Atomistry » Calcium » PDB 2bw7-2c4x » 2c3o
Atomistry »
  Calcium »
    PDB 2bw7-2c4x »
      2c3o »

Calcium in PDB 2c3o: Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus

Enzymatic activity of Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus

All present enzymatic activity of Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus:
1.2.7.1;

Protein crystallography data

The structure of Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus, PDB code: 2c3o was solved by C.Cavazza, C.Contreras-Martel, L.Pieulle, E.Chabriere, E.C.Hatchikian, J.C.Fontecilla-Camps, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.11 / 2.7
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 85.650, 145.236, 204.293, 90.00, 90.00, 90.00
R / Rfree (%) 20.5 / 26.8

Other elements in 2c3o:

The structure of Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Iron (Fe) 24 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus (pdb code 2c3o). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus, PDB code: 2c3o:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 2c3o

Go back to Calcium Binding Sites List in 2c3o
Calcium binding site 1 out of 2 in the Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2238

b:61.2
occ:1.00
 O A:PHE1059 2.5 27.6 1.0
OD2 A:ASP983 2.5 17.7 1.0
O A:GLY1061 2.7 10.2 1.0
OD1 A:ASN985 2.9 14.4 1.0
O A:ALA1056 3.3 24.5 1.0
OG A:SER1063 3.3 31.9 1.0
O A:GLU1057 3.4 25.8 1.0
C A:PHE1059 3.7 19.0 1.0
CG A:ASP983 3.7 16.5 1.0
CG A:ASN985 3.8 8.2 1.0
C A:GLY1061 3.9 10.8 1.0
N A:GLY1061 3.9 10.2 1.0
O A:VAL984 3.9 18.2 1.0
ND2 A:ASN985 4.0 2.1 1.0
C A:GLU1057 4.0 19.8 1.0
N A:VAL984 4.2 10.9 1.0
CB A:SER1063 4.2 19.8 1.0
CB A:PHE1059 4.3 15.2 1.0
CA A:GLU1057 4.3 17.5 1.0
CA A:ASP983 4.3 12.3 1.0
CA A:PHE1059 4.3 18.3 1.0
N A:PHE1059 4.3 19.3 1.0
C A:ASP983 4.3 12.2 1.0
C A:VAL984 4.4 16.8 1.0
C A:ALA1056 4.4 18.1 1.0
CA A:GLY1061 4.5 6.1 1.0
OD1 A:ASP983 4.5 16.4 1.0
CB A:ASP983 4.6 10.7 1.0
N A:PRO1060 4.7 14.7 1.0
CD2 A:PHE1059 4.7 20.5 1.0
N A:SER1063 4.8 17.3 1.0
N A:GLU1057 4.8 16.2 1.0
CA A:VAL984 4.8 13.0 1.0
C A:PRO1060 4.9 13.0 1.0
C A:SER1058 4.9 20.0 1.0
CA A:PRO1060 4.9 12.7 1.0
N A:PRO1062 4.9 10.8 1.0
CG A:PHE1059 5.0 17.9 1.0
C A:PRO1062 5.0 16.6 1.0
N A:SER1058 5.0 18.8 1.0

Calcium binding site 2 out of 2 in 2c3o

Go back to Calcium Binding Sites List in 2c3o
Calcium binding site 2 out of 2 in the Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the Free Radical Intermediate of Pyruvate:Ferredoxin Oxidoreductase From Desulfovibrio Africanus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca2238

b:47.3
occ:1.00
 O B:PHE1059 2.5 15.7 1.0
OD1 B:ASN985 2.7 29.2 1.0
OD2 B:ASP983 2.7 20.2 1.0
O B:GLY1061 2.9 20.8 1.0
O B:ALA1056 2.9 13.3 1.0
O B:GLU1057 3.1 9.7 1.0
OG B:SER1063 3.6 16.0 1.0
O B:HOH2272 3.6 24.8 1.0
C B:PHE1059 3.6 14.1 1.0
C B:GLU1057 3.7 12.6 1.0
CG B:ASN985 3.8 27.5 1.0
CG B:ASP983 3.9 16.0 1.0
C B:ALA1056 4.0 14.3 1.0
N B:PHE1059 4.0 7.0 1.0
CA B:GLU1057 4.0 12.2 1.0
C B:GLY1061 4.1 19.1 1.0
CB B:PHE1059 4.1 11.8 1.0
O B:VAL984 4.1 16.9 1.0
CB B:SER1063 4.1 9.3 1.0
CA B:PHE1059 4.2 12.1 1.0
O B:HOH2271 4.2 12.4 1.0
ND2 B:ASN985 4.3 27.5 1.0
N B:GLY1061 4.3 21.7 1.0
OD1 B:ASP983 4.5 2.7 1.0
N B:GLU1057 4.5 12.8 1.0
C B:VAL984 4.5 15.6 1.0
C B:SER1058 4.6 13.4 1.0
N B:SER1058 4.6 13.7 1.0
N B:VAL984 4.6 15.1 1.0
N B:SER1063 4.7 9.2 1.0
C B:ASP983 4.7 18.5 1.0
N B:PRO1060 4.8 17.3 1.0
CA B:ASP983 4.8 19.3 1.0
CA B:GLY1061 4.8 22.9 1.0
CD2 B:PHE1059 4.9 13.8 1.0
C B:PRO1062 4.9 11.0 1.0
CB B:ASP983 4.9 15.6 1.0
CB B:ASN985 5.0 25.3 1.0

Reference:

C.Cavazza, C.Contreras-Martel, L.Pieulle, E.Chabriere, E.C.Hatchikian, J.C.Fontecilla-Camps. Flexibility of Thiamine Diphosphate Revealed By Kinetic Crystallographic Studies of the Reaction of Pyruvate-Ferredoxin Oxidoreductase with Pyruvate. Structure V. 14 217 2006.
ISSN: ISSN 0969-2126
PubMed: 16472741
DOI: 10.1016/J.STR.2005.10.013
Page generated: Fri Jul 12 09:21:25 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy