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Iron in PDB 4n4n: Nitrosomonas Europea Hao

Enzymatic activity of Nitrosomonas Europea Hao

All present enzymatic activity of Nitrosomonas Europea Hao:
1.7.2.6;

Protein crystallography data

The structure of Nitrosomonas Europea Hao, PDB code: 4n4n was solved by W.J.Maalcke, A.Dietl, S.J.Marritt, J.N.Butt, M.S.M.Jetten, J.T.Keltjens, T.R.M.B.Barends, B.Kartal, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.40 / 2.20
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 140.720, 141.970, 106.720, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 21.3

Other elements in 4n4n:

The structure of Nitrosomonas Europea Hao also contains other interesting chemical elements:

Potassium (K) 1 atom

Iron Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Iron atom in the Nitrosomonas Europea Hao (pdb code 4n4n). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 24 binding sites of Iron where determined in the Nitrosomonas Europea Hao, PDB code: 4n4n:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 24 in 4n4n

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Iron binding site 1 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe601

b:22.6
occ:1.00
FE A:HEM601 0.0 22.6 1.0
NE2 A:HIS347 1.9 23.8 1.0
NE2 A:HIS267 1.9 20.0 1.0
NA A:HEM601 2.0 22.6 1.0
NC A:HEM601 2.0 21.6 1.0
NB A:HEM601 2.1 22.0 1.0
ND A:HEM601 2.1 21.4 1.0
CE1 A:HIS347 2.8 24.0 1.0
CE1 A:HIS267 2.9 19.7 1.0
CD2 A:HIS267 2.9 20.0 1.0
CD2 A:HIS347 3.0 24.2 1.0
C4A A:HEM601 3.0 22.6 1.0
C4C A:HEM601 3.1 21.6 1.0
C1B A:HEM601 3.1 22.0 1.0
C1A A:HEM601 3.1 23.0 1.0
C1C A:HEM601 3.1 21.5 1.0
C1D A:HEM601 3.1 21.6 1.0
C4D A:HEM601 3.1 21.9 1.0
C4B A:HEM601 3.1 21.7 1.0
CHB A:HEM601 3.4 22.6 1.0
CHD A:HEM601 3.4 20.7 1.0
CHA A:HEM601 3.4 22.1 1.0
CHC A:HEM601 3.5 21.5 1.0
ND1 A:HIS347 3.9 23.8 1.0
ND1 A:HIS267 4.0 19.9 1.0
CG A:HIS267 4.0 20.4 1.0
CG A:HIS347 4.1 24.8 1.0
C3A A:HEM601 4.3 23.1 1.0
C3C A:HEM601 4.3 20.7 1.0
C2A A:HEM601 4.3 23.3 1.0
C2B A:HEM601 4.3 21.7 1.0
C2C A:HEM601 4.3 20.9 1.0
C3B A:HEM601 4.3 21.6 1.0
C3D A:HEM601 4.3 21.0 1.0
C2D A:HEM601 4.3 20.7 1.0
O A:HOH764 4.7 17.9 1.0

Iron binding site 2 out of 24 in 4n4n

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Iron binding site 2 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe602

b:23.6
occ:1.00
FE A:HEM602 0.0 23.6 1.0
NE2 A:HIS200 1.9 23.6 1.0
NE2 A:HIS123 1.9 24.3 1.0
NB A:HEM602 2.0 22.9 1.0
NA A:HEM602 2.0 23.8 1.0
NC A:HEM602 2.1 23.6 1.0
ND A:HEM602 2.1 23.6 1.0
CE1 A:HIS123 2.8 24.4 1.0
CE1 A:HIS200 2.8 23.3 1.0
CD2 A:HIS200 2.9 24.1 1.0
CD2 A:HIS123 3.0 24.9 1.0
C1B A:HEM602 3.0 22.6 1.0
C4A A:HEM602 3.1 23.2 1.0
C1D A:HEM602 3.1 23.8 1.0
C4C A:HEM602 3.1 24.3 1.0
C1A A:HEM602 3.1 23.9 1.0
C4B A:HEM602 3.1 22.9 1.0
C4D A:HEM602 3.1 23.9 1.0
C1C A:HEM602 3.1 23.7 1.0
CHB A:HEM602 3.4 22.9 1.0
CHA A:HEM602 3.4 23.9 1.0
CHD A:HEM602 3.4 24.0 1.0
CHC A:HEM602 3.4 22.8 1.0
ND1 A:HIS123 3.9 24.7 1.0
ND1 A:HIS200 4.0 23.9 1.0
CG A:HIS200 4.0 24.2 1.0
CG A:HIS123 4.0 25.8 1.0
C2B A:HEM602 4.3 23.0 1.0
C3A A:HEM602 4.3 23.6 1.0
C3B A:HEM602 4.3 22.8 1.0
C2D A:HEM602 4.3 23.9 1.0
C2A A:HEM602 4.3 23.7 1.0
C3C A:HEM602 4.3 23.8 1.0
C3D A:HEM602 4.3 24.1 1.0
C2C A:HEM602 4.3 23.2 1.0
CMA A:HEM601 4.9 23.2 1.0

Iron binding site 3 out of 24 in 4n4n

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Iron binding site 3 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe603

b:24.4
occ:1.00
FE A:HEM603 0.0 24.4 1.0
NE2 A:HIS107 1.9 24.6 1.0
NE2 A:HIS184 1.9 27.1 1.0
NB A:HEM603 2.0 23.7 1.0
NA A:HEM603 2.0 23.6 1.0
NC A:HEM603 2.1 24.1 1.0
ND A:HEM603 2.1 23.6 1.0
CE1 A:HIS107 2.7 24.6 1.0
CE1 A:HIS184 2.8 28.6 1.0
CD2 A:HIS184 3.0 27.8 1.0
CD2 A:HIS107 3.0 24.2 1.0
C4B A:HEM603 3.0 24.7 1.0
C1B A:HEM603 3.0 23.8 1.0
C4A A:HEM603 3.1 23.9 1.0
C1C A:HEM603 3.1 24.4 1.0
C1A A:HEM603 3.1 23.5 1.0
C4C A:HEM603 3.1 24.9 1.0
C4D A:HEM603 3.1 24.1 1.0
C1D A:HEM603 3.1 24.3 1.0
CHC A:HEM603 3.4 24.3 1.0
CHB A:HEM603 3.4 23.4 1.0
CHA A:HEM603 3.4 23.4 1.0
CHD A:HEM603 3.5 24.2 1.0
ND1 A:HIS107 3.9 24.3 1.0
ND1 A:HIS184 3.9 28.3 1.0
CG A:HIS107 4.0 25.0 1.0
CG A:HIS184 4.1 29.2 1.0
C3B A:HEM603 4.3 24.7 1.0
C2B A:HEM603 4.3 24.0 1.0
C3A A:HEM603 4.3 23.6 1.0
C2C A:HEM603 4.3 25.1 1.0
C2A A:HEM603 4.3 23.5 1.0
C3C A:HEM603 4.3 25.0 1.0
C3D A:HEM603 4.3 24.1 1.0
C2D A:HEM603 4.3 23.9 1.0

Iron binding site 4 out of 24 in 4n4n

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Iron binding site 4 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe604

b:22.4
occ:1.00
FE A:HEM604 0.0 22.4 1.0
NE2 A:HIS270 1.9 22.6 1.0
NE2 A:HIS173 1.9 23.9 1.0
NB A:HEM604 2.0 21.8 1.0
NA A:HEM604 2.1 21.6 1.0
NC A:HEM604 2.1 21.4 1.0
ND A:HEM604 2.1 21.3 1.0
CE1 A:HIS173 2.7 24.4 1.0
CE1 A:HIS270 2.8 22.9 1.0
CD2 A:HIS270 2.9 22.1 1.0
C4B A:HEM604 3.0 22.0 1.0
CD2 A:HIS173 3.0 23.8 1.0
C1B A:HEM604 3.0 21.8 1.0
C1C A:HEM604 3.1 21.9 1.0
C4A A:HEM604 3.1 21.2 1.0
C4D A:HEM604 3.1 20.8 1.0
C1A A:HEM604 3.1 21.0 1.0
C1D A:HEM604 3.1 21.2 1.0
C4C A:HEM604 3.1 21.5 1.0
CHC A:HEM604 3.4 22.1 1.0
CHB A:HEM604 3.4 21.2 1.0
CHA A:HEM604 3.4 20.6 1.0
CHD A:HEM604 3.5 21.2 1.0
ND1 A:HIS173 3.9 23.9 1.0
ND1 A:HIS270 4.0 21.9 1.0
CG A:HIS270 4.0 22.4 1.0
CG A:HIS173 4.1 24.8 1.0
C3B A:HEM604 4.3 22.2 1.0
C2B A:HEM604 4.3 21.9 1.0
C3A A:HEM604 4.3 20.4 1.0
C2C A:HEM604 4.3 22.0 1.0
C3D A:HEM604 4.3 21.2 1.0
C2A A:HEM604 4.3 20.4 1.0
C3C A:HEM604 4.3 21.9 1.0
C2D A:HEM604 4.3 21.2 1.0

