Atomistry » Manganese » PDB 7mxs-7ohg » 7o93
Atomistry »
  Manganese »
    PDB 7mxs-7ohg »
      7o93 »

Manganese in PDB 7o93: Dimn-Sulerythrin

Protein crystallography data

The structure of Dimn-Sulerythrin, PDB code: 7o93 was solved by J.-H.Jeoung, H.Dobbek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.96 / 1.17
Space group P 63
Cell size a, b, c (Å), α, β, γ (°) 72.611, 72.611, 99.272, 90, 90, 120
R / Rfree (%) 12.5 / 14.4

Other elements in 7o93:

The structure of Dimn-Sulerythrin also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Dimn-Sulerythrin (pdb code 7o93). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Dimn-Sulerythrin, PDB code: 7o93:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in 7o93

Go back to Manganese Binding Sites List in 7o93
Manganese binding site 1 out of 4 in the Dimn-Sulerythrin


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Dimn-Sulerythrin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn202

b:9.1
occ:0.89
OE2 B:GLU53 2.1 9.6 1.0
OE2 A:GLU126 2.1 9.9 1.0
ND1 A:HIS129 2.2 9.2 1.0
OE2 A:GLU92 2.2 10.5 1.0
O1 A:PEO204 2.2 12.6 0.8
OE1 A:GLU92 2.3 10.8 1.0
CD A:GLU92 2.6 10.2 1.0
CD B:GLU53 3.0 9.0 1.0
CE1 A:HIS129 3.1 9.7 1.0
CD A:GLU126 3.1 9.2 1.0
O2 A:PEO204 3.2 11.9 0.8
OE1 B:GLU53 3.2 9.4 1.0
CG A:HIS129 3.3 8.9 1.0
CB A:HIS129 3.7 9.3 1.0
MN B:MN201 3.8 8.6 0.9
OE1 A:GLU126 3.8 11.2 1.0
OE1 A:GLU95 4.1 16.4 1.0
CG A:GLU92 4.1 10.6 1.0
CG A:GLU126 4.1 9.8 1.0
CA A:GLU126 4.2 9.2 1.0
CB A:GLU126 4.3 9.0 1.0
NE2 A:HIS129 4.3 9.8 1.0
CG B:GLU53 4.4 8.5 1.0
CD2 A:HIS129 4.4 9.4 1.0
CG2 B:ILE49 4.4 9.1 1.0
OH B:TYR27 4.5 11.4 1.0
CE2 B:TYR27 4.5 9.6 1.0
O A:HOH407 4.7 18.9 1.0
CB A:GLU92 4.9 10.5 1.0

Manganese binding site 2 out of 4 in 7o93

Go back to Manganese Binding Sites List in 7o93
Manganese binding site 2 out of 4 in the Dimn-Sulerythrin


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Dimn-Sulerythrin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn203

b:12.2
occ:0.94
OE1 B:GLU126 2.1 14.6 1.0
OE1 A:GLU53 2.1 12.4 1.0
OE2 A:GLU20 2.2 12.9 1.0
ND1 A:HIS56 2.2 13.1 1.0
O1 B:PEO203 2.3 14.6 0.8
OE1 A:GLU20 2.3 13.3 1.0
CD A:GLU20 2.6 12.2 1.0
CD B:GLU126 2.9 13.9 1.0
OE2 B:GLU126 3.1 14.4 1.0
CD A:GLU53 3.1 12.0 1.0
CE1 A:HIS56 3.1 13.1 1.0
O2 B:PEO203 3.3 15.9 0.8
CG A:HIS56 3.3 12.6 1.0
CB A:HIS56 3.7 12.0 1.0
OE2 A:GLU53 3.7 13.3 1.0
MN B:MN202 3.8 13.1 0.9
CG A:GLU20 4.1 11.7 1.0
CA A:GLU53 4.2 11.4 1.0
CG A:GLU53 4.2 11.1 1.0
O B:HOH302 4.3 24.1 1.0
CG B:GLU126 4.3 14.1 1.0
NE2 A:HIS56 4.3 13.3 1.0
CB A:GLU53 4.3 10.7 1.0
OE1 B:GLU95 4.4 19.2 0.5
OE2 B:GLU95 4.4 21.4 0.5
CD2 A:HIS56 4.4 12.8 1.0
OE1 B:GLU95 4.5 19.2 0.5
OH B:TYR100 4.7 14.4 1.0
CD B:GLU95 4.7 17.9 0.5
CE2 B:TYR100 4.8 13.8 1.0
CE1 B:HIS129 4.8 13.3 1.0
N A:GLU53 4.9 11.0 1.0
CB A:GLU20 4.9 11.2 1.0
O A:GLY52 4.9 12.2 1.0
ND1 B:HIS129 5.0 13.4 1.0

