Zinc in PDB 7yc6: Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase

The structure of Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase, PDB code: 7yc6 was solved by A.Chandrashekarmath, A.Bellur, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	54.63 / 2.40
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	63.08, 63.08, 101.94, 90, 90, 120
R / Rfree (%)	19.9 / 22.1

The binding sites of Zinc atom in the Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase (pdb code 7yc6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase, PDB code: 7yc6:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase


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 D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:42.9 occ:1.00 NE2 A:HIS16 2.0 14.4 1.0 CE1 A:HIS16 2.9 14.0 1.0 CD2 A:HIS16 3.1 14.1 1.0 ND1 A:HIS16 4.1 13.2 1.0 CG A:HIS16 4.2 13.4 1.0

Zinc binding site 2 out of 6 in the Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase


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 D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:24.1 occ:1.00 NE2 A:HIS163 2.1 11.5 1.0 SG A:CYS76 2.3 14.1 1.0 CE1 A:HIS163 3.0 11.4 1.0 CD2 A:HIS163 3.2 11.0 1.0 CB A:CYS76 3.3 13.2 1.0 ND1 A:HIS163 4.2 10.9 1.0 CG A:HIS163 4.3 11.1 1.0 CA A:CYS76 4.7 12.8 1.0 O A:HOH562 4.9 16.9 1.0 O A:SER124 4.9 22.1 1.0 CA A:GLY51 4.9 11.1 1.0 CB A:ALA123 5.0 19.4 1.0

Zinc binding site 3 out of 6 in the Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn403 b:28.7 occ:1.00 NE2 A:HIS125 2.2 23.7 1.0 CE1 A:HIS125 3.0 21.3 1.0 ZN A:ZN405 3.2 47.5 1.0 CD2 A:HIS125 3.3 21.9 1.0 OE2 A:GLU148 3.5 29.4 1.0 OG1 A:THR101 4.0 23.4 1.0 OE1 A:GLU148 4.1 19.7 1.0 ND1 A:HIS125 4.2 21.9 1.0 CD A:GLU148 4.2 20.4 1.0 CG A:HIS125 4.3 21.8 1.0 CG A:GLN161 4.6 11.2 1.0 O A:ALA123 4.7 20.1 1.0 CB A:THR101 4.8 21.8 1.0 SG A:CYS145 5.0 31.7 1.0 CG2 A:THR101 5.0 22.0 1.0

Zinc binding site 4 out of 6 in the Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn404 b:45.5 occ:1.00 OE2 A:GLU128 2.0 28.6 1.0 SG A:CYS145 2.4 31.7 1.0 CD A:GLU128 2.8 27.3 1.0 OE1 A:GLU128 3.0 37.9 1.0 CB A:CYS145 3.3 28.1 1.0 CA A:CYS145 3.6 26.9 1.0 ZN A:ZN405 3.9 47.5 1.0 CG A:GLU128 4.2 25.1 1.0 N A:CYS145 4.2 27.1 1.0 CG2 A:ILE144 4.4 30.8 1.0 O A:HOH524 4.5 21.1 1.0 C A:ILE144 4.7 26.3 1.0 O A:ALA93 4.7 27.7 1.0 O A:ILE144 4.8 28.5 1.0 C A:CYS145 4.8 25.7 1.0 N A:GLN146 5.0 25.4 1.0

Zinc binding site 5 out of 6 in the Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn405 b:47.5 occ:1.00 SG A:CYS145 2.2 31.7 1.0 OE1 A:GLU128 2.3 37.9 1.0 CB A:CYS145 3.0 28.1 1.0 ZN A:ZN403 3.2 28.7 1.0 CD A:GLU128 3.2 27.3 1.0 CE1 A:HIS125 3.5 21.3 1.0 OE2 A:GLU128 3.7 28.6 1.0 OE2 A:GLU148 3.9 29.4 1.0 NE2 A:HIS125 3.9 23.7 1.0 ZN A:ZN404 3.9 45.5 1.0 CB A:GLU128 4.2 22.9 1.0 CG A:GLU128 4.2 25.1 1.0 CA A:CYS145 4.5 26.9 1.0 O A:HOH524 4.6 21.1 1.0 ND1 A:HIS125 4.7 21.9 1.0 CB A:ALA93 4.8 30.6 1.0

Zinc binding site 6 out of 6 in the Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn406 b:17.3 occ:1.00 NE2 A:HIS141 1.9 13.1 1.0 OD1 A:ASP106 2.1 22.9 1.0 CG A:ASP106 2.7 21.3 1.0 OD2 A:ASP106 2.8 21.3 1.0 CE1 A:HIS141 2.9 13.5 1.0 CD2 A:HIS141 3.0 13.2 1.0 ND1 A:HIS141 4.0 13.5 1.0 CG A:HIS141 4.1 13.2 1.0 CB A:ASP106 4.2 22.2 1.0 CB A:TYR104 4.4 13.2 1.0 CA A:ASP106 4.8 21.8 1.0

A.Chandrashekarmath, A.Bellur, H.Balaram. Crystal Structure of D110P Mutant of Gatase Subunit of Methanocaldococcus Jannaschii Gmp Synthetase To Be Published.