Iron binding site 5 out of 24 in 4n4n

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Iron binding site 5 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe605

b:19.9
occ:1.00
FE A:HEM605 0.0 19.9 1.0
NE2 A:HIS338 1.9 21.5 1.0
NE2 A:HIS483 1.9 20.5 1.0
NB A:HEM605 2.0 19.2 1.0
NA A:HEM605 2.0 19.8 1.0
NC A:HEM605 2.1 19.1 1.0
ND A:HEM605 2.1 19.3 1.0
CE1 A:HIS338 2.7 21.6 1.0
CD2 A:HIS483 2.8 19.0 1.0
CE1 A:HIS483 2.9 20.0 1.0
CD2 A:HIS338 3.0 21.6 1.0
C4A A:HEM605 3.0 20.0 1.0
C1B A:HEM605 3.0 19.1 1.0
C1A A:HEM605 3.1 20.1 1.0
C4C A:HEM605 3.1 19.5 1.0
C4B A:HEM605 3.1 19.0 1.0
C1D A:HEM605 3.1 19.2 1.0
C1C A:HEM605 3.1 20.1 1.0
C4D A:HEM605 3.1 19.8 1.0
CHB A:HEM605 3.4 19.4 1.0
CHD A:HEM605 3.4 19.1 1.0
CHA A:HEM605 3.4 19.7 1.0
CHC A:HEM605 3.4 18.7 1.0
ND1 A:HIS338 3.9 21.6 1.0
CG A:HIS483 4.0 19.8 1.0
ND1 A:HIS483 4.0 20.0 1.0
CG A:HIS338 4.0 22.7 1.0
C3A A:HEM605 4.2 19.9 1.0
C2A A:HEM605 4.2 20.2 1.0
C2B A:HEM605 4.3 19.1 1.0
C3B A:HEM605 4.3 19.0 1.0
C3C A:HEM605 4.3 19.7 1.0
C2C A:HEM605 4.3 19.7 1.0
C2D A:HEM605 4.3 19.1 1.0
C3D A:HEM605 4.3 19.3 1.0
ND2 A:ASN294 4.8 18.9 1.0

Iron binding site 6 out of 24 in 4n4n

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Iron binding site 6 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe606

b:20.6
occ:1.00
FE A:HEM606 0.0 20.6 1.0
NE2 A:HIS287 1.9 22.0 1.0
NE2 A:HIS228 1.9 22.8 1.0
NC A:HEM606 2.0 19.7 1.0
NB A:HEM606 2.1 19.4 1.0
ND A:HEM606 2.1 19.9 1.0
NA A:HEM606 2.1 20.1 1.0
CE1 A:HIS287 2.8 21.9 1.0
CE1 A:HIS228 2.8 22.6 1.0
CD2 A:HIS228 2.9 22.2 1.0
CD2 A:HIS287 3.0 20.4 1.0
C1D A:HEM606 3.0 19.9 1.0
C4C A:HEM606 3.1 19.9 1.0
C1C A:HEM606 3.1 19.9 1.0
C4B A:HEM606 3.1 19.3 1.0
C4D A:HEM606 3.1 20.1 1.0
C1B A:HEM606 3.1 19.6 1.0
C1A A:HEM606 3.1 20.6 1.0
C4A A:HEM606 3.1 20.0 1.0
CHD A:HEM606 3.4 19.9 1.0
CHC A:HEM606 3.4 18.7 1.0
CHA A:HEM606 3.4 20.4 1.0
CHB A:HEM606 3.4 20.0 1.0
ND1 A:HIS287 3.9 21.2 1.0
ND1 A:HIS228 3.9 22.4 1.0
CG A:HIS287 4.0 20.8 1.0
CG A:HIS228 4.0 23.0 1.0
C3C A:HEM606 4.3 19.9 1.0
C2C A:HEM606 4.3 19.8 1.0
C2D A:HEM606 4.3 20.2 1.0
C3B A:HEM606 4.3 19.1 1.0
C2B A:HEM606 4.3 19.4 1.0
C3D A:HEM606 4.3 20.4 1.0
C3A A:HEM606 4.3 20.2 1.0
C2A A:HEM606 4.3 20.3 1.0
ND2 A:ASN259 4.8 21.4 1.0

