOH2035 2.1 12.5 1.0
O D:HOH2098 2.1 9.7 1.0
CB D:THR116 3.1 14.2 1.0
PB D:GDP1001 3.3 10.3 1.0
F4 D:ALF1007 3.4 14.5 1.0
AL D:ALF1007 3.4 12.9 1.0
O2B D:GDP1001 3.6 9.8 1.0
OD2 D:ASP191 3.9 19.0 1.0
NH1 D:ARG142 4.0 17.2 1.0
N D:THR116 4.0 14.7 1.0
OD2 D:ASP139 4.0 18.8 1.0
CA D:THR116 4.1 14.2 1.0
O2A D:GDP1001 4.1 12.5 1.0
CG2 D:THR116 4.2 12.6 1.0
O3A D:GDP1001 4.2 13.2 1.0
OD1 D:ASP191 4.3 21.1 1.0
O D:HOH2033 4.3 24.0 1.0
F2 D:ALF1007 4.3 16.9 1.0
O1B D:GDP1001 4.4 10.5 1.0
OE1 D:GLN148 4.4 22.4 1.0
PA D:GDP1001 4.5 9.9 1.0
CG D:ASP191 4.5 21.0 1.0
O1A D:GDP1001 4.5 11.6 1.0
O D:GLY145 4.7 17.8 1.0
CB D:ASP139 4.7 20.0 1.0
O D:HOH2099 4.8 9.6 1.0
CG D:ASP139 4.9 20.0 1.0
CD D:GLN148 4.9 20.5 1.0
CZ D:ARG142 5.0 16.7 1.0
O D:HOH2058 5.0 21.4 1.0

Magnesium binding site 5 out of 6 in 2cnw

Go back to Magnesium Binding Sites List in 2cnw
Magnesium binding site 5 out of 6 in the GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg1002

b:15.4
occ:1.00
 F3 E:ALF1007 2.0 14.3 1.0
O E:HOH2030 2.1 10.2 1.0
OG1 E:THR116 2.1 17.2 1.0
O E:HOH2056 2.1 12.8 1.0
O3B E:GDP1001 2.1 15.2 1.0
O E:HOH2094 2.1 12.4 1.0
CB E:THR116 3.0 17.9 1.0
PB E:GDP1001 3.3 12.6 1.0
O2B E:GDP1001 3.4 13.6 1.0
F4 E:ALF1007 3.4 16.0 1.0
AL E:ALF1007 3.5 15.1 1.0
N E:THR116 3.8 18.1 1.0
OD2 E:ASP191 3.8 25.9 1.0
CA E:THR116 3.9 17.9 1.0
NH1 E:ARG142 4.0 18.0 1.0
OD2 E:ASP139 4.1 14.2 1.0
O2A E:GDP1001 4.1 11.0 1.0
CG2 E:THR116 4.1 17.8 1.0
OD1 E:ASP191 4.2 23.8 1.0
O3A E:GDP1001 4.2 14.9 1.0
O E:HOH2031 4.3 13.0 1.0
O1B E:GDP1001 4.4 16.9 1.0
F2 E:ALF1007 4.4 11.4 1.0
PA E:GDP1001 4.4 12.2 1.0
O1A E:GDP1001 4.4 12.9 1.0
CG E:ASP191 4.5 23.4 1.0
OE1 E:GLN148 4.6 20.1 1.0
CB E:ASP139 4.7 20.0 1.0
O E:GLY145 4.8 18.7 1.0
CG E:ASP139 4.8 20.0 1.0
C E:LYS115 4.9 18.0 1.0
O E:THR192 5.0 20.6 1.0

Magnesium binding site 6 out of 6 in 2cnw

Go back to Magnesium Binding Sites List in 2cnw
Magnesium binding site 6 out of 6 in the GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of GDPALF4 Complex of the Srp Gtpases Ffh and Ftsy within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg1002

b:15.9
occ:1.00
 F3 F:ALF1007 2.0 16.8 1.0
O F:HOH2027 2.1 13.3 1.0
OG1 F:THR116 2.1 16.8 1.0
O F:HOH2071 2.1 15.4 1.0
O3B F:GDP1001 2.1 13.4 1.0
O F:HOH2046 2.1 15.3 1.0
CB F:THR116 3.1 18.6 1.0
PB F:GDP1001 3.3 15.4 1.0
F4 F:ALF1007 3.3 16.7 1.0
AL F:ALF1007 3.5 15.4 1.0
O2B F:GDP1001 3.5 16.6 1.0
OD2 F:ASP191 3.9 22.9 1.0
NH1 F:ARG142 3.9 16.3 1.0
OD2 F:ASP139 3.9 22.0 1.0
N F:THR116 4.0 19.3 1.0
CG2 F:THR116 4.1 17.2 1.0
CA F:THR116 4.1 18.7 1.0
OD1 F:ASP191 4.3 28.7 1.0
O2A F:GDP1001 4.3 12.3 1.0
O3A F:GDP1001 4.3 15.5 1.0
O F:HOH2028 4.3 16.9 1.0
F2 F:ALF1007 4.4 15.1 1.0
O1B F:GDP1001 4.4 17.3 1.0
CG F:ASP191 4.5 24.7 1.0
O1A F:GDP1001 4.5 15.3 1.0
PA F:GDP1001 4.5 12.4 1.0
OE1 F:GLN148 4.6 24.3 1.0
CB F:ASP139 4.6 24.1 1.0
CG F:ASP139 4.8 23.4 1.0
O F:GLY145 4.8 17.9 1.0
O F:THR192 4.9 22.4 1.0
CZ F:ARG142 5.0 18.6 1.0

Reference:

P.J.Focia, J.Gawronski-Salerno, J.S.Coon V, D.M.Freymann. Structure of A Gdp:Alf(4) Complex of the Srp Gtpases Ffh and Ftsy, and Identification of A Peripheral Nucleotide Interaction Site. J.Mol.Biol. V. 360 631 2006.
ISSN: ISSN 0022-2836
PubMed: 16780874
DOI: 10.1016/J.JMB.2006.05.031
Page generated: Mon Dec 14 07:19:29 2020

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