Nickel in PDB 1qy7: The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942

The structure of The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942, PDB code: 1qy7 was solved by Y.Xu, P.D.Carr, P.Clancy, M.Garcia-Dominguez, K.Forchhammer, F.Florencio, N.Tandeau De Marsac, S.G.Vasudevan, D.L.Ollis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 2.00
Space group	I 41 2 2
Cell size a, b, c (Å), α, β, γ (°)	109.700, 109.700, 109.680, 90.00, 90.00, 90.00
R / Rfree (%)	19.9 / 22.7

The binding sites of Nickel atom in the The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942 (pdb code 1qy7). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 3 binding sites of Nickel where determined in the The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942, PDB code: 1qy7:
Jump to Nickel binding site number: 1; 2; 3;

Nickel binding site 1 out of 3 in the The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni142 b:24.4 occ:1.00 OD1 A:ASP110 2.0 24.5 1.0 O A:HOH184 2.1 25.0 1.0 O A:MET1 2.1 13.4 1.0 N A:MET1 2.2 13.7 1.0 O A:HOH183 2.2 27.4 1.0 O A:VAL96 2.2 10.6 1.0 C A:MET1 2.9 12.7 1.0 CG A:ASP110 3.0 25.4 1.0 CA A:MET1 3.0 12.8 1.0 OD2 A:ASP110 3.3 22.8 1.0 C A:VAL96 3.3 9.8 1.0 N A:VAL96 3.8 7.4 1.0 CB A:MET1 3.8 16.5 1.0 OD2 A:ASP67 4.1 25.1 1.0 CA A:VAL96 4.1 8.7 1.0 N A:LYS2 4.2 10.7 1.0 N A:ASP97 4.2 11.3 1.0 O A:HOH164 4.2 31.9 1.0 CA A:ASP97 4.3 13.3 1.0 CB A:ASP110 4.3 25.4 1.0 CB A:VAL96 4.5 9.0 1.0 CE A:MET1 4.7 24.5 1.0 SD A:MET1 4.7 32.0 1.0 OD1 A:ASP67 4.8 30.0 1.0 C A:ASP97 4.8 11.5 1.0 C A:PRO95 4.8 8.0 1.0 CG A:MET1 4.9 22.2 1.0 CG A:ASP67 4.9 24.8 1.0 CA A:LYS2 4.9 12.0 1.0 CA A:PRO95 5.0 8.5 1.0 O A:ASP97 5.0 9.7 1.0

Nickel binding site 2 out of 3 in the The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ni143 b:23.7 occ:1.00 OD1 B:ASP110 2.0 22.0 1.0 O B:HOH183 2.1 26.1 1.0 O B:MET1 2.1 11.0 1.0 N B:MET1 2.2 14.4 1.0 O B:VAL96 2.2 10.6 1.0 O B:HOH170 2.2 28.9 1.0 C B:MET1 2.9 11.8 1.0 CG B:ASP110 3.0 25.0 1.0 CA B:MET1 3.0 12.9 1.0 OD2 B:ASP110 3.2 24.6 1.0 C B:VAL96 3.3 10.2 1.0 N B:VAL96 3.8 9.3 1.0 CB B:MET1 3.8 16.0 1.0 O B:HOH165 4.1 37.6 1.0 OD2 B:ASP67 4.1 24.7 1.0 CA B:VAL96 4.1 8.8 1.0 N B:LYS2 4.2 10.1 1.0 N B:ASP97 4.2 10.4 1.0 CA B:ASP97 4.3 12.8 1.0 CB B:ASP110 4.3 24.4 1.0 CB B:VAL96 4.5 9.4 1.0 CE B:MET1 4.7 23.7 1.0 SD B:MET1 4.7 31.6 1.0 OD1 B:ASP67 4.8 29.7 1.0 C B:ASP97 4.8 11.5 1.0 C B:PRO95 4.8 8.7 1.0 CG B:MET1 4.9 22.7 1.0 CG B:ASP67 4.9 23.6 1.0 CA B:LYS2 4.9 12.4 1.0 O B:ASP97 5.0 7.7 1.0 CA B:PRO95 5.0 9.3 1.0

Nickel binding site 3 out of 3 in the The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 3 of The Structure of the Pii Protein From the Cyanobacteria Synechococcus Sp. Pcc 7942 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ni141 b:23.1 occ:1.00 OD1 C:ASP110 2.1 21.6 1.0 O C:MET1 2.1 12.8 1.0 O C:HOH190 2.1 26.4 1.0 N C:MET1 2.1 13.4 1.0 O C:HOH191 2.2 31.1 1.0 O C:VAL96 2.2 11.1 1.0 C C:MET1 2.8 12.9 1.0 CA C:MET1 2.9 13.6 1.0 CG C:ASP110 3.0 24.3 1.0 OD2 C:ASP110 3.3 21.6 1.0 C C:VAL96 3.3 10.9 1.0 N C:VAL96 3.7 8.4 1.0 CB C:MET1 3.8 16.4 1.0 OD2 C:ASP67 4.1 24.7 1.0 N C:LYS2 4.1 11.3 1.0 CA C:VAL96 4.1 9.1 1.0 O C:HOH163 4.2 37.2 1.0 N C:ASP97 4.3 11.2 1.0 CA C:ASP97 4.4 12.7 1.0 CB C:ASP110 4.4 24.8 1.0 CB C:VAL96 4.5 8.9 1.0 SD C:MET1 4.7 31.3 1.0 CE C:MET1 4.7 25.4 1.0 OD1 C:ASP67 4.7 28.4 1.0 CG C:MET1 4.8 22.6 1.0 CG C:ASP67 4.8 23.3 1.0 C C:PRO95 4.8 8.2 1.0 CA C:LYS2 4.8 12.4 1.0 C C:ASP97 4.9 12.2 1.0 CD C:LYS2 5.0 19.2 1.0 CA C:PRO95 5.0 9.0 1.0

Y.Xu, P.D.Carr, P.Clancy, M.Garcia-Dominguez, K.Forchhammer, F.Florencio, S.G.Vasudevan, N.Tandeau De Marsac, D.L.Ollis. The Structures of the Pii Proteins From the Cyanobacteria Synechococcus Sp. Pcc 7942 and Synechocystis Sp. Pcc 6803. Acta Crystallogr.,Sect.D V. 59 2183 2003.
ISSN: ISSN 0907-4449
PubMed: 14646076
DOI: 10.1107/S0907444903019589