Iron binding site 7 out of 24 in 4n4n

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Iron binding site 7 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe607

b:21.6
occ:1.00
FE A:HEM607 0.0 21.6 1.0
NE2 A:HIS388 1.9 23.5 1.0
NE2 A:HIS303 1.9 21.2 1.0
NA A:HEM607 2.0 21.1 1.0
NC A:HEM607 2.0 21.0 1.0
ND A:HEM607 2.1 20.6 1.0
NB A:HEM607 2.1 21.1 1.0
CE1 A:HIS303 2.7 20.8 1.0
CD2 A:HIS388 2.8 23.6 1.0
CE1 A:HIS388 2.9 23.4 1.0
C1A A:HEM607 3.0 21.4 1.0
CD2 A:HIS303 3.0 20.3 1.0
C4A A:HEM607 3.0 21.5 1.0
C1C A:HEM607 3.1 21.7 1.0
C4D A:HEM607 3.1 21.1 1.0
C4C A:HEM607 3.1 21.8 1.0
C1D A:HEM607 3.1 21.3 1.0
C1B A:HEM607 3.1 21.8 1.0
C4B A:HEM607 3.1 21.5 1.0
CHA A:HEM607 3.4 20.9 1.0
CHC A:HEM607 3.4 21.6 1.0
CHB A:HEM607 3.4 21.6 1.0
CHD A:HEM607 3.4 21.3 1.0
ND1 A:HIS303 3.9 20.7 1.0
ND1 A:HIS388 4.0 23.4 1.0
CG A:HIS388 4.0 24.5 1.0
CG A:HIS303 4.1 20.5 1.0
C3A A:HEM607 4.3 21.2 1.0
C2A A:HEM607 4.3 21.0 1.0
C2C A:HEM607 4.3 22.0 1.0
C3C A:HEM607 4.3 22.1 1.0
C3D A:HEM607 4.3 20.9 1.0
C3B A:HEM607 4.3 21.4 1.0
C2B A:HEM607 4.3 21.8 1.0
C2D A:HEM607 4.3 20.9 1.0
CG A:PRO332 4.9 22.4 1.0

Iron binding site 8 out of 24 in 4n4n

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Iron binding site 8 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe608

b:22.4
occ:1.00
FE A:HEC608 0.0 22.4 1.0
NB A:HEC608 1.9 22.6 1.0
NA A:HEC608 1.9 22.9 1.0
ND A:HEC608 1.9 22.4 1.0
NC A:HEC608 1.9 21.6 1.0
NE2 E:HIS257 2.1 21.4 1.0
O A:HOH971 2.5 28.1 1.0
CE1 E:HIS257 2.9 21.5 1.0
C1B A:HEC608 2.9 23.0 1.0
C4A A:HEC608 2.9 23.2 1.0
C4D A:HEC608 3.0 23.0 1.0
C1D A:HEC608 3.0 22.1 1.0
C1C A:HEC608 3.0 21.6 1.0
C1A A:HEC608 3.0 23.8 1.0
C4C A:HEC608 3.0 21.4 1.0
C4B A:HEC608 3.0 22.2 1.0
CHB A:HEC608 3.2 23.0 1.0
CD2 E:HIS257 3.3 21.3 1.0
CHD A:HEC608 3.4 21.7 1.0
CHA A:HEC608 3.4 23.3 1.0
CHC A:HEC608 3.5 21.5 1.0
OH A:TYR491 3.6 23.3 1.0
ND1 E:HIS257 4.1 21.1 1.0
C2B A:HEC608 4.1 23.2 1.0
C3A A:HEC608 4.2 23.7 1.0
C3D A:HEC608 4.2 22.5 1.0
C2D A:HEC608 4.2 22.5 1.0
C2C A:HEC608 4.2 21.3 1.0
C3B A:HEC608 4.2 22.2 1.0
C2A A:HEC608 4.2 23.4 1.0
C3C A:HEC608 4.2 21.4 1.0
CZ A:TYR491 4.3 22.1 1.0
CG E:HIS257 4.3 21.3 1.0
CE2 A:TYR491 4.4 21.9 1.0
CMD E:HEM607 4.7 19.2 1.0
NE2 E:HIS292 4.7 21.6 1.0