Manganese binding site 3 out of 4 in 7o93

Go back to Manganese Binding Sites List in 7o93
Manganese binding site 3 out of 4 in the Dimn-Sulerythrin


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Dimn-Sulerythrin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn201

b:8.6
occ:0.87
OE1 A:GLU126 2.1 11.2 1.0
OE1 B:GLU53 2.1 9.4 1.0
OE2 B:GLU20 2.2 10.1 1.0
ND1 B:HIS56 2.2 8.8 1.0
O2 A:PEO204 2.2 11.9 0.8
OE1 B:GLU20 2.3 10.5 1.0
CD B:GLU20 2.6 9.5 1.0
CD A:GLU126 2.9 9.2 1.0
OE2 A:GLU126 3.1 9.9 1.0
CE1 B:HIS56 3.1 9.5 1.0
CD B:GLU53 3.1 9.0 1.0
CG B:HIS56 3.3 8.8 1.0
O1 A:PEO204 3.3 12.6 0.8
CB B:HIS56 3.7 9.2 1.0
OE2 B:GLU53 3.8 9.6 1.0
MN A:MN202 3.8 9.1 0.9
CG B:GLU20 4.1 9.9 1.0
CA B:GLU53 4.2 8.3 1.0
CG B:GLU53 4.2 8.5 1.0
O A:HOH329 4.3 19.5 1.0
CG A:GLU126 4.3 9.8 1.0
NE2 B:HIS56 4.3 9.7 1.0
CB B:GLU53 4.3 8.4 1.0
CD2 B:HIS56 4.4 9.4 1.0
OE1 A:GLU95 4.6 16.4 1.0
OH A:TYR100 4.7 11.0 1.0
CE2 A:TYR100 4.8 10.2 1.0
CE1 A:HIS129 4.8 9.7 1.0
N B:GLU53 4.9 8.3 1.0
CB B:GLU20 4.9 9.8 1.0
O B:GLY52 5.0 9.3 1.0
ND1 A:HIS129 5.0 9.2 1.0

Manganese binding site 4 out of 4 in 7o93

Go back to Manganese Binding Sites List in 7o93
Manganese binding site 4 out of 4 in the Dimn-Sulerythrin


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Dimn-Sulerythrin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn202

b:13.1
occ:0.92
OE2 A:GLU53 2.1 13.3 1.0
OE2 B:GLU126 2.1 14.4 1.0
ND1 B:HIS129 2.2 13.4 1.0
OE2 B:GLU92 2.2 14.4 1.0
O2 B:PEO203 2.2 15.9 0.8
OE1 B:GLU92 2.3 13.9 1.0
CD B:GLU92 2.6 13.5 1.0
CD A:GLU53 3.0 12.0 1.0
CE1 B:HIS129 3.1 13.3 1.0
CD B:GLU126 3.1 13.9 1.0
OE1 A:GLU53 3.2 12.4 1.0
O1 B:PEO203 3.2 14.6 0.8
CG B:HIS129 3.3 13.7 1.0
CB B:HIS129 3.7 14.0 1.0
MN A:MN203 3.8 12.2 0.9
OE1 B:GLU126 3.8 14.6 1.0
OE1 B:GLU95 3.8 19.2 0.5
CG B:GLU92 4.1 14.3 1.0
CG B:GLU126 4.2 14.1 1.0
CA B:GLU126 4.2 15.0 1.0
OE1 B:GLU95 4.2 19.2 0.5
NE2 B:HIS129 4.3 13.8 1.0
CB B:GLU126 4.3 14.4 1.0
CG A:GLU53 4.4 11.1 1.0
CD2 B:HIS129 4.4 14.0 1.0
CG2 A:ILE49 4.4 12.3 1.0
OH A:TYR27 4.5 15.1 1.0
CE2 A:TYR27 4.6 12.8 1.0
CD B:GLU95 4.9 17.9 0.5
O B:HOH389 4.9 27.3 1.0
CB B:GLU92 4.9 14.8 1.0

Reference:

J.H.Jeoung, S.Runger, M.Haumann, B.Neumann, F.Klemke, V.Davis, A.Fischer, H.Dau, U.Wollenberger, H.Dobbek. Bimetallic Mn, Fe, Co, and Ni Sites in A Four-Helix Bundle Protein: Metal Binding, Structure, and Peroxide Activation. Inorg.Chem. 2021.
ISSN: ISSN 0020-1669
PubMed: 34757735
DOI: 10.1021/ACS.INORGCHEM.1C01919
Page generated: Sun Oct 6 10:19:20 2024

Last articles

Ca in 2Z30
Ca in 2Z2Z
Ca in 2Z2X
Ca in 2Z0J
Ca in 2Z2D
Ca in 2YZ7
Ca in 2YN3
Ca in 2YZ4
Ca in 2YOC
Ca in 2YN5
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy