Atomistry » Iron » PDB 1ds1-1dxr » 1ds8
Atomistry »
  Iron »
    PDB 1ds1-1dxr »
      1ds8 »

Iron in PDB 1ds8: Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor CD2+

Protein crystallography data

The structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor CD2+, PDB code: 1ds8 was solved by H.L.Axelrod, E.C.Abresch, M.L.Paddock, M.Y.Okamura, G.Feher, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.50
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 139.590, 139.590, 272.860, 90.00, 90.00, 90.00
R / Rfree (%) 22.7 / 25.6

Other elements in 1ds8:

The structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor CD2+ also contains other interesting chemical elements:

Cadmium (Cd) 2 atoms
Magnesium (Mg) 8 atoms
Chlorine (Cl) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor CD2+ (pdb code 1ds8). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor CD2+, PDB code: 1ds8:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 1ds8

Go back to Iron Binding Sites List in 1ds8
Iron binding site 1 out of 2 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor CD2+


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Fe1007

b:28.2
occ:1.00
NE2 M:HIS219 2.1 29.7 1.0
NE2 L:HIS190 2.1 29.8 1.0
NE2 M:HIS266 2.2 29.1 1.0
OE2 M:GLU234 2.2 31.4 1.0
NE2 L:HIS230 2.2 27.9 1.0
OE1 M:GLU234 2.3 30.9 1.0
CD M:GLU234 2.6 31.4 1.0
CE1 L:HIS190 3.0 30.2 1.0
CE1 M:HIS219 3.0 29.9 1.0
CE1 M:HIS266 3.0 29.5 1.0
CD2 M:HIS219 3.2 29.2 1.0
CE1 L:HIS230 3.2 27.5 1.0
CD2 L:HIS190 3.2 29.8 1.0
CD2 M:HIS266 3.3 29.7 1.0
CD2 L:HIS230 3.3 27.6 1.0
CG M:GLU234 4.1 31.6 1.0
ND1 M:HIS219 4.2 30.0 1.0
ND1 L:HIS190 4.2 31.0 1.0
ND1 M:HIS266 4.2 29.8 1.0
CG M:HIS219 4.2 30.0 1.0
CG L:HIS190 4.3 29.9 1.0
ND1 L:HIS230 4.3 27.1 1.0
CG M:HIS266 4.3 30.2 1.0
CG1 M:ILE223 4.4 29.8 1.0
CG L:HIS230 4.4 28.0 1.0
CG2 L:VAL194 4.6 28.8 1.0
O M:HOH1049 4.7 25.5 1.0
CD1 M:ILE223 4.8 29.8 1.0
CB M:GLU234 4.9 32.2 1.0

Iron binding site 2 out of 2 in 1ds8

Go back to Iron Binding Sites List in 1ds8
Iron binding site 2 out of 2 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor CD2+


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
S:Fe2007

b:32.7
occ:1.00
NE2 R:HIS190 2.0 32.3 1.0
NE2 S:HIS219 2.1 30.7 1.0
NE2 S:HIS266 2.2 31.7 1.0
OE2 S:GLU234 2.2 34.2 1.0
NE2 R:HIS230 2.2 30.9 1.0
OE1 S:GLU234 2.3 33.9 1.0
CD S:GLU234 2.5 33.7 1.0
CE1 R:HIS190 2.9 32.3 1.0
CE1 S:HIS266 3.0 31.6 1.0
CE1 S:HIS219 3.0 30.3 1.0
CD2 R:HIS190 3.1 31.9 1.0
CE1 R:HIS230 3.2 30.9 1.0
CD2 S:HIS219 3.2 30.6 1.0
CD2 S:HIS266 3.3 31.4 1.0
CD2 R:HIS230 3.3 30.7 1.0
CG S:GLU234 4.0 33.8 1.0
ND1 R:HIS190 4.1 32.3 1.0
CG R:HIS190 4.2 32.4 1.0
ND1 S:HIS266 4.2 31.7 1.0
ND1 S:HIS219 4.2 30.2 1.0
CG S:HIS219 4.3 30.7 1.0
CG S:HIS266 4.3 31.9 1.0
ND1 R:HIS230 4.3 30.4 1.0
CG R:HIS230 4.4 30.7 1.0
CG1 S:ILE223 4.4 31.5 1.0
CG2 R:VAL194 4.6 31.0 1.0
O S:HOH2033 4.8 39.5 1.0
CD1 S:ILE223 4.9 31.5 1.0
CB S:GLU234 4.9 34.0 1.0

Reference:

H.L.Axelrod, E.C.Abresch, M.L.Paddock, M.Y.Okamura, G.Feher. Determination of the Binding Sites of the Proton Transfer Inhibitors CD2+ and ZN2+ in Bacterial Reaction Centers. Proc.Natl.Acad.Sci.Usa V. 97 1542 2000.
ISSN: ISSN 0027-8424
PubMed: 10677497
DOI: 10.1073/PNAS.97.4.1542
Page generated: Sat Aug 3 03:58:30 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy