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Iron in PDB 6fz6: Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus

Enzymatic activity of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus

All present enzymatic activity of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus:
2.1.1.192;

Protein crystallography data

The structure of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus, PDB code: 6fz6 was solved by P.Hinchliffe, J.M.Shaw, J.Spencer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.29 / 1.42
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 131.840, 53.140, 113.570, 90.00, 90.00, 90.00
R / Rfree (%) 16.6 / 18.7

Other elements in 6fz6:

The structure of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus also contains other interesting chemical elements:

Bromine (Br) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus (pdb code 6fz6). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 8 binding sites of Iron where determined in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus, PDB code: 6fz6:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Iron binding site 1 out of 8 in 6fz6

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Iron binding site 1 out of 8 in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus


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 A Radical Sam Methyltransferase From Sphaerobacter Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe401

b:18.9
occ:1.00
 FE1 A:SF4401 0.0 18.9 1.0
S2 A:SF4401 2.2 18.9 1.0
S3 A:SF4401 2.3 17.9 1.0
SG A:CYS110 2.3 17.3 1.0
S4 A:SF4401 2.3 19.5 1.0
FE3 A:SF4401 2.7 19.4 1.0
FE2 A:SF4401 2.7 18.7 1.0
FE4 A:SF4401 2.9 19.2 1.0
CB A:CYS110 3.2 16.5 1.0
S1 A:SF4401 3.9 18.8 1.0
N A:SAH402 4.0 18.6 1.0
CB A:VAL112 4.0 17.1 1.0
CG2 A:VAL112 4.4 20.2 1.0
C A:GLY160 4.6 16.1 1.0
N A:VAL112 4.6 17.2 1.0
CA A:CYS110 4.6 15.8 1.0
O A:GLY160 4.7 16.9 1.0
N A:GLU161 4.7 15.3 1.0
N A:GLY113 4.8 18.6 1.0
SG A:CYS117 4.8 20.3 1.0
CA A:VAL112 4.9 17.7 1.0
CB A:GLU161 4.9 17.7 1.0
SG A:CYS114 4.9 19.2 1.0
CA A:GLY160 4.9 18.1 1.0
CG1 A:VAL112 4.9 20.5 1.0
O A:SAH402 5.0 20.0 1.0

Iron binding site 2 out of 8 in 6fz6

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Iron binding site 2 out of 8 in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus


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 A Radical Sam Methyltransferase From Sphaerobacter Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe401

b:18.7
occ:1.00
 FE2 A:SF4401 0.0 18.7 1.0
S1 A:SF4401 2.2 18.8 1.0
S3 A:SF4401 2.3 17.9 1.0
S4 A:SF4401 2.3 19.5 1.0
SG A:CYS114 2.3 19.2 1.0
FE3 A:SF4401 2.7 19.4 1.0
FE1 A:SF4401 2.7 18.9 1.0
FE4 A:SF4401 2.8 19.2 1.0
CB A:CYS114 3.2 20.8 1.0
S2 A:SF4401 3.8 18.9 1.0
O A:HOH688 3.8 20.1 1.0
N A:CYS114 3.9 18.7 1.0
O A:SAH402 4.1 20.0 1.0
CG1 A:VAL112 4.2 20.5 1.0
CA A:CYS114 4.2 17.0 1.0
CB A:VAL112 4.2 17.1 1.0
CB A:CYS117 4.5 21.6 1.0
SG A:CYS117 4.6 20.3 1.0
N A:SAH402 4.8 18.6 1.0
SG A:CYS110 4.8 17.3 1.0
CB A:SER194 4.8 19.2 1.0
N A:GLY113 4.8 18.6 1.0

Iron binding site 3 out of 8 in 6fz6

Go back to Iron Binding Sites List in 6fz6
Iron binding site 3 out of 8 in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe401

b:19.4
occ:1.00
 FE3 A:SF4401 0.0 19.4 1.0
S1 A:SF4401 2.3 18.8 1.0
S2 A:SF4401 2.3 18.9 1.0
S4 A:SF4401 2.3 19.5 1.0
SG A:CYS117 2.3 20.3 1.0
FE2 A:SF4401 2.7 18.7 1.0
FE1 A:SF4401 2.7 18.9 1.0
FE4 A:SF4401 2.9 19.2 1.0
CB A:CYS117 3.1 21.6 1.0
S3 A:SF4401 3.9 17.9 1.0
N A:GLY120 4.3 21.9 1.0
SD A:SAH402 4.4 20.1 1.0
CB A:THR119 4.4 21.6 1.0
CA A:CYS117 4.6 20.5 1.0
C8 A:SAH402 4.6 19.7 1.0
SG A:CYS114 4.7 19.2 1.0
CB A:CYS114 4.8 20.8 1.0
SG A:CYS110 4.8 17.3 1.0
CA A:GLY120 4.8 23.4 1.0
O A:SAH402 4.9 20.0 1.0
CB A:CYS110 4.9 16.5 1.0
N A:SAH402 4.9 18.6 1.0

Iron binding site 4 out of 8 in 6fz6

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Iron binding site 4 out of 8 in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe401

b:19.2
occ:1.00
 FE4 A:SF4401 0.0 19.2 1.0
O A:SAH402 2.3 20.0 1.0
N A:SAH402 2.3 18.6 1.0
S1 A:SF4401 2.3 18.8 1.0
S3 A:SF4401 2.3 17.9 1.0
S2 A:SF4401 2.4 18.9 1.0
FE2 A:SF4401 2.8 18.7 1.0
FE1 A:SF4401 2.9 18.9 1.0
FE3 A:SF4401 2.9 19.4 1.0
C A:SAH402 3.0 18.6 1.0
CA A:SAH402 3.1 17.1 1.0
SD A:SAH402 3.2 20.1 1.0
CG A:SAH402 3.6 17.6 1.0
CB A:SAH402 3.9 17.6 1.0
O A:HOH688 4.0 20.1 1.0
S4 A:SF4401 4.0 19.5 1.0
OXT A:SAH402 4.2 19.5 1.0
O A:GLY160 4.4 16.9 1.0
C2' A:SAH402 4.6 22.3 1.0
OE1 A:GLU161 4.7 18.6 1.0
C5' A:SAH402 4.8 20.3 1.0
C3' A:SAH402 4.8 20.8 1.0
SG A:CYS114 4.8 19.2 1.0
CB A:SER194 4.8 19.2 1.0
SG A:CYS110 4.8 17.3 1.0

Iron binding site 5 out of 8 in 6fz6

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Iron binding site 5 out of 8 in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe401

b:16.4
occ:1.00
 FE1 B:SF4401 0.0 16.4 1.0
S4 B:SF4401 2.3 15.3 1.0
S3 B:SF4401 2.3 16.9 1.0
S2 B:SF4401 2.3 17.0 1.0
SG B:CYS110 2.3 15.3 1.0
FE4 B:SF4401 2.7 17.2 1.0
FE3 B:SF4401 2.7 16.3 1.0
FE2 B:SF4401 2.8 17.2 1.0
CB B:CYS110 3.2 15.5 1.0
S1 B:SF4401 3.9 16.5 1.0
N B:SAH402 3.9 16.4 1.0
CB B:VAL112 4.0 15.2 1.0
CG2 B:VAL112 4.4 18.1 1.0
C B:GLY160 4.6 15.7 1.0
N B:VAL112 4.6 15.2 1.0
CA B:CYS110 4.6 14.6 1.0
N B:GLU161 4.7 15.1 1.0
O B:GLY160 4.8 16.3 1.0
CB B:GLU161 4.8 16.2 1.0
SG B:CYS114 4.8 16.8 1.0
CA B:GLY160 4.8 14.6 1.0
CA B:VAL112 4.8 14.2 1.0
SG B:CYS117 4.9 17.6 1.0
N B:GLY113 4.9 16.4 1.0
CG1 B:VAL112 4.9 17.7 1.0
O B:SAH402 4.9 18.0 1.0