Iron binding site 9 out of 24 in 4n4n

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Iron binding site 9 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe601

b:24.3
occ:1.00
FE C:HEC601 0.0 24.3 1.0
NB C:HEC601 1.9 23.2 1.0
NA C:HEC601 1.9 23.4 1.0
ND C:HEC601 1.9 22.8 1.0
NC C:HEC601 1.9 22.7 1.0
NE2 A:HIS257 2.1 23.4 1.0
O A:HOH968 2.8 24.6 1.0
CE1 A:HIS257 2.9 22.5 1.0
C1B C:HEC601 2.9 22.8 1.0
C4A C:HEC601 2.9 23.7 1.0
C4D C:HEC601 3.0 23.1 1.0
C1D C:HEC601 3.0 23.0 1.0
C1C C:HEC601 3.0 22.5 1.0
C1A C:HEC601 3.0 24.2 1.0
C4C C:HEC601 3.0 22.2 1.0
C4B C:HEC601 3.0 23.1 1.0
CHB C:HEC601 3.3 22.8 1.0
CD2 A:HIS257 3.3 22.2 1.0
CHD C:HEC601 3.3 22.6 1.0
CHA C:HEC601 3.4 23.4 1.0
CHC C:HEC601 3.5 22.8 1.0
OH C:TYR491 3.6 24.2 1.0
ND1 A:HIS257 4.1 21.7 1.0
C2B C:HEC601 4.1 22.7 1.0
C3D C:HEC601 4.2 22.8 1.0
C2D C:HEC601 4.2 22.8 1.0
C3A C:HEC601 4.2 23.7 1.0
C3B C:HEC601 4.2 22.3 1.0
C2C C:HEC601 4.2 22.1 1.0
C2A C:HEC601 4.2 24.1 1.0
C3C C:HEC601 4.3 22.1 1.0
CZ C:TYR491 4.3 24.2 1.0
CG A:HIS257 4.3 21.7 1.0
CE2 C:TYR491 4.4 23.9 1.0
CMD A:HEM606 4.7 19.3 1.0
NE2 A:HIS292 4.8 22.7 1.0

Iron binding site 10 out of 24 in 4n4n

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Iron binding site 10 out of 24 in the Nitrosomonas Europea Hao


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Nitrosomonas Europea Hao within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe602

b:22.1
occ:1.00
FE C:HEM602 0.0 22.1 1.0
NE2 C:HIS267 1.9 21.4 1.0
NE2 C:HIS347 1.9 23.9 1.0
NC C:HEM602 2.0 21.1 1.0
NA C:HEM602 2.0 22.2 1.0
NB C:HEM602 2.1 21.3 1.0
ND C:HEM602 2.1 21.0 1.0
CE1 C:HIS347 2.7 23.6 1.0
CE1 C:HIS267 2.8 21.0 1.0
CD2 C:HIS267 2.9 20.4 1.0
CD2 C:HIS347 3.0 23.9 1.0
C4C C:HEM602 3.0 21.0 1.0
C4A C:HEM602 3.0 22.3 1.0
C1D C:HEM602 3.1 21.1 1.0
C1B C:HEM602 3.1 21.9 1.0
C1C C:HEM602 3.1 21.2 1.0
C1A C:HEM602 3.1 22.4 1.0
C4D C:HEM602 3.1 21.8 1.0
C4B C:HEM602 3.1 21.8 1.0
CHD C:HEM602 3.4 20.5 1.0
CHB C:HEM602 3.4 21.9 1.0
CHA C:HEM602 3.5 22.1 1.0
CHC C:HEM602 3.5 21.0 1.0
ND1 C:HIS347 3.9 23.9 1.0
ND1 C:HIS267 4.0 21.1 1.0
CG C:HIS267 4.0 20.9 1.0
CG C:HIS347 4.1 24.8 1.0
C3C C:HEM602 4.3 20.8 1.0
C3A C:HEM602 4.3 22.6 1.0
C2B C:HEM602 4.3 21.9 1.0
C2C C:HEM602 4.3 20.6 1.0
C2D C:HEM602 4.3 20.4 1.0
C2A C:HEM602 4.3 22.5 1.0
C3B C:HEM602 4.3 21.6 1.0
C3D C:HEM602 4.3 20.8 1.0
O C:HOH712 4.8 18.0 1.0

Reference:

W.J.Maalcke, A.Dietl, S.J.Marritt, J.N.Butt, M.S.Jetten, J.T.Keltjens, T.R.Barends, B.Kartal. Structural Basis of Biological No Generation By Octaheme Oxidoreductases. J.Biol.Chem. V. 289 1228 2014.
ISSN: ISSN 0021-9258
PubMed: 24302732
DOI: 10.1074/JBC.M113.525147
Page generated: Sun Dec 13 15:42:16 2020

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