Iron in PDB 5t5m: Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.

All present enzymatic activity of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.:
1.2.99.5;

The structure of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A., PDB code: 5t5m was solved by T.Wagner, U.Ermler, S.Shima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.22 / 2.50
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	105.543, 105.543, 340.549, 90.00, 90.00, 120.00
R / Rfree (%)	15.8 / 18.2

The structure of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. also contains other interesting chemical elements:

Tungsten	(W)	1 atom
Magnesium	(Mg)	3 atoms
Potassium	(K)	1 atom
Zinc	(Zn)	2 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 44;

Binding sites:

The binding sites of Iron atom in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. (pdb code 5t5m). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 44 binding sites of Iron where determined in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A., PDB code: 5t5m:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe502 b:60.5 occ:1.00 FE1 B:SF4502 0.0 60.5 1.0 S3 B:SF4502 2.0 50.4 1.0 S4 B:SF4502 2.0 61.1 1.0 S2 B:SF4502 2.1 63.7 1.0 SG B:CYS16 2.5 64.2 1.0 FE3 B:SF4502 2.8 67.9 1.0 FE4 B:SF4502 2.9 59.4 1.0 FE2 B:SF4502 3.0 58.4 1.0 CB B:CYS16 3.2 67.5 1.0 S1 B:SF4502 3.6 57.3 1.0 N B:CYS16 3.9 61.4 1.0 CD B:ARG159 4.0 63.3 1.0 CA B:CYS16 4.1 65.5 1.0 CB B:THR14 4.3 55.4 1.0 CG2 B:THR14 4.3 53.9 1.0 NH1 B:ARG159 4.4 64.2 1.0 CB B:ARG159 4.5 62.6 1.0 CG B:ARG159 4.5 62.8 1.0 CB B:CYS9 4.6 67.6 1.0 N B:LEU15 4.9 56.4 1.0 SG B:CYS9 4.9 68.1 1.0

Iron binding site 2 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe502 b:58.4 occ:1.00 FE2 B:SF4502 0.0 58.4 1.0 S4 B:SF4502 2.0 61.1 1.0 S3 B:SF4502 2.1 50.4 1.0 S1 B:SF4502 2.1 57.3 1.0 SG B:CYS12 2.5 69.3 1.0 FE3 B:SF4502 2.8 67.9 1.0 FE4 B:SF4502 2.9 59.4 1.0 FE1 B:SF4502 3.0 60.5 1.0 CB B:CYS12 3.1 65.8 1.0 S2 B:SF4502 3.6 63.7 1.0 N B:CYS12 3.7 62.0 1.0 CA B:CYS12 3.9 62.7 1.0 CB B:THR14 4.1 55.4 1.0 C B:CYS12 4.2 62.0 1.0 O B:CYS12 4.3 63.7 1.0 OG1 B:THR14 4.4 57.3 1.0 CD B:PRO158 4.5 50.5 1.0 CD2 B:PHE11 4.5 65.9 1.0 N B:THR14 4.7 54.9 1.0 SG B:CYS35 4.8 65.0 1.0 CB B:PHE11 4.8 65.0 1.0 C B:PHE11 4.9 60.4 1.0 N B:LEU15 5.0 56.4 1.0 CA B:THR14 5.0 54.7 1.0 SG B:CYS9 5.0 68.1 1.0 CA B:HIS157 5.0 52.2 1.0

Iron binding site 3 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe502 b:67.9 occ:1.00 FE3 B:SF4502 0.0 67.9 1.0 S2 B:SF4502 2.0 63.7 1.0 S1 B:SF4502 2.0 57.3 1.0 S4 B:SF4502 2.0 61.1 1.0 SG B:CYS35 2.4 65.0 1.0 FE4 B:SF4502 2.8 59.4 1.0 FE1 B:SF4502 2.8 60.5 1.0 FE2 B:SF4502 2.8 58.4 1.0 CB B:CYS35 3.3 66.8 1.0 S3 B:SF4502 3.4 50.4 1.0 N B:CYS35 4.0 65.9 1.0 CD B:PRO158 4.1 50.5 1.0 CD B:ARG159 4.2 63.3 1.0 CA B:CYS35 4.2 66.6 1.0 CG B:ARG159 4.2 62.8 1.0 N B:GLY38 4.4 63.7 1.0 CG B:PRO158 4.6 51.4 1.0 N B:ARG159 4.6 60.5 1.0 CB B:PRO158 4.7 53.0 1.0 N B:PRO158 4.7 50.6 1.0 CA B:GLY38 4.7 63.5 1.0 CB B:ARG159 4.8 62.6 1.0 C B:CYS35 4.9 66.6 1.0

