Zinc in PDB 6wpm: Crystal Structure of A Putative Oligosaccharide Periplasmic-Binding Protein From Synechococcus Sp. MITS9220 in Complex with Zinc

The structure of Crystal Structure of A Putative Oligosaccharide Periplasmic-Binding Protein From Synechococcus Sp. MITS9220 in Complex with Zinc, PDB code: 6wpm was solved by B.A.Ford, K.A.Michie, I.T.Paulsen, B.C.Mabbutt, B.S.Shah, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.78 / 2.88
Space group	P 43 2 2
Cell size a, b, c (Å), α, β, γ (°)	144.778, 144.778, 53.716, 90, 90, 90
R / Rfree (%)	20.8 / 25.4

The binding sites of Zinc atom in the Crystal Structure of A Putative Oligosaccharide Periplasmic-Binding Protein From Synechococcus Sp. MITS9220 in Complex with Zinc (pdb code 6wpm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of A Putative Oligosaccharide Periplasmic-Binding Protein From Synechococcus Sp. MITS9220 in Complex with Zinc, PDB code: 6wpm:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of A Putative Oligosaccharide Periplasmic-Binding Protein From Synechococcus Sp. MITS9220 in Complex with Zinc


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of A Putative Oligosaccharide Periplasmic-Binding Protein From Synechococcus Sp. MITS9220 in Complex with Zinc within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn503 b:81.1 occ:0.50 HH21 A:ARG109 2.3 86.9 1.0 NH2 A:ARG109 3.0 79.0 1.0 HG21 A:THR89 3.0 68.0 1.0 HH22 A:ARG109 3.0 86.9 1.0 HG1 A:THR89 3.1 94.6 1.0 HA3 A:GLY114 3.1 59.5 1.0 OD2 A:ASP87 3.2 62.1 1.0 HA2 A:GLY114 3.3 59.5 1.0 HG23 A:THR89 3.6 68.0 1.0 CG2 A:THR89 3.7 81.4 1.0 CA A:GLY114 3.7 68.5 1.0 H A:GLN115 3.7 60.4 1.0 OG1 A:THR89 3.8 87.6 1.0 OD1 A:ASP87 3.9 62.0 1.0 CG A:ASP87 4.0 62.6 1.0 CZ A:ARG109 4.2 77.0 1.0 HE A:ARG109 4.2 77.0 1.0 CB A:THR89 4.3 81.8 1.0 N A:GLN115 4.4 66.0 1.0 HG22 A:THR89 4.5 68.0 1.0 HB A:THR89 4.6 67.3 1.0 NE A:ARG109 4.6 76.0 1.0 C A:GLY114 4.6 68.1 1.0 N A:GLY114 4.7 68.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of A Putative Oligosaccharide Periplasmic-Binding Protein From Synechococcus Sp. MITS9220 in Complex with Zinc


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of A Putative Oligosaccharide Periplasmic-Binding Protein From Synechococcus Sp. MITS9220 in Complex with Zinc within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn504 b:102.1 occ:1.00 HH12 A:ARG228 2.5 158.4 1.0 HH11 A:ARG228 2.8 158.4 1.0 HB3 A:ASP173 2.8 79.1 1.0 H A:GLN227 2.9 76.9 1.0 NH1 A:ARG228 2.9 127.1 1.0 H A:SER174 3.2 67.6 1.0 HB3 A:SER174 3.2 64.7 1.0 HB3 A:GLN227 3.6 88.3 1.0 HB2 A:GLN227 3.6 88.3 1.0 N A:GLN227 3.6 82.8 1.0 CB A:ASP173 3.7 79.6 1.0 N A:SER174 3.8 73.1 1.0 HA3 A:GLY226 3.8 73.6 1.0 HH2 A:TRP49 3.9 159.3 1.0 CB A:GLN227 3.9 84.9 1.0 HG3 A:ARG228 4.0 138.2 1.0 HA A:ASP173 4.0 77.1 1.0 H A:ARG228 4.0 97.4 1.0 CB A:SER174 4.1 72.7 1.0 CZ A:ARG228 4.2 125.5 1.0 CG A:ASP173 4.2 81.3 1.0 CA A:ASP173 4.3 79.0 1.0 HG21 A:THR168 4.3 68.7 1.0 CA A:GLN227 4.3 84.2 1.0 HB2 A:ASP173 4.4 79.1 1.0 C A:ASP173 4.4 79.0 1.0 CA A:SER174 4.4 71.3 1.0 OD2 A:ASP173 4.5 81.2 1.0 CA A:GLY226 4.5 68.8 1.0 C A:GLY226 4.5 68.5 1.0 HA A:SER174 4.6 58.0 1.0 HH22 A:ARG228 4.6 127.3 1.0 N A:ARG228 4.6 117.3 1.0 CH2 A:TRP49 4.7 137.7 1.0 HA2 A:GLY226 4.7 73.6 1.0 HB2 A:SER174 4.8 64.7 1.0 HZ3 A:TRP49 4.8 164.9 1.0 HD3 A:ARG228 4.8 152.0 1.0 OG A:SER174 4.8 75.6 1.0 NH2 A:ARG228 4.9 122.2 1.0 CG A:ARG228 4.9 124.5 1.0 C A:GLN227 4.9 84.2 1.0 OD1 A:ASP173 4.9 85.9 1.0 HG A:SER174 5.0 78.3 1.0

B.A.Ford, K.A.Michie, I.T.Paulsen, B.C.Mabbutt, B.S.Shah. Crystal Structure of A Putative Oligosaccharide Periplasmic-Binding Protein From Synechococcus Sp. MITS9220 in Complex with Zinc To Be Published.