Iron binding site 6 out of 8 in 6fz6

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Iron binding site 6 out of 8 in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe401

b:17.2
occ:1.00
 FE2 B:SF4401 0.0 17.2 1.0
N B:SAH402 2.3 16.4 1.0
O B:SAH402 2.3 18.0 1.0
S4 B:SF4401 2.3 15.3 1.0
S1 B:SF4401 2.3 16.5 1.0
S3 B:SF4401 2.4 16.9 1.0
FE3 B:SF4401 2.8 16.3 1.0
FE1 B:SF4401 2.8 16.4 1.0
FE4 B:SF4401 2.9 17.2 1.0
C B:SAH402 3.0 17.8 1.0
CA B:SAH402 3.1 17.4 1.0
SD B:SAH402 3.1 19.2 1.0
CG B:SAH402 3.6 18.2 1.0
CB B:SAH402 3.8 18.6 1.0
S2 B:SF4401 4.0 17.0 1.0
O B:HOH677 4.1 19.4 1.0
OXT B:SAH402 4.2 18.8 1.0
O B:GLY160 4.4 16.3 1.0
C2' B:SAH402 4.7 24.0 1.0
OE1 B:GLU161 4.7 17.5 1.0
C5' B:SAH402 4.7 20.1 1.0
C3' B:SAH402 4.8 22.9 1.0
SG B:CYS114 4.8 16.8 1.0
SG B:CYS110 4.8 15.3 1.0
CB B:SER194 4.9 15.4 1.0
C B:GLY160 5.0 15.7 1.0

Iron binding site 7 out of 8 in 6fz6

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Iron binding site 7 out of 8 in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe401

b:16.3
occ:1.00
 FE3 B:SF4401 0.0 16.3 1.0
S4 B:SF4401 2.3 15.3 1.0
S1 B:SF4401 2.3 16.5 1.0
SG B:CYS114 2.3 16.8 1.0
S2 B:SF4401 2.3 17.0 1.0
FE4 B:SF4401 2.7 17.2 1.0
FE1 B:SF4401 2.7 16.4 1.0
FE2 B:SF4401 2.8 17.2 1.0
CB B:CYS114 3.2 17.5 1.0
O B:HOH677 3.8 19.4 1.0
S3 B:SF4401 3.9 16.9 1.0
N B:CYS114 3.9 15.0 1.0
O B:SAH402 4.1 18.0 1.0
CA B:CYS114 4.2 15.1 1.0
CG1 B:VAL112 4.2 17.7 1.0
CB B:VAL112 4.2 15.2 1.0
CB B:CYS117 4.5 18.8 1.0
SG B:CYS117 4.7 17.6 1.0
N B:SAH402 4.7 16.4 1.0
CB B:SER194 4.8 15.4 1.0
SG B:CYS110 4.8 15.3 1.0
N B:GLY113 4.9 16.4 1.0

Iron binding site 8 out of 8 in 6fz6

Go back to Iron Binding Sites List in 6fz6
Iron binding site 8 out of 8 in the Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe401

b:17.2
occ:1.00
 FE4 B:SF4401 0.0 17.2 1.0
S3 B:SF4401 2.2 16.9 1.0
S1 B:SF4401 2.3 16.5 1.0
S2 B:SF4401 2.3 17.0 1.0
SG B:CYS117 2.3 17.6 1.0
FE1 B:SF4401 2.7 16.4 1.0
FE3 B:SF4401 2.7 16.3 1.0
FE2 B:SF4401 2.9 17.2 1.0
CB B:CYS117 3.2 18.8 1.0
S4 B:SF4401 3.9 15.3 1.0
N B:GLY120 4.2 16.9 1.0
SD B:SAH402 4.3 19.2 1.0
CB B:THR119 4.4 17.9 1.0
CA B:CYS117 4.6 18.2 1.0
C8 B:SAH402 4.7 21.1 1.0
CB B:CYS114 4.7 17.5 1.0
SG B:CYS114 4.7 16.8 1.0
SG B:CYS110 4.8 15.3 1.0
CA B:GLY120 4.8 18.9 1.0
CB B:CYS110 4.9 15.5 1.0
N B:SAH402 4.9 16.4 1.0
O B:SAH402 4.9 18.0 1.0

Reference:

J.M.Shaw, P.Hinchliffe, J.Spencer. Crystal Structure of A Radical Sam Methyltransferase From Sphaerobacter Thermophilus To Be Published.
Page generated: Tue Aug 6 18:49:28 2024

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