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Tungsten in PDB 1b25: Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus

Protein crystallography data

The structure of Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus, PDB code: 1b25 was solved by Y.L.Hu, S.Faham, R.Roy, M.W.W.Adams, D.C.Rees, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.85
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 100.340, 170.850, 180.640, 90.00, 90.00, 90.00
R / Rfree (%) 17.4 / 22

Other elements in 1b25:

The structure of Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms
Iron (Fe) 16 atoms

Tungsten Binding Sites:

The binding sites of Tungsten atom in the Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus (pdb code 1b25). This binding sites where shown within 5.0 Angstroms radius around Tungsten atom.
In total 4 binding sites of Tungsten where determined in the Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus, PDB code: 1b25:
Jump to Tungsten binding site number: 1; 2; 3; 4;

Tungsten binding site 1 out of 4 in 1b25

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Tungsten binding site 1 out of 4 in the Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 1 of Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:W800

b:22.9
occ:1.00
W1 A:PTT800 0.0 22.9 1.0
OX1 A:PTT800 2.1 16.6 1.0
S24 A:PTT800 2.4 20.5 1.0
S23 A:PTT800 2.5 20.1 1.0
S4 A:PTT800 2.5 20.2 1.0
S3 A:PTT800 2.5 20.1 1.0
C24 A:PTT800 3.4 18.2 1.0
C4 A:PTT800 3.4 17.5 1.0
C23 A:PTT800 3.4 20.3 1.0
C3 A:PTT800 3.4 22.1 1.0
CG A:GLU308 3.7 18.2 1.0
NE2 A:HIS437 4.2 19.9 1.0
CB A:GLU308 4.5 11.8 1.0
CE1 A:HIS437 4.7 23.7 1.0
O A:HOH830 4.8 22.9 1.0
C25 A:PTT800 4.8 16.4 1.0
CG2 A:THR240 4.8 12.8 1.0
C5 A:PTT800 4.8 16.9 1.0
C22 A:PTT800 4.9 17.8 1.0
CB A:ASP306 4.9 16.6 1.0
CD A:GLU308 4.9 23.2 1.0
N A:GLU308 4.9 15.1 1.0
OE2 A:GLU308 4.9 22.2 1.0
C2 A:PTT800 4.9 15.3 1.0

Tungsten binding site 2 out of 4 in 1b25

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Tungsten binding site 2 out of 4 in the Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 2 of Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:W801

b:22.4
occ:1.00
W1 B:PTT801 0.0 22.4 1.0
OX1 B:PTT801 2.1 16.9 1.0
S3 B:PTT801 2.4 20.1 1.0
S4 B:PTT801 2.5 16.9 1.0
S23 B:PTT801 2.5 19.5 1.0
S24 B:PTT801 2.5 20.7 1.0
C23 B:PTT801 3.3 17.0 1.0
C4 B:PTT801 3.4 14.7 1.0
C24 B:PTT801 3.4 18.2 1.0
C3 B:PTT801 3.4 17.0 1.0
CG B:GLU308 3.7 17.9 1.0
NE2 B:HIS437 4.1 20.6 1.0
CB B:GLU308 4.6 12.2 1.0
CE1 B:HIS437 4.6 19.2 1.0
O B:HOH824 4.8 17.5 1.0
CD B:GLU308 4.8 20.9 1.0
CB B:ASP306 4.8 15.5 1.0
C22 B:PTT801 4.8 17.0 1.0
C5 B:PTT801 4.8 16.5 1.0
C25 B:PTT801 4.8 15.5 1.0
N B:GLU308 4.9 14.5 1.0
C2 B:PTT801 4.9 16.4 1.0
OE2 B:GLU308 4.9 21.4 1.0
CG2 B:THR240 5.0 14.8 1.0
C21 B:PTT801 5.0 17.7 1.0

Tungsten binding site 3 out of 4 in 1b25

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Tungsten binding site 3 out of 4 in the Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 3 of Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:W802

b:20.8
occ:1.00
W1 C:PTT802 0.0 20.8 1.0
OX1 C:PTT802 2.1 13.4 1.0
S4 C:PTT802 2.5 20.9 1.0
S3 C:PTT802 2.5 19.2 1.0
S24 C:PTT802 2.5 18.5 1.0
S23 C:PTT802 2.5 17.3 1.0
C24 C:PTT802 3.4 15.8 1.0
C23 C:PTT802 3.4 14.6 1.0
C4 C:PTT802 3.4 17.4 1.0
C3 C:PTT802 3.5 18.6 1.0
CG C:GLU308 3.6 11.4 1.0
NE2 C:HIS437 4.1 22.2 1.0
CB C:GLU308 4.5 14.1 1.0
CE1 C:HIS437 4.5 17.2 1.0
CD C:GLU308 4.8 17.9 1.0
C25 C:PTT802 4.8 15.0 1.0
CG2 C:THR240 4.8 10.2 1.0
C22 C:PTT802 4.8 14.6 1.0
CB C:ASP306 4.8 14.4 1.0
OE2 C:GLU308 4.8 20.6 1.0
O C:HOH841 4.9 18.0 1.0
C5 C:PTT802 4.9 13.9 1.0
N C:GLU308 4.9 16.0 1.0
C2 C:PTT802 5.0 17.1 1.0

Tungsten binding site 4 out of 4 in 1b25

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Tungsten binding site 4 out of 4 in the Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 4 of Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:W803

b:20.1
occ:1.00
W1 D:PTT803 0.0 20.1 1.0
OX1 D:PTT803 2.1 13.9 1.0
S24 D:PTT803 2.5 15.4 1.0
S4 D:PTT803 2.5 17.4 1.0
S3 D:PTT803 2.5 16.5 1.0
S23 D:PTT803 2.5 15.9 1.0
C24 D:PTT803 3.4 16.3 1.0
C23 D:PTT803 3.4 14.1 1.0
C4 D:PTT803 3.4 16.1 1.0
C3 D:PTT803 3.4 12.4 1.0
CG D:GLU308 3.6 14.3 1.0
NE2 D:HIS437 4.1 16.3 1.0
CB D:GLU308 4.5 18.8 1.0
CE1 D:HIS437 4.6 18.3 1.0
CD D:GLU308 4.7 20.4 1.0
OE2 D:GLU308 4.8 19.4 1.0
C25 D:PTT803 4.8 13.8 1.0
C22 D:PTT803 4.9 16.1 1.0
CB D:ASP306 4.9 17.0 1.0
CG2 D:THR240 4.9 12.9 1.0
C5 D:PTT803 4.9 14.9 1.0
O D:HOH836 4.9 17.5 1.0
N D:GLU308 4.9 14.8 1.0
C2 D:PTT803 4.9 16.2 1.0

Reference:

Y.Hu, S.Faham, R.Roy, M.W.Adams, D.C.Rees. Formaldehyde Ferredoxin Oxidoreductase From Pyrococcus Furiosus: the 1.85 A Resolution Crystal Structure and Its Mechanistic Implications. J.Mol.Biol. V. 286 899 1999.
ISSN: ISSN 0022-2836
PubMed: 10024458
DOI: 10.1006/JMBI.1998.2488
Page generated: Thu Oct 29 07:06:27 2020

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