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Iron in PDB 3lb1: Two-Site Competitive Inhibition in Dehaloperoxidase-Hemoglobin

Protein crystallography data

The structure of Two-Site Competitive Inhibition in Dehaloperoxidase-Hemoglobin, PDB code: 3lb1 was solved by V.S.De Serrano, S.Franzen, M.K.Thompson, M.F.Davis, F.P.Niccoletti, B.D.Howes, G.Smulevich, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.00 / 1.76
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 57.838, 67.254, 69.128, 90.00, 90.00, 90.00
R / Rfree (%) 18.6 / 22.7

Other elements in 3lb1:

The structure of Two-Site Competitive Inhibition in Dehaloperoxidase-Hemoglobin also contains other interesting chemical elements:

Iodine (I) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Two-Site Competitive Inhibition in Dehaloperoxidase-Hemoglobin (pdb code 3lb1). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Two-Site Competitive Inhibition in Dehaloperoxidase-Hemoglobin, PDB code: 3lb1:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 3lb1

Go back to Iron Binding Sites List in 3lb1
Iron binding site 1 out of 2 in the Two-Site Competitive Inhibition in Dehaloperoxidase-Hemoglobin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Two-Site Competitive Inhibition in Dehaloperoxidase-Hemoglobin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe139

b:13.1
occ:1.00
FE A:HEM139 0.0 13.1 1.0
NA A:HEM139 2.1 12.5 1.0
NC A:HEM139 2.1 11.6 1.0
ND A:HEM139 2.1 13.1 1.0
NB A:HEM139 2.1 11.7 1.0
NE2 A:HIS89 2.1 13.1 1.0
CE1 A:HIS89 3.1 13.9 1.0
C1A A:HEM139 3.1 12.9 1.0
C4B A:HEM139 3.1 11.2 1.0
C1C A:HEM139 3.1 10.7 1.0
CD2 A:HIS89 3.1 15.7 1.0
C4D A:HEM139 3.1 13.0 1.0
C4C A:HEM139 3.1 12.1 1.0
C1D A:HEM139 3.1 12.9 1.0
C4A A:HEM139 3.1 12.6 1.0
C1B A:HEM139 3.1 11.4 1.0
CHA A:HEM139 3.4 12.5 1.0
CHC A:HEM139 3.4 11.6 1.0
CHD A:HEM139 3.5 12.6 1.0
CHB A:HEM139 3.5 11.8 1.0
C2 A:IOL191 3.7 15.9 0.8
ND1 A:HIS89 4.2 14.4 1.0
CG A:HIS89 4.2 15.3 1.0
C3 A:IOL191 4.3 16.2 1.0
C2A A:HEM139 4.3 13.0 1.0
C2C A:HEM139 4.3 10.4 1.0
C3B A:HEM139 4.3 11.0 1.0
C3A A:HEM139 4.3 12.5 1.0
C3C A:HEM139 4.3 11.7 1.0
C3D A:HEM139 4.3 14.5 1.0
C2D A:HEM139 4.3 13.4 1.0
C2B A:HEM139 4.4 9.9 1.0
CG2 A:VAL59 4.4 9.6 1.0
CE A:MET86 4.7 18.6 1.0
C1 A:IOL191 4.7 15.6 0.9
CG1 A:VAL59 4.9 9.3 1.0

Iron binding site 2 out of 2 in 3lb1

Go back to Iron Binding Sites List in 3lb1
Iron binding site 2 out of 2 in the Two-Site Competitive Inhibition in Dehaloperoxidase-Hemoglobin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Two-Site Competitive Inhibition in Dehaloperoxidase-Hemoglobin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe139

b:10.9
occ:1.00
FE B:HEM139 0.0 10.9 1.0
NB B:HEM139 2.1 10.1 1.0
NA B:HEM139 2.1 10.3 1.0
NC B:HEM139 2.1 10.0 1.0
ND B:HEM139 2.1 11.0 1.0
NE2 B:HIS89 2.2 11.2 1.0
C4B B:HEM139 3.1 9.6 1.0
C4A B:HEM139 3.1 9.8 1.0
C1B B:HEM139 3.1 9.4 1.0
C1C B:HEM139 3.1 10.0 1.0
C4C B:HEM139 3.1 10.3 1.0
CE1 B:HIS89 3.1 12.2 1.0
C1A B:HEM139 3.1 10.4 1.0
C1D B:HEM139 3.1 10.7 1.0
C4D B:HEM139 3.1 10.5 1.0
CD2 B:HIS89 3.2 11.4 1.0
CHB B:HEM139 3.4 10.0 1.0
CHC B:HEM139 3.4 9.7 1.0
CHD B:HEM139 3.5 10.0 1.0
CHA B:HEM139 3.5 10.5 1.0
C6 B:IOL192 3.8 14.0 1.0
ND1 B:HIS89 4.2 11.9 1.0
CG B:HIS89 4.3 12.4 1.0
C3B B:HEM139 4.3 9.3 1.0
C2B B:HEM139 4.3 9.1 1.0
C3A B:HEM139 4.3 9.8 1.0
C2C B:HEM139 4.3 10.0 1.0
C3C B:HEM139 4.3 9.8 1.0
C2A B:HEM139 4.3 11.1 1.0
C5 B:IOL192 4.3 14.6 1.0
CG2 B:VAL59 4.4 6.9 1.0
C2D B:HEM139 4.4 11.8 1.0
C3D B:HEM139 4.4 11.4 1.0
CE B:MET86 4.6 11.7 1.0
C1 B:IOL192 4.7 14.6 1.0
CG1 B:VAL59 4.9 7.0 1.0

Reference:

M.K.Thompson, M.F.Davis, V.De Serrano, F.P.Nicoletti, B.D.Howes, G.Smulevich, S.Franzen. Internal Binding of Halogenated Phenols in Dehaloperoxidase-Hemoglobin Inhibits Peroxidase Function. Biophys.J. V. 99 1586 2010.
ISSN: ISSN 0006-3495
PubMed: 20816071
DOI: 10.1016/J.BPJ.2010.05.041
Page generated: Sun Aug 4 14:12:08 2024

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