Manganese in PDB 7w7b: Heme Exporter Hrtba in Complex with Protoporphyrin IX Containing Manganese(III), High Resolution Data

Protein crystallography data

The structure of Heme Exporter Hrtba in Complex with Protoporphyrin IX Containing Manganese(III), High Resolution Data, PDB code: 7w7b was solved by T.Hisano, H.Nakamura, M.M.Rahman, T.Tosha, M.Shirouzu, Y.Shiro, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.39 / 3.00
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 82.001, 133.485, 159.341, 111.65, 99.69, 94.64
R / Rfree (%) 26.6 / 29.9

Manganese Binding Sites:

The binding sites of Manganese atom in the Heme Exporter Hrtba in Complex with Protoporphyrin IX Containing Manganese(III), High Resolution Data (pdb code 7w7b). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Heme Exporter Hrtba in Complex with Protoporphyrin IX Containing Manganese(III), High Resolution Data, PDB code: 7w7b:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 7w7b

Go back to Manganese Binding Sites List in 7w7b
Manganese binding site 1 out of 2 in the Heme Exporter Hrtba in Complex with Protoporphyrin IX Containing Manganese(III), High Resolution Data


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Heme Exporter Hrtba in Complex with Protoporphyrin IX Containing Manganese(III), High Resolution Data within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn401

b:119.8
occ:1.00
MN D:MNR401 0.0 119.8 1.0
NA D:MNR401 2.0 119.8 1.0
NB D:MNR401 2.0 119.8 1.0
NC D:MNR401 2.0 119.8 1.0
ND D:MNR401 2.1 119.8 1.0
OE2 D:GLU219 2.2 151.1 1.0
OE2 B:GLU219 2.2 129.3 1.0
C1C D:MNR401 3.1 119.8 1.0
C4B D:MNR401 3.1 119.8 1.0
C1A D:MNR401 3.1 119.8 1.0
C4A D:MNR401 3.1 119.8 1.0
C1B D:MNR401 3.1 119.8 1.0
C4C D:MNR401 3.1 119.8 1.0
C4D D:MNR401 3.1 119.8 1.0
C1D D:MNR401 3.1 119.8 1.0
CHC D:MNR401 3.4 119.8 1.0
CD D:GLU219 3.4 151.7 1.0
CHA D:MNR401 3.4 119.8 1.0
CHB D:MNR401 3.4 119.8 1.0
CD B:GLU219 3.5 127.3 1.0
CHD D:MNR401 3.5 119.8 1.0
CG D:GLU219 4.1 148.4 1.0
OE1 B:GLU219 4.3 127.2 1.0
C2B D:MNR401 4.3 119.8 1.0
C3A D:MNR401 4.3 119.8 1.0
C2C D:MNR401 4.3 119.8 1.0
CG B:GLU219 4.3 125.1 1.0
C3C D:MNR401 4.3 119.8 1.0
C2A D:MNR401 4.3 119.8 1.0
C3D D:MNR401 4.4 119.8 1.0
C2D D:MNR401 4.4 119.8 1.0
C3B D:MNR401 4.4 119.8 1.0
OE1 D:GLU219 4.4 154.9 1.0
CD1 D:LEU39 4.5 193.7 1.0
NE2 D:HIS163 4.5 152.2 1.0
CB D:GLU219 4.8 147.4 1.0
CB B:GLU219 4.9 127.0 1.0
CE1 D:HIS163 4.9 150.9 1.0

Manganese binding site 2 out of 2 in 7w7b

Go back to Manganese Binding Sites List in 7w7b
Manganese binding site 2 out of 2 in the Heme Exporter Hrtba in Complex with Protoporphyrin IX Containing Manganese(III), High Resolution Data


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Heme Exporter Hrtba in Complex with Protoporphyrin IX Containing Manganese(III), High Resolution Data within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mn401

b:179.8
occ:1.00
MN H:MNR401 0.0 179.8 1.0
NA H:MNR401 2.0 179.8 1.0
NB H:MNR401 2.0 179.8 1.0
NC H:MNR401 2.0 179.8 1.0
ND H:MNR401 2.1 179.8 1.0
OE2 H:GLU219 2.2 168.4 1.0
OE2 F:GLU219 2.2 141.8 1.0
C1C H:MNR401 3.1 179.8 1.0
C1A H:MNR401 3.1 179.8 1.0
C1B H:MNR401 3.1 179.8 1.0
C4B H:MNR401 3.1 179.8 1.0
C4A H:MNR401 3.1 179.8 1.0
C4C H:MNR401 3.1 179.8 1.0
C4D H:MNR401 3.1 179.8 1.0
C1D H:MNR401 3.1 179.8 1.0
CD H:GLU219 3.3 167.4 1.0
CHC H:MNR401 3.4 179.8 1.0
CHA H:MNR401 3.4 179.8 1.0
CHB H:MNR401 3.4 179.8 1.0
CHD H:MNR401 3.5 179.8 1.0
CD F:GLU219 3.5 139.8 1.0
CG H:GLU219 3.9 165.4 1.0
CG F:GLU219 4.3 136.7 1.0
C2B H:MNR401 4.3 179.8 1.0
C3A H:MNR401 4.3 179.8 1.0
C2C H:MNR401 4.3 179.8 1.0
C3C H:MNR401 4.3 179.8 1.0
C2A H:MNR401 4.3 179.8 1.0
OE1 H:GLU219 4.4 168.1 1.0
C3D H:MNR401 4.4 179.8 1.0
C2D H:MNR401 4.4 179.8 1.0
OE1 F:GLU219 4.4 140.4 1.0
C3B H:MNR401 4.4 179.8 1.0
CD1 H:LEU39 4.5 226.8 1.0
CB H:GLU219 4.7 164.7 1.0
CE1 H:HIS163 4.8 180.4 1.0
CB F:GLU219 4.8 137.3 1.0
NE2 H:HIS163 4.8 179.5 1.0

Reference:

H.Nakamura, T.Hisano, M.M.Rahman, T.Tosha, M.Shirouzu, Y.Shiro. Heme Exporter Complexed with Amppnp To Be Published.
Page generated: Fri Apr 7 12:54:10 2023

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