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Manganese in PDB 1bfr: Iron Storage and Electron Transport

Protein crystallography data

The structure of Iron Storage and Electron Transport, PDB code: 1bfr was solved by A.Dautant, J.Yariv, J.B.Meyer, G.Precigoux, R.M.Sweet, F.Frolow, A.J.Kalb(Gilboa), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.94
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 118.700, 211.600, 123.300, 90.00, 119.10, 90.00
R / Rfree (%) 21.6 / n/a

Other elements in 1bfr:

The structure of Iron Storage and Electron Transport also contains other interesting chemical elements:

Iron (Fe) 12 atoms

Manganese Binding Sites:

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 - 48;

Binding sites:

The binding sites of Manganese atom in the Iron Storage and Electron Transport (pdb code 1bfr). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 48 binding sites of Manganese where determined in the Iron Storage and Electron Transport, PDB code: 1bfr:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Manganese binding site 1 out of 48 in 1bfr

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Manganese binding site 1 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn201

b:20.2
occ:1.00
 OE2 A:GLU51 2.1 12.3 1.0
ND1 A:HIS130 2.1 8.2 1.0
OE1 A:GLU127 2.2 15.9 1.0
OE1 A:GLU94 2.2 13.3 1.0
OE2 A:GLU94 2.4 14.4 1.0
CD A:GLU94 2.6 12.1 1.0
CD A:GLU127 2.8 13.4 1.0
CE1 A:HIS130 2.8 8.1 1.0
OE2 A:GLU127 2.9 14.4 1.0
CD A:GLU51 3.2 9.6 1.0
CG A:HIS130 3.2 6.7 1.0
OE1 A:GLU51 3.6 11.2 1.0
OH A:TYR25 3.7 11.2 1.0
CB A:HIS130 3.8 4.8 1.0
NE2 A:HIS130 4.0 6.8 1.0
CG A:GLU127 4.1 10.4 1.0
CA A:GLU127 4.1 5.8 1.0
CG A:GLU94 4.1 10.8 1.0
CE2 A:TYR25 4.2 10.1 1.0
CD2 A:HIS130 4.2 7.5 1.0
CB A:GLU127 4.3 7.6 1.0
MN A:MN202 4.4 17.6 1.0
CZ A:TYR25 4.4 11.0 1.0
CG A:GLU51 4.4 6.6 1.0
N A:GLU127 4.8 7.4 1.0
O A:GLU127 4.9 5.1 1.0
O A:ASP126 4.9 10.2 1.0

Manganese binding site 2 out of 48 in 1bfr

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Manganese binding site 2 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn202

b:17.6
occ:1.00
 OE1 A:GLU51 2.0 11.2 1.0
OE1 A:GLU18 2.1 10.0 1.0
OE2 A:GLU18 2.3 11.6 1.0
ND1 A:HIS54 2.5 2.0 1.0
OE2 A:GLU127 2.5 14.4 1.0
CD A:GLU18 2.5 9.8 1.0
CD A:GLU51 3.0 9.6 1.0
CD A:GLU127 3.1 13.4 1.0
CG A:HIS54 3.4 2.8 1.0
CE1 A:HIS54 3.4 2.0 1.0
OE2 A:GLU51 3.4 12.3 1.0
OE1 A:GLU127 3.5 15.9 1.0
CB A:HIS54 3.8 2.6 1.0
CG A:GLU18 4.0 8.3 1.0
CG2 A:ILE123 4.1 2.0 1.0
CG A:GLU51 4.2 6.6 1.0
CG A:GLU127 4.2 10.4 1.0
CA A:GLU51 4.4 3.1 1.0
MN A:MN201 4.4 20.2 1.0
CB A:GLU51 4.4 3.7 1.0
NE2 A:HIS54 4.5 2.0 1.0
CD2 A:HIS54 4.6 2.1 1.0
CB A:GLU18 4.8 6.6 1.0