Iron binding site 4 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe502 b:59.4 occ:1.00 FE4 B:SF4502 0.0 59.4 1.0 S2 B:SF4502 2.0 63.7 1.0 S1 B:SF4502 2.1 57.3 1.0 S3 B:SF4502 2.1 50.4 1.0 SG B:CYS9 2.4 68.1 1.0 FE3 B:SF4502 2.8 67.9 1.0 FE1 B:SF4502 2.9 60.5 1.0 FE2 B:SF4502 2.9 58.4 1.0 CB B:CYS9 3.2 67.6 1.0 S4 B:SF4502 3.4 61.1 1.0 CA B:GLY38 4.0 63.5 1.0 CB B:PHE11 4.3 65.0 1.0 N B:GLY38 4.4 63.7 1.0 CA B:CYS9 4.6 67.8 1.0 N B:CYS12 4.6 62.0 1.0 SG B:CYS35 4.6 65.0 1.0 N B:PHE11 4.7 64.0 1.0 C B:CYS9 4.9 67.2 1.0 O B:CYS9 4.9 63.2 1.0 CA B:PHE11 5.0 62.5 1.0

Iron binding site 5 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe501 b:56.1 occ:1.00 FE1 F:SF4501 0.0 56.1 1.0 S2 F:SF4501 2.0 41.5 1.0 S3 F:SF4501 2.0 50.1 1.0 S4 F:SF4501 2.1 49.9 1.0 SG F:CYS204 2.4 58.5 1.0 FE2 F:SF4501 3.0 53.4 1.0 FE4 F:SF4501 3.0 51.5 1.0 CB F:CYS204 3.1 59.6 1.0 FE3 F:SF4501 3.1 53.4 1.0 CA F:CYS204 3.6 60.0 1.0 S1 F:SF4501 3.8 51.1 1.0 CD F:PRO205 3.8 62.7 1.0 CB F:ALA208 4.3 59.9 1.0 C F:CYS204 4.4 62.0 1.0 CD1 F:ILE209 4.4 62.4 1.0 N F:PRO205 4.4 62.3 1.0 CG1 F:ILE209 4.4 64.9 1.0 CG2 F:VAL206 4.4 60.1 1.0 N F:ALA208 4.8 60.2 1.0 N F:CYS204 4.8 59.4 1.0 SG F:CYS157 4.9 56.1 1.0 CG F:PRO205 4.9 64.7 1.0 N F:VAL206 5.0 62.6 1.0

Iron binding site 6 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe501 b:53.4 occ:1.00 FE2 F:SF4501 0.0 53.4 1.0 S1 F:SF4501 2.0 51.1 1.0 S4 F:SF4501 2.1 49.9 1.0 S3 F:SF4501 2.1 50.1 1.0 SG F:CYS157 2.5 56.1 1.0 FE4 F:SF4501 2.8 51.5 1.0 FE3 F:SF4501 2.8 53.4 1.0 FE1 F:SF4501 3.0 56.1 1.0 S2 F:SF4501 3.3 41.5 1.0 N F:CYS157 3.4 57.0 1.0 CB F:CYS157 3.6 57.3 1.0 N F:GLY158 3.6 58.8 1.0 CA F:CYS157 3.9 56.4 1.0 CD F:PRO205 4.1 62.7 1.0 C F:CYS157 4.1 56.9 1.0 N F:MET159 4.2 56.3 1.0 N F:TYR156 4.3 53.5 1.0 C F:TYR156 4.3 57.1 1.0 CA F:TYR156 4.5 56.0 1.0 CA F:GLY158 4.6 59.5 1.0 CG F:PRO205 4.7 64.7 1.0 CG1 F:ILE155 4.8 53.6 1.0 N F:CYS160 4.9 57.6 1.0 C F:GLY158 4.9 60.3 1.0 SG F:CYS154 5.0 53.9 1.0 SG F:CYS160 5.0 62.2 1.0

Iron binding site 7 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe501 b:53.4 occ:1.00 FE3 F:SF4501 0.0 53.4 1.0 S4 F:SF4501 2.0 49.9 1.0 S1 F:SF4501 2.0 51.1 1.0 S2 F:SF4501 2.1 41.5 1.0 SG F:CYS154 2.4 53.9 1.0 FE2 F:SF4501 2.8 53.4 1.0 FE4 F:SF4501 3.0 51.5 1.0 FE1 F:SF4501 3.1 56.1 1.0 CB F:CYS154 3.3 59.0 1.0 S3 F:SF4501 3.6 50.1 1.0 N F:TYR156 3.6 53.5 1.0 CA F:CYS154 3.7 59.9 1.0 N F:ILE155 3.9 52.4 1.0 CA F:TYR156 4.1 56.0 1.0 C F:CYS154 4.2 56.5 1.0 CD1 F:ILE187 4.2 59.7 1.0 N F:CYS157 4.6 57.0 1.0 C F:ILE155 4.6 52.8 1.0 C F:TYR156 4.8 57.1 1.0 CA F:ILE155 4.9 52.9 1.0 CB F:ALA208 4.9 59.9 1.0

