Zinc in PDB 5mlt: Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae

The structure of Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae, PDB code: 5mlt was solved by S.Culurgioni, M.Tang, M.A.Walsh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.64 / 1.61
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	104.240, 82.540, 60.350, 90.00, 107.76, 90.00
R / Rfree (%)	19.3 / 22.9

The binding sites of Zinc atom in the Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae (pdb code 5mlt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae, PDB code: 5mlt:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:17.2 occ:1.00 OE2 A:GLU256 1.8 18.1 1.0 O A:HOH643 2.0 19.6 1.0 NE2 A:HIS252 2.1 15.9 1.0 CD A:GLU256 2.9 16.1 1.0 CD2 A:HIS252 3.1 14.2 1.0 CE1 A:HIS252 3.1 15.9 1.0 CG A:GLU256 3.4 15.3 1.0 OE1 A:GLU256 4.1 18.9 1.0 ND1 A:HIS252 4.2 15.1 1.0 CG A:HIS252 4.2 14.8 1.0 O A:HOH784 4.5 36.3 1.0 CB A:GLU256 4.9 15.2 1.0

Zinc binding site 2 out of 3 in the Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn502 b:15.4 occ:0.50 OD2 A:ASP212 1.9 22.1 1.0 O A:HOH888 2.0 16.7 1.0 NE2 A:HIS247 2.0 17.4 1.0 O A:HOH696 2.1 18.1 1.0 CG A:ASP212 2.8 20.3 1.0 CD2 A:HIS247 3.0 16.5 1.0 CE1 A:HIS247 3.1 17.2 1.0 OD1 A:ASP212 3.4 23.1 1.0 O A:HOH816 3.5 23.5 1.0 O A:HOH870 3.8 17.4 1.0 CB A:ASP212 3.9 19.3 1.0 O A:SER211 3.9 17.8 1.0 O A:HOH644 4.1 33.0 1.0 CG A:HIS247 4.1 15.3 1.0 ND1 A:HIS247 4.1 16.8 1.0 NE A:ARG243 4.3 19.1 1.0 CG A:ARG243 4.3 18.5 1.0 CD A:ARG243 4.3 19.0 1.0 CA A:ASP212 4.4 17.4 1.0 O A:HOH651 4.8 23.8 1.0 CB A:ARG243 4.8 18.9 1.0 O A:ARG243 4.9 17.5 1.0 C A:SER211 4.9 16.2 1.0

Zinc binding site 3 out of 3 in the Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structural Characterization of A Carbohydrate Substrate Binding Protein From Streptococcus Pneumoniae within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn503 b:54.1 occ:0.50 OE2 A:GLU365 3.1 30.7 0.4 OE2 A:GLU365 3.6 30.9 0.6 CD A:GLU365 3.9 31.2 0.4 O A:GLU368 4.0 29.1 1.0 OE1 A:GLU365 4.1 33.0 0.4 N A:GLU368 4.2 36.4 1.0 CD A:GLU365 4.5 30.4 0.6 CB A:GLU368 4.5 37.9 1.0 CA A:GLU368 4.7 33.7 1.0 C A:GLU368 4.7 28.8 1.0 O A:GLY366 4.8 36.0 1.0

S.Culurgioni, M.Tang, M.A.Walsh. Structural Characterization of the Streptococcus Pneumoniae Carbohydrate Substrate-Binding Protein SP0092. Acta Crystallogr F Struct V. 73 54 2017BIOL Commun.
ISSN: ESSN 2053-230X
PubMed: 28045395
DOI: 10.1107/S2053230X16020252