Manganese binding site 3 out of 48 in 1bfr

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Manganese binding site 3 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn201

b:27.5
occ:1.00
 OE2 B:GLU51 2.0 12.1 1.0
ND1 B:HIS130 2.1 8.4 1.0
OE1 B:GLU127 2.2 16.1 1.0
OE1 B:GLU94 2.4 14.2 1.0
OE2 B:GLU94 2.6 14.9 1.0
CE1 B:HIS130 2.7 7.5 1.0
CD B:GLU127 2.7 13.3 1.0
OE2 B:GLU127 2.8 14.7 1.0
CD B:GLU94 2.9 12.8 1.0
CD B:GLU51 3.1 8.7 1.0
CG B:HIS130 3.2 7.1 1.0
OE1 B:GLU51 3.5 10.1 1.0
CB B:HIS130 3.8 5.0 1.0
NE2 B:HIS130 3.9 6.3 1.0
OH B:TYR25 3.9 11.3 1.0
CG B:GLU127 4.1 10.1 1.0
CA B:GLU127 4.1 6.2 1.0
CD2 B:HIS130 4.1 7.4 1.0
MN B:MN202 4.2 15.2 1.0
CE2 B:TYR25 4.3 9.7 1.0
CG B:GLU51 4.3 6.0 1.0
CB B:GLU127 4.3 7.2 1.0
CG B:GLU94 4.4 11.3 1.0
CZ B:TYR25 4.5 10.9 1.0
N B:GLU127 4.7 8.1 1.0
O B:ASP126 4.8 11.1 1.0
O B:GLU127 4.9 5.8 1.0

Manganese binding site 4 out of 48 in 1bfr

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Manganese binding site 4 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn202

b:15.2
occ:1.00
 OE1 B:GLU51 2.0 10.1 1.0
OE1 B:GLU18 2.1 8.5 1.0
OE2 B:GLU18 2.3 11.2 1.0
OE2 B:GLU127 2.4 14.7 1.0
CD B:GLU18 2.5 8.8 1.0
ND1 B:HIS54 2.5 2.0 1.0
CD B:GLU51 2.9 8.7 1.0
CD B:GLU127 3.1 13.3 1.0
OE2 B:GLU51 3.4 12.1 1.0
OE1 B:GLU127 3.4 16.1 1.0
CE1 B:HIS54 3.4 2.0 1.0
CG B:HIS54 3.5 2.3 1.0
CB B:HIS54 3.8 2.3 1.0
CG B:GLU18 4.0 8.0 1.0
CG B:GLU51 4.1 6.0 1.0
CG B:GLU127 4.1 10.1 1.0
CG2 B:ILE123 4.2 2.2 1.0
MN B:MN201 4.2 27.5 1.0
CB B:GLU51 4.4 4.0 1.0
CA B:GLU51 4.4 3.2 1.0
NE2 B:HIS54 4.6 2.0 1.0
CD2 B:HIS54 4.6 2.4 1.0
CB B:GLU18 4.9 7.0 1.0

Manganese binding site 5 out of 48 in 1bfr

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Manganese binding site 5 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn201

b:20.2
occ:1.00
 OE2 C:GLU51 2.1 12.3 1.0
ND1 C:HIS130 2.1 8.2 1.0
OE1 C:GLU127 2.2 15.9 1.0
OE1 C:GLU94 2.2 13.3 1.0
OE2 C:GLU94 2.4 14.4 1.0
CD C:GLU94 2.6 12.1 1.0
CD C:GLU127 2.8 13.4 1.0
CE1 C:HIS130 2.9 8.1 1.0
OE2 C:GLU127 2.9 14.4 1.0
CD C:GLU51 3.2 9.6 1.0
CG C:HIS130 3.2 6.7 1.0
OE1 C:GLU51 3.6 11.2 1.0
OH C:TYR25 3.7 11.2 1.0
CB C:HIS130 3.8 4.8 1.0
NE2 C:HIS130 4.0 6.8 1.0
CG C:GLU127 4.1 10.4 1.0
CA C:GLU127 4.1 5.8 1.0
CG C:GLU94 4.1 10.8 1.0
CE2 C:TYR25 4.2 10.1 1.0
CD2 C:HIS130 4.2 7.5 1.0
CB C:GLU127 4.3 7.6 1.0
MN C:MN202 4.4 17.6 1.0
CZ C:TYR25 4.4 11.0 1.0
CG C:GLU51 4.4 6.6 1.0
N C:GLU127 4.8 7.4 1.0
O C:GLU127 4.9 5.1 1.0
O C:ASP126 4.9 10.2 1.0

