Zinc in PDB 1dv6: Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor ZN2+

The structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor ZN2+, PDB code: 1dv6 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)	27.52 / 2.50
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	141.517, 141.517, 278.506, 90.00, 90.00, 90.00
R / Rfree (%)	23.8 / 26.5

The structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor ZN2+ also contains other interesting chemical elements:

Magnesium	(Mg)	8 atoms
Iron	(Fe)	2 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Zinc atom in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor ZN2+ (pdb code 1dv6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor ZN2+, PDB code: 1dv6:
Jump to Zinc binding site number: 1; 2;

Zinc 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 ZN2+


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor ZN2+ within 5.0Å range: probe atom residue distance (Å) B Occ H:Zn1010 b:57.0 occ:1.00 O H:HOH1082 2.2 52.8 1.0 ND1 H:HIS126 2.2 56.4 1.0 ND1 H:HIS128 2.2 57.6 1.0 OD2 H:ASP124 2.3 53.8 1.0 CG H:ASP124 2.9 51.3 1.0 OD1 H:ASP124 2.9 51.4 1.0 CG H:HIS128 3.2 56.8 1.0 CG H:HIS126 3.2 56.1 1.0 CE1 H:HIS126 3.2 56.8 1.0 CE1 H:HIS128 3.3 57.5 1.0 CB H:HIS128 3.5 53.8 1.0 CB H:HIS126 3.5 55.7 1.0 CB H:ASP124 4.3 50.4 1.0 CD2 H:HIS128 4.3 57.0 1.0 CD2 H:HIS126 4.4 56.2 1.0 NE2 H:HIS126 4.4 56.8 1.0 NE2 H:HIS128 4.4 58.0 1.0 O L:HOH1016 4.4 44.1 1.0 N H:HIS126 4.5 53.7 1.0 CA H:HIS126 4.6 54.5 1.0 N H:HIS128 4.6 52.1 1.0 CA H:HIS128 4.6 52.3 1.0

Zinc 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 ZN2+


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State with the Proton Transfer Inhibitor ZN2+ within 5.0Å range: probe atom residue distance (Å) B Occ T:Zn2010 b:60.7 occ:1.00 ND1 T:HIS126 2.3 58.7 1.0 OD2 T:ASP124 2.3 55.6 1.0 ND1 T:HIS128 2.3 58.7 1.0 CG T:ASP124 3.0 53.9 1.0 OD1 T:ASP124 3.2 54.5 1.0 CE1 T:HIS126 3.2 59.1 1.0 CG T:HIS128 3.3 57.6 1.0 CE1 T:HIS128 3.3 58.5 1.0 CG T:HIS126 3.4 58.1 1.0 CB T:HIS128 3.6 55.0 1.0 CB T:HIS126 3.7 57.4 1.0 CB T:ASP124 4.4 52.3 1.0 NE2 T:HIS126 4.4 59.2 1.0 CD2 T:HIS126 4.5 58.6 1.0 CD2 T:HIS128 4.5 57.9 1.0 NE2 T:HIS128 4.5 58.6 1.0 N T:HIS126 4.7 55.8 1.0 CA T:HIS128 4.8 53.9 1.0 N T:HIS128 4.8 54.1 1.0 CA T:HIS126 4.8 56.4 1.0

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