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Iron in PDB 1oqb: The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean).

Enzymatic activity of The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean).

All present enzymatic activity of The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean).:
1.14.19.2;

Protein crystallography data

The structure of The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean)., PDB code: 1oqb was solved by M.Moche, J.Shanklin, A.K.Ghoshal, Y.Lindqvist, 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 21
Cell size a, b, c (Å), α, β, γ (°) 81.908, 145.791, 192.424, 90.00, 90.00, 90.00
R / Rfree (%) 22.4 / 24.8

Iron Binding Sites:

The binding sites of Iron atom in the The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean). (pdb code 1oqb). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean)., PDB code: 1oqb:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 1oqb

Go back to Iron Binding Sites List in 1oqb
Iron binding site 1 out of 6 in the The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean). within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe364

b:53.7
occ:1.00
OE1 A:GLU143 2.3 30.2 1.0
OE1 A:GLU105 2.4 31.6 1.0
ND1 A:HIS146 2.5 28.4 1.0
OE2 A:GLU229 2.8 31.8 1.0
OE2 A:GLU105 2.8 33.3 1.0
CD A:GLU105 2.9 31.3 1.0
CD A:GLU229 3.0 32.5 1.0
CE1 A:HIS146 3.1 28.9 1.0
CD A:GLU143 3.2 29.2 1.0
OE1 A:GLU229 3.4 34.6 1.0
OE2 A:GLU143 3.4 29.8 1.0
CG A:HIS146 3.6 27.5 1.0
CG A:GLU229 3.8 29.4 1.0
O A:HOH501 3.9 28.5 1.0
CB A:HIS146 4.1 26.6 1.0
NE2 A:HIS146 4.4 29.1 1.0
CG A:GLU105 4.4 29.8 1.0
OG1 A:THR199 4.6 29.5 1.0
CD2 A:HIS146 4.6 29.3 1.0
CG A:GLU143 4.6 27.7 1.0
CG2 A:ILE225 4.7 26.6 1.0
OE1 A:GLU196 4.9 33.3 1.0
O A:GLU143 5.0 26.4 1.0
CB A:GLU143 5.0 26.7 1.0

Iron binding site 2 out of 6 in 1oqb

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Iron binding site 2 out of 6 in the The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean). within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe364

b:53.7
occ:1.00
OE1 B:GLU143 2.4 30.1 1.0
ND1 B:HIS146 2.5 28.4 1.0
OE1 B:GLU105 2.5 31.5 1.0
OE2 B:GLU229 2.7 31.7 1.0
OE2 B:GLU105 2.7 33.8 1.0
CD B:GLU105 3.0 31.3 1.0
CD B:GLU229 3.0 32.6 1.0
CE1 B:HIS146 3.1 28.9 1.0
CD B:GLU143 3.3 29.3 1.0
OE2 B:GLU143 3.4 29.9 1.0
OE1 B:GLU229 3.5 34.4 1.0
CG B:HIS146 3.6 27.6 1.0
CG B:GLU229 3.7 29.5 1.0
O B:HOH502 3.8 27.4 1.0
CB B:HIS146 4.1 26.5 1.0
NE2 B:HIS146 4.4 29.1 1.0
CG B:GLU105 4.5 29.8 1.0
CG2 B:ILE225 4.6 26.6 1.0
OG1 B:THR199 4.6 29.6 1.0
CD2 B:HIS146 4.6 29.4 1.0
CG B:GLU143 4.7 27.9 1.0
OE1 B:GLU196 4.9 33.5 1.0

Iron binding site 3 out of 6 in 1oqb

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Iron binding site 3 out of 6 in the The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean). within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe364

b:53.8
occ:1.00
OE1 C:GLU143 2.4 30.4 1.0
ND1 C:HIS146 2.5 28.5 1.0
OE1 C:GLU105 2.5 31.7 1.0
OE2 C:GLU105 2.7 33.6 1.0
OE2 C:GLU229 2.8 31.8 1.0
CD C:GLU105 2.9 31.4 1.0
CD C:GLU229 3.0 32.6 1.0
CE1 C:HIS146 3.1 28.7 1.0
CD C:GLU143 3.3 29.4 1.0
OE1 C:GLU229 3.4 34.5 1.0
OE2 C:GLU143 3.5 29.7 1.0
CG C:HIS146 3.6 27.6 1.0
CG C:GLU229 3.7 29.3 1.0
O C:HOH503 4.0 34.6 1.0
CB C:HIS146 4.1 26.6 1.0
NE2 C:HIS146 4.3 28.9 1.0
CG C:GLU105 4.4 29.7 1.0
CG2 C:ILE225 4.5 26.7 1.0
OG1 C:THR199 4.5 29.8 1.0
CD2 C:HIS146 4.6 29.2 1.0
CG C:GLU143 4.7 27.9 1.0
OE1 C:GLU196 4.8 33.4 1.0

