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Iron in PDB 1y0z: X-Ray Structure of Gene Product From Arabidopsis Thaliana AT3G21360

Protein crystallography data

The structure of X-Ray Structure of Gene Product From Arabidopsis Thaliana AT3G21360, PDB code: 1y0z was solved by G.E.Wesenberg, G.N.Phillips Jr., E.Bitto, C.A.Bingman, S.T.M.Allard, Center For Eukaryotic Structural Genomics (Cesg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.63 / 2.40
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 145.276, 61.094, 114.681, 90.00, 121.68, 90.00
R / Rfree (%) 19.3 / 24.1

Iron Binding Sites:

The binding sites of Iron atom in the X-Ray Structure of Gene Product From Arabidopsis Thaliana AT3G21360 (pdb code 1y0z). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the X-Ray Structure of Gene Product From Arabidopsis Thaliana AT3G21360, PDB code: 1y0z:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 1y0z

Go back to Iron Binding Sites List in 1y0z
Iron binding site 1 out of 2 in the X-Ray Structure of Gene Product From Arabidopsis Thaliana AT3G21360


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of X-Ray Structure of Gene Product From Arabidopsis Thaliana AT3G21360 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe901

b:40.0
occ:1.00
NE2 A:HIS313 2.3 8.3 1.0
O A:HOH1133 2.3 29.1 1.0
NE2 A:HIS120 2.4 21.8 1.0
OE1 A:GLU122 2.6 32.8 1.0
CE1 A:HIS120 3.0 21.8 1.0
O A:HOH1179 3.0 35.6 1.0
CE1 A:HIS313 3.2 8.3 1.0
CD2 A:HIS313 3.3 8.3 1.0
CD A:GLU122 3.5 32.8 1.0
CD2 A:HIS120 3.6 21.8 1.0
OE2 A:GLU122 3.7 32.8 1.0
ND1 A:HIS120 4.2 21.8 1.0
ND1 A:HIS313 4.3 8.3 1.0
CG A:HIS313 4.4 8.3 1.0
CG A:HIS120 4.5 21.8 1.0
O A:HOH1135 4.5 37.8 1.0
O A:HOH1134 4.6 30.6 1.0
O A:HOH1214 4.6 49.0 1.0
CZ A:PHE135 4.8 21.2 1.0
CG A:GLU122 4.9 32.8 1.0

Iron binding site 2 out of 2 in 1y0z

Go back to Iron Binding Sites List in 1y0z
Iron binding site 2 out of 2 in the X-Ray Structure of Gene Product From Arabidopsis Thaliana AT3G21360


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of X-Ray Structure of Gene Product From Arabidopsis Thaliana AT3G21360 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe902

b:25.2
occ:1.00
O B:HOH1176 2.0 19.9 1.0
NE2 B:HIS120 2.2 12.9 1.0
O B:HOH1175 2.2 16.6 1.0
NE2 B:HIS313 2.3 9.2 1.0
OE1 B:GLU122 2.3 22.1 1.0
CE1 B:HIS120 2.9 12.9 1.0
CE1 B:HIS313 3.1 9.2 1.0
CD2 B:HIS313 3.4 9.2 1.0
CD B:GLU122 3.4 22.1 1.0
CD2 B:HIS120 3.4 12.9 1.0
OE2 B:GLU122 3.7 22.1 1.0
O B:HOH1177 4.1 38.7 1.0
ND1 B:HIS120 4.1 12.9 1.0
ND1 B:HIS313 4.2 9.2 1.0
CG B:HIS120 4.4 12.9 1.0
CG B:HIS313 4.4 9.2 1.0
O B:HOH1186 4.4 35.3 1.0
CG B:GLU122 4.7 22.1 1.0
CZ B:PHE135 4.9 15.7 1.0
O B:HOH1062 5.0 43.9 1.0
CB B:GLU122 5.0 22.1 1.0

Reference:

E.Bitto, C.A.Bingman, S.T.Allard, G.E.Wesenberg, D.J.Aceti, R.L.Wrobel, R.O.Frederick, H.Sreenath, F.C.Vojtik, W.B.Jeon, C.S.Newman, J.Primm, M.R.Sussman, B.G.Fox, J.L.Markley, G.N.Phillips. The Structure at 2.4 A Resolution of the Protein From Gene Locus AT3G21360, A Putative Fe(II)/2-Oxoglutarate-Dependent Enzyme From Arabidopsis Thaliana. Acta Crystallogr.,Sect.F V. 61 469 2005.
ISSN: ESSN 1744-3091
PubMed: 16511070
DOI: 10.1107/S1744309105011565
Page generated: Wed Jul 16 22:18:28 2025

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