Iron binding site 8 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe501 b:51.5 occ:1.00 FE4 F:SF4501 0.0 51.5 1.0 S3 F:SF4501 2.0 50.1 1.0 S2 F:SF4501 2.1 41.5 1.0 S1 F:SF4501 2.1 51.1 1.0 SG F:CYS160 2.5 62.2 1.0 FE2 F:SF4501 2.8 53.4 1.0 FE3 F:SF4501 3.0 53.4 1.0 FE1 F:SF4501 3.0 56.1 1.0 CB F:CYS160 3.1 58.9 1.0 S4 F:SF4501 3.5 49.9 1.0 N F:CYS160 3.9 57.6 1.0 CD1 F:ILE187 4.0 59.7 1.0 CA F:CYS160 4.1 57.2 1.0 CD1 F:ILE209 4.2 62.4 1.0 N F:MET159 4.8 56.3 1.0 SG F:CYS157 4.9 56.1 1.0 N F:GLY158 4.9 58.8 1.0 CG1 F:ILE209 5.0 64.9 1.0 N F:GLU161 5.0 58.2 1.0

Iron binding site 9 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe502 b:52.1 occ:1.00 FE1 F:SF4502 0.0 52.1 1.0 S3 F:SF4502 2.0 52.1 1.0 S2 F:SF4502 2.0 46.8 1.0 S4 F:SF4502 2.2 49.1 1.0 SG F:CYS197 2.4 58.1 1.0 FE4 F:SF4502 2.9 53.5 1.0 FE2 F:SF4502 3.0 50.2 1.0 FE3 F:SF4502 3.0 53.7 1.0 N F:CYS197 3.3 51.5 1.0 CB F:CYS197 3.5 55.7 1.0 N F:GLY198 3.7 61.2 1.0 S1 F:SF4502 3.7 53.6 1.0 CA F:CYS197 3.8 52.9 1.0 C F:CYS197 4.1 54.7 1.0 CD F:PRO165 4.2 55.3 1.0 N F:ILE199 4.2 58.1 1.0 N F:HIS196 4.3 56.0 1.0 C F:HIS196 4.4 54.1 1.0 CA F:HIS196 4.5 56.0 1.0 CG F:PRO165 4.6 56.3 1.0 CA F:GLY198 4.7 64.8 1.0 CB F:ILE199 4.7 51.0 1.0 CG2 F:VAL195 4.8 54.5 1.0 C F:GLY198 4.9 63.4 1.0 N F:CYS200 4.9 58.4 1.0 SG F:CYS200 4.9 62.2 1.0

Iron binding site 10 out of 44 in the Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Tungsten-Containing Formylmethanofuran Dehydrogenase From Methanothermobacter Wolfeii, Trigonal Form at 2.5 A. within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe502 b:50.2 occ:1.00 FE2 F:SF4502 0.0 50.2 1.0 S4 F:SF4502 2.0 49.1 1.0 S1 F:SF4502 2.1 53.6 1.0 S3 F:SF4502 2.1 52.1 1.0 SG F:CYS164 2.4 52.5 1.0 FE3 F:SF4502 2.8 53.7 1.0 FE1 F:SF4502 3.0 52.1 1.0 FE4 F:SF4502 3.0 53.5 1.0 CB F:CYS164 3.3 55.8 1.0 S2 F:SF4502 3.6 46.8 1.0 CA F:CYS164 3.8 58.1 1.0 CD F:PRO165 3.9 55.3 1.0 CG2 F:VAL166 4.3 53.2 1.0 CB F:ALA168 4.3 59.1 1.0 C F:CYS164 4.5 58.7 1.0 N F:PRO165 4.5 56.0 1.0 CD1 F:ILE169 4.6 52.5 1.0 CG1 F:ILE169 4.8 53.5 1.0 CG F:PRO165 4.9 56.3 1.0 N F:ALA168 4.9 60.8 1.0 SG F:CYS197 5.0 58.1 1.0 N F:CYS164 5.0 59.8 1.0

T.Wagner, U.Ermler, S.Shima. The Methanogenic CO2 Reducing-and-Fixing Enzyme Is Bifunctional and Contains 46 [4FE-4S] Clusters. Science V. 354 114 2016.
ISSN: ESSN 1095-9203
PubMed: 27846502
DOI: 10.1126/SCIENCE.AAF9284