Iron binding site 4 out of 6 in 1oqb

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Iron binding site 4 out of 6 in the The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean). within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe364

b:54.0
occ:1.00
OE1 D:GLU143 2.4 30.3 1.0
OE1 D:GLU105 2.4 31.7 1.0
ND1 D:HIS146 2.4 28.5 1.0
OE2 D:GLU105 2.7 33.8 1.0
OE2 D:GLU229 2.8 31.8 1.0
CD D:GLU105 2.9 31.5 1.0
CD D:GLU229 3.1 32.7 1.0
CE1 D:HIS146 3.1 28.8 1.0
CD D:GLU143 3.3 29.3 1.0
OE2 D:GLU143 3.5 29.8 1.0
OE1 D:GLU229 3.5 34.6 1.0
CG D:HIS146 3.6 27.6 1.0
CG D:GLU229 3.8 29.5 1.0
CB D:HIS146 4.0 26.4 1.0
NE2 D:HIS146 4.4 28.9 1.0
CG D:GLU105 4.4 29.7 1.0
CG2 D:ILE225 4.6 26.6 1.0
CD2 D:HIS146 4.6 29.4 1.0
O D:HOH504 4.6 36.3 1.0
CG D:GLU143 4.6 27.9 1.0
OG1 D:THR199 4.7 29.7 1.0
OE1 D:GLU196 4.9 33.5 1.0
CB D:GLU143 5.0 26.8 1.0

Iron binding site 5 out of 6 in 1oqb

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Iron binding site 5 out of 6 in the The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean). within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe364

b:53.9
occ:1.00
OE1 E:GLU143 2.4 30.3 1.0
ND1 E:HIS146 2.4 28.6 1.0
OE1 E:GLU105 2.5 31.6 1.0
OE2 E:GLU105 2.8 33.4 1.0
OE2 E:GLU229 2.9 31.9 1.0
CD E:GLU105 3.0 31.3 1.0
CD E:GLU229 3.0 32.5 1.0
CE1 E:HIS146 3.1 28.9 1.0
CD E:GLU143 3.3 29.3 1.0
OE1 E:GLU229 3.4 34.4 1.0
CG E:HIS146 3.5 27.5 1.0
OE2 E:GLU143 3.5 29.6 1.0
CG E:GLU229 3.7 29.5 1.0
CB E:HIS146 4.0 26.5 1.0
NE2 E:HIS146 4.3 29.0 1.0
CG E:GLU105 4.5 29.9 1.0
CG2 E:ILE225 4.5 26.6 1.0
CD2 E:HIS146 4.5 29.2 1.0
OG1 E:THR199 4.6 29.5 1.0
CG E:GLU143 4.7 27.9 1.0
OE1 E:GLU196 4.9 33.5 1.0

Iron binding site 6 out of 6 in 1oqb

Go back to Iron Binding Sites List in 1oqb
Iron binding site 6 out of 6 in the The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean).


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of The Crystal Structure of the One-Iron Form of the Di-Iron Center in Stearoyl Acyl Carrier Protein Desaturase From Ricinus Communis (Castor Bean). within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe364

b:53.5
occ:1.00
ND1 F:HIS146 2.4 28.6 1.0
OE1 F:GLU143 2.5 30.2 1.0
OE1 F:GLU105 2.5 31.7 1.0
OE2 F:GLU229 2.8 31.9 1.0
OE2 F:GLU105 2.8 33.3 1.0
CD F:GLU229 3.0 32.6 1.0
CD F:GLU105 3.0 31.3 1.0
CE1 F:HIS146 3.1 28.9 1.0
CD F:GLU143 3.3 29.4 1.0
OE1 F:GLU229 3.4 34.4 1.0
OE2 F:GLU143 3.5 29.8 1.0
CG F:HIS146 3.6 27.5 1.0
CG F:GLU229 3.6 29.6 1.0
CB F:HIS146 4.1 26.4 1.0
O F:HOH505 4.1 45.1 1.0
NE2 F:HIS146 4.3 28.9 1.0
CG2 F:ILE225 4.5 26.5 1.0
CG F:GLU105 4.5 29.8 1.0
CD2 F:HIS146 4.5 29.2 1.0
OG1 F:THR199 4.5 29.5 1.0
CG F:GLU143 4.7 28.0 1.0
OE1 F:GLU196 4.9 33.4 1.0

Reference:

M.Moche, J.Shanklin, A.Ghoshal, Y.Lindqvist. Azide and Acetate Complexes Plus Two Iron-Depleted Crystal Structures of the Di-Iron Enzyme DELTA9 Stearoyl-Acp Desaturase-Implications For Oxygen Activation and Catalytic Intermediates J.Biol.Chem. V. 278 25072 2003.
ISSN: ISSN 0021-9258
PubMed: 12704186
DOI: 10.1074/JBC.M301662200
Page generated: Sun Dec 13 14:27:20 2020

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