Manganese binding site 6 out of 48 in 1bfr

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Manganese binding site 6 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn202

b:17.6
occ:1.00
 OE1 C:GLU51 2.0 11.2 1.0
OE1 C:GLU18 2.1 10.0 1.0
OE2 C:GLU18 2.3 11.6 1.0
ND1 C:HIS54 2.5 2.0 1.0
OE2 C:GLU127 2.5 14.4 1.0
CD C:GLU18 2.5 9.8 1.0
CD C:GLU51 3.0 9.6 1.0
CD C:GLU127 3.1 13.4 1.0
CG C:HIS54 3.4 2.8 1.0
CE1 C:HIS54 3.4 2.0 1.0
OE2 C:GLU51 3.4 12.3 1.0
OE1 C:GLU127 3.5 15.9 1.0
CB C:HIS54 3.8 2.6 1.0
CG C:GLU18 4.0 8.3 1.0
CG2 C:ILE123 4.1 2.0 1.0
CG C:GLU51 4.2 6.6 1.0
CG C:GLU127 4.2 10.4 1.0
CA C:GLU51 4.4 3.1 1.0
MN C:MN201 4.4 20.2 1.0
CB C:GLU51 4.4 3.7 1.0
NE2 C:HIS54 4.5 2.0 1.0
CD2 C:HIS54 4.6 2.1 1.0
CB C:GLU18 4.8 6.6 1.0

Manganese binding site 7 out of 48 in 1bfr

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Manganese binding site 7 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn201

b:27.5
occ:1.00
 OE2 D:GLU51 2.0 12.1 1.0
ND1 D:HIS130 2.1 8.4 1.0
OE1 D:GLU127 2.2 16.1 1.0
OE1 D:GLU94 2.4 14.2 1.0
OE2 D:GLU94 2.6 14.9 1.0
CE1 D:HIS130 2.7 7.5 1.0
CD D:GLU127 2.7 13.3 1.0
OE2 D:GLU127 2.8 14.7 1.0
CD D:GLU94 2.9 12.8 1.0
CD D:GLU51 3.1 8.7 1.0
CG D:HIS130 3.2 7.1 1.0
OE1 D:GLU51 3.5 10.1 1.0
CB D:HIS130 3.8 5.0 1.0
NE2 D:HIS130 3.9 6.3 1.0
OH D:TYR25 3.9 11.3 1.0
CG D:GLU127 4.1 10.1 1.0
CA D:GLU127 4.1 6.2 1.0
CD2 D:HIS130 4.1 7.4 1.0
MN D:MN202 4.2 15.2 1.0
CE2 D:TYR25 4.3 9.7 1.0
CG D:GLU51 4.3 6.0 1.0
CB D:GLU127 4.3 7.2 1.0
CG D:GLU94 4.4 11.3 1.0
CZ D:TYR25 4.5 10.9 1.0
N D:GLU127 4.7 8.1 1.0
O D:ASP126 4.8 11.1 1.0
O D:GLU127 4.9 5.8 1.0

Manganese binding site 8 out of 48 in 1bfr

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Manganese binding site 8 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn202

b:15.2
occ:1.00
 OE1 D:GLU51 2.0 10.1 1.0
OE1 D:GLU18 2.1 8.5 1.0
OE2 D:GLU18 2.3 11.2 1.0
OE2 D:GLU127 2.4 14.7 1.0
CD D:GLU18 2.5 8.8 1.0
ND1 D:HIS54 2.5 2.0 1.0
CD D:GLU51 2.9 8.7 1.0
CD D:GLU127 3.1 13.3 1.0
OE2 D:GLU51 3.4 12.1 1.0
OE1 D:GLU127 3.4 16.1 1.0
CE1 D:HIS54 3.4 2.0 1.0
CG D:HIS54 3.5 2.3 1.0
CB D:HIS54 3.8 2.3 1.0
CG D:GLU18 4.0 8.0 1.0
CG D:GLU51 4.1 6.0 1.0
CG D:GLU127 4.1 10.1 1.0
CG2 D:ILE123 4.2 2.2 1.0
MN D:MN201 4.2 27.5 1.0
CB D:GLU51 4.4 4.0 1.0
CA D:GLU51 4.4 3.2 1.0
NE2 D:HIS54 4.6 2.0 1.0
CD2 D:HIS54 4.6 2.4 1.0
CB D:GLU18 4.9 7.0 1.0

