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Iron in PDB 3lgm: Crystal Structure of Reduced Isdi in Complex with Heme

Enzymatic activity of Crystal Structure of Reduced Isdi in Complex with Heme

All present enzymatic activity of Crystal Structure of Reduced Isdi in Complex with Heme:
1.14.99.3;

Protein crystallography data

The structure of Crystal Structure of Reduced Isdi in Complex with Heme, PDB code: 3lgm was solved by G.N.Ukpabi, M.E.P.Murphy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.87 / 1.88
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 58.040, 68.030, 70.750, 90.00, 90.00, 90.00
R / Rfree (%) 20 / 24.2

Other elements in 3lgm:

The structure of Crystal Structure of Reduced Isdi in Complex with Heme also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Reduced Isdi in Complex with Heme (pdb code 3lgm). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Crystal Structure of Reduced Isdi in Complex with Heme, PDB code: 3lgm:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 3lgm

Go back to Iron Binding Sites List in 3lgm
Iron binding site 1 out of 2 in the Crystal Structure of Reduced Isdi in Complex with Heme


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Reduced Isdi in Complex with Heme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe200

b:26.6
occ:1.00
FE A:HEM200 0.0 26.6 1.0
NA A:HEM200 2.0 25.6 1.0
NC A:HEM200 2.0 27.7 1.0
ND A:HEM200 2.0 22.9 1.0
NB A:HEM200 2.0 26.2 1.0
NE2 A:HIS76 2.3 29.9 1.0
C4A A:HEM200 3.0 27.8 1.0
C1A A:HEM200 3.0 27.2 1.0
C4C A:HEM200 3.0 27.5 1.0
C1C A:HEM200 3.0 28.2 1.0
C1D A:HEM200 3.0 24.4 1.0
C4D A:HEM200 3.0 22.5 1.0
C1B A:HEM200 3.0 27.1 1.0
C4B A:HEM200 3.0 29.1 1.0
CD2 A:HIS76 3.1 29.6 1.0
CHA A:HEM200 3.3 24.1 1.0
CHD A:HEM200 3.3 24.5 1.0
CE1 A:HIS76 3.3 28.2 1.0
CHC A:HEM200 3.3 29.3 1.0
CHB A:HEM200 3.3 26.4 1.0
ND2 A:ASN6 3.9 21.9 1.0
C3A A:HEM200 4.2 26.6 1.0
CD1 A:ILE53 4.2 24.1 1.0
C2A A:HEM200 4.2 27.8 1.0
C3C A:HEM200 4.2 29.2 1.0
C2C A:HEM200 4.2 29.1 1.0
C2D A:HEM200 4.2 21.2 1.0
C3D A:HEM200 4.2 21.0 1.0
C3B A:HEM200 4.3 31.3 1.0
C2B A:HEM200 4.3 29.3 1.0
CG A:HIS76 4.3 30.3 1.0
ND1 A:HIS76 4.4 27.5 1.0
CE1 A:PHE22 4.7 26.1 1.0
CZ A:PHE22 5.0 24.5 1.0

Iron binding site 2 out of 2 in 3lgm

Go back to Iron Binding Sites List in 3lgm
Iron binding site 2 out of 2 in the Crystal Structure of Reduced Isdi in Complex with Heme


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of Reduced Isdi in Complex with Heme within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe200

b:22.6
occ:1.00
FE B:HEM200 0.0 22.6 1.0
NC B:HEM200 1.9 24.2 1.0
NB B:HEM200 2.0 23.8 1.0
NA B:HEM200 2.0 22.8 1.0
ND B:HEM200 2.0 21.1 1.0
NE2 B:HIS76 2.3 24.4 1.0
C1C B:HEM200 2.9 24.8 1.0
C4C B:HEM200 3.0 24.9 1.0
C4B B:HEM200 3.0 26.3 1.0
C1A B:HEM200 3.0 22.9 1.0
C4D B:HEM200 3.0 18.7 1.0
C1B B:HEM200 3.0 27.2 1.0
C4A B:HEM200 3.0 24.2 1.0
C1D B:HEM200 3.0 21.3 1.0
CD2 B:HIS76 3.2 26.2 1.0
CHC B:HEM200 3.2 25.4 1.0
CE1 B:HIS76 3.3 26.9 1.0
CHA B:HEM200 3.3 23.2 1.0
CHB B:HEM200 3.3 26.0 1.0
CHD B:HEM200 3.3 23.0 1.0
ND2 B:ASN6 3.9 22.4 1.0
C2C B:HEM200 4.1 25.8 1.0
C3C B:HEM200 4.2 25.4 1.0
C2A B:HEM200 4.2 25.5 1.0
C3B B:HEM200 4.2 29.1 1.0
C3A B:HEM200 4.2 24.2 1.0
C2B B:HEM200 4.2 29.8 1.0
C3D B:HEM200 4.2 20.4 1.0
C2D B:HEM200 4.2 19.5 1.0
CG B:HIS76 4.3 27.4 1.0
ND1 B:HIS76 4.4 25.7 1.0
CD1 B:ILE53 4.4 23.0 1.0
CE1 B:PHE22 4.7 21.2 1.0
CZ B:PHE22 4.9 21.6 1.0

Reference:

M.L.Reniere, G.N.Ukpabi, S.R.Harry, D.F.Stec, R.Krull, D.W.Wright, B.O.Bachmann, M.E.P.Murphy, E.P.Skaar. The Isdg-Family of Haem Oxygenases Degrades Haem to A Novel Chromophore Mol.Microbiol. V. 75 1529 2010.
ISSN: ISSN 0950-382X
PubMed: 20180905
DOI: 10.1111/J.1365-2958.2010.07076.X
Page generated: Sun Dec 13 15:11:18 2020

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