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Iron in PDB 7zos: Class 1 Phytoglobin From Sugar Beet (BVPGB1.2)

Protein crystallography data

The structure of Class 1 Phytoglobin From Sugar Beet (BVPGB1.2), PDB code: 7zos was solved by M.Nyblom, S.Christensen, N.Eriksson, L.Bulow, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.90 / 1.90
Space group P 4 21 2
Cell size a, b, c (Å), α, β, γ (°) 96.75, 96.75, 47.9, 90, 90, 90
R / Rfree (%) 20.3 / 23.5

Iron Binding Sites:

The binding sites of Iron atom in the Class 1 Phytoglobin From Sugar Beet (BVPGB1.2) (pdb code 7zos). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Class 1 Phytoglobin From Sugar Beet (BVPGB1.2), PDB code: 7zos:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 7zos

Go back to Iron Binding Sites List in 7zos
Iron binding site 1 out of 2 in the Class 1 Phytoglobin From Sugar Beet (BVPGB1.2)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Class 1 Phytoglobin From Sugar Beet (BVPGB1.2) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:32.5
occ:1.00
FE A:HEM201 0.0 32.5 1.0
ND A:HEM201 2.0 32.2 1.0
NB A:HEM201 2.0 30.9 1.0
NC A:HEM201 2.0 31.3 1.0
NA A:HEM201 2.0 32.3 1.0
NE2 A:HIS69 2.1 34.9 1.0
NE2 A:HIS104 2.1 33.4 1.0
C4B A:HEM201 3.0 32.0 1.0
C1C A:HEM201 3.0 29.5 1.0
C4D A:HEM201 3.0 36.0 1.0
CD2 A:HIS69 3.0 32.8 1.0
C1A A:HEM201 3.0 31.7 1.0
CE1 A:HIS104 3.0 37.8 1.0
C1D A:HEM201 3.1 32.4 1.0
CE1 A:HIS69 3.1 33.4 1.0
C1B A:HEM201 3.1 32.8 1.0
CD2 A:HIS104 3.1 32.5 1.0
C4A A:HEM201 3.1 34.4 1.0
C4C A:HEM201 3.1 31.9 1.0
CHC A:HEM201 3.3 31.6 1.0
CHA A:HEM201 3.4 33.3 1.0
CHD A:HEM201 3.5 34.5 1.0
CHB A:HEM201 3.5 33.2 1.0
ND1 A:HIS104 4.1 37.0 1.0
CG A:HIS69 4.1 32.8 1.0
ND1 A:HIS69 4.2 31.3 1.0
CG A:HIS104 4.2 31.2 1.0
C3B A:HEM201 4.2 31.0 1.0
C2C A:HEM201 4.2 30.2 1.0
C3D A:HEM201 4.2 35.0 1.0
C2A A:HEM201 4.2 31.6 1.0
C2D A:HEM201 4.3 35.0 1.0
C3C A:HEM201 4.3 30.8 1.0
C2B A:HEM201 4.3 31.4 1.0
C3A A:HEM201 4.3 33.7 1.0

Iron binding site 2 out of 2 in 7zos

Go back to Iron Binding Sites List in 7zos
Iron binding site 2 out of 2 in the Class 1 Phytoglobin From Sugar Beet (BVPGB1.2)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Class 1 Phytoglobin From Sugar Beet (BVPGB1.2) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe203

b:40.7
occ:0.79
FE2 A:FC6203 0.0 40.7 0.8
C21 A:FC6203 1.8 49.7 0.8
C11 A:FC6203 1.8 42.3 0.8
C26 A:FC6203 1.8 46.5 0.8
C22 A:FC6203 1.8 43.1 0.8
C24 A:FC6203 1.8 49.2 0.8
C23 A:FC6203 1.8 51.8 0.8
SD A:MET76 2.7 44.1 1.0
N25 A:FC6203 2.9 46.3 0.8
N21 A:FC6203 3.0 50.0 0.8
N11 A:FC6203 3.0 44.4 0.8
N24 A:FC6203 3.0 52.0 0.8
N22 A:FC6203 3.0 44.9 0.8
N23 A:FC6203 3.0 50.1 0.8
CG A:MET76 3.6 42.9 1.0
CE A:MET76 3.8 38.0 1.0
CB A:MET76 5.0 36.4 1.0

Reference:

S.Christensen, L.Groth, N.Leiva-Eriksson, M.Nyblom, L.Bulow. Oxidative Implications of Substituting A Conserved Cysteine Residue in Sugar Beet Phytoglobin Bvpgb 1.2. Antioxidants V. 11 2022.
ISSN: ESSN 2076-3921
PubMed: 36009334
DOI: 10.3390/ANTIOX11081615
Page generated: Fri Aug 9 15:10:26 2024

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