Manganese binding site 9 out of 48 in 1bfr

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Manganese binding site 9 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 9 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mn201

b:20.2
occ:1.00
 OE2 E:GLU51 2.1 12.3 1.0
ND1 E:HIS130 2.1 8.2 1.0
OE1 E:GLU127 2.2 15.9 1.0
OE1 E:GLU94 2.2 13.3 1.0
OE2 E:GLU94 2.4 14.4 1.0
CD E:GLU94 2.6 12.1 1.0
CD E:GLU127 2.8 13.4 1.0
CE1 E:HIS130 2.9 8.1 1.0
OE2 E:GLU127 2.9 14.4 1.0
CD E:GLU51 3.2 9.6 1.0
CG E:HIS130 3.2 6.7 1.0
OE1 E:GLU51 3.6 11.2 1.0
OH E:TYR25 3.7 11.2 1.0
CB E:HIS130 3.8 4.8 1.0
NE2 E:HIS130 4.0 6.8 1.0
CG E:GLU127 4.1 10.4 1.0
CA E:GLU127 4.1 5.8 1.0
CG E:GLU94 4.1 10.8 1.0
CE2 E:TYR25 4.2 10.1 1.0
CD2 E:HIS130 4.2 7.5 1.0
CB E:GLU127 4.3 7.6 1.0
MN E:MN202 4.4 17.6 1.0
CZ E:TYR25 4.4 11.0 1.0
CG E:GLU51 4.4 6.6 1.0
N E:GLU127 4.8 7.4 1.0
O E:GLU127 4.9 5.1 1.0
O E:ASP126 4.9 10.2 1.0

Manganese binding site 10 out of 48 in 1bfr

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Manganese binding site 10 out of 48 in the Iron Storage and Electron Transport


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 10 of Iron Storage and Electron Transport within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mn202

b:17.6
occ:1.00
 OE1 E:GLU51 2.0 11.2 1.0
OE1 E:GLU18 2.1 10.0 1.0
OE2 E:GLU18 2.3 11.6 1.0
ND1 E:HIS54 2.5 2.0 1.0
OE2 E:GLU127 2.5 14.4 1.0
CD E:GLU18 2.5 9.8 1.0
CD E:GLU51 3.0 9.6 1.0
CD E:GLU127 3.1 13.4 1.0
CG E:HIS54 3.4 2.8 1.0
CE1 E:HIS54 3.4 2.0 1.0
OE2 E:GLU51 3.4 12.3 1.0
OE1 E:GLU127 3.5 15.9 1.0
CB E:HIS54 3.8 2.6 1.0
CG E:GLU18 4.0 8.3 1.0
CG2 E:ILE123 4.1 2.0 1.0
CG E:GLU51 4.1 6.6 1.0
CG E:GLU127 4.2 10.4 1.0
CA E:GLU51 4.4 3.1 1.0
MN E:MN201 4.4 20.2 1.0
CB E:GLU51 4.4 3.7 1.0
NE2 E:HIS54 4.5 2.0 1.0
CD2 E:HIS54 4.6 2.1 1.0
CB E:GLU18 4.8 6.6 1.0

Reference:

A.Dautant, J.B.Meyer, J.Yariv, G.Precigoux, R.M.Sweet, A.J.Kalb, F.Frolow. Structure of A Monoclinic Crystal From of Cyctochrome B1 (Bacterioferritin) From E. Coli. Acta Crystallogr.,Sect.D V. 54 16 1998.
ISSN: ISSN 0907-4449
PubMed: 9867433
DOI: 10.1107/S0907444997006811
Page generated: Sat Oct 5 09:47:10 2024

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