Zinc in PDB 4h2t: Crystal Structure of Bradyrhizobium Japonicum Glycine:[Carrier Protein] Ligase Complexed with Cognate Carrier Protein and An Analogue of Glycyl Adenylate

The structure of Crystal Structure of Bradyrhizobium Japonicum Glycine:[Carrier Protein] Ligase Complexed with Cognate Carrier Protein and An Analogue of Glycyl Adenylate, PDB code: 4h2t was solved by M.Luic, I.Weygand-Durasevic, N.Ivic, M.Mocibob, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.49 / 2.44
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	91.461, 101.218, 104.654, 90.00, 90.00, 90.00
R / Rfree (%)	17.8 / 21.6

The binding sites of Zinc atom in the Crystal Structure of Bradyrhizobium Japonicum Glycine:[Carrier Protein] Ligase Complexed with Cognate Carrier Protein and An Analogue of Glycyl Adenylate (pdb code 4h2t). 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 Bradyrhizobium Japonicum Glycine:[Carrier Protein] Ligase Complexed with Cognate Carrier Protein and An Analogue of Glycyl Adenylate, PDB code: 4h2t:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Bradyrhizobium Japonicum Glycine:[Carrier Protein] Ligase Complexed with Cognate Carrier Protein and An Analogue of Glycyl Adenylate


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 Bradyrhizobium Japonicum Glycine:[Carrier Protein] Ligase Complexed with Cognate Carrier Protein and An Analogue of Glycyl Adenylate within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1000 b:14.9 occ:0.62 OE1 A:GLU176 1.9 18.9 1.0 N A:G5A1001 2.0 18.2 1.0 SG A:CYS131 2.3 18.3 1.0 SG A:CYS279 2.5 22.2 1.0 CA A:G5A1001 2.9 21.5 1.0 CD A:GLU176 2.9 16.0 1.0 CB A:CYS131 3.0 10.1 1.0 OE2 A:GLU176 3.2 14.6 1.0 CB A:CYS279 3.3 15.5 1.0 CG A:GLU176 4.2 12.3 1.0 OH A:TYR135 4.3 21.2 1.0 C A:G5A1001 4.3 25.3 1.0 CA A:CYS131 4.3 13.0 1.0 N A:CYS131 4.4 10.0 1.0 C43 C:PNS1000 4.4 44.8 1.0 C42 C:PNS1000 4.4 37.0 1.0 CE1 A:HIS257 4.6 19.3 1.0 NE2 A:HIS257 4.6 23.5 1.0 O A:G5A1001 4.7 21.3 1.0 CB A:GLU176 4.7 10.7 1.0 CA A:CYS279 4.8 15.0 1.0 CG2 A:VAL178 5.0 12.7 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Bradyrhizobium Japonicum Glycine:[Carrier Protein] Ligase Complexed with Cognate Carrier Protein and An Analogue of Glycyl Adenylate


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 Bradyrhizobium Japonicum Glycine:[Carrier Protein] Ligase Complexed with Cognate Carrier Protein and An Analogue of Glycyl Adenylate within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:21.0 occ:0.73 OE1 B:GLU176 2.0 21.3 1.0 N B:G5A402 2.1 25.0 1.0 SG B:CYS131 2.3 17.7 1.0 SG B:CYS279 2.6 23.0 1.0 CD B:GLU176 2.9 16.6 1.0 CA B:G5A402 2.9 21.7 1.0 CB B:CYS131 3.1 11.8 1.0 OE2 B:GLU176 3.1 16.9 1.0 CB B:CYS279 3.5 16.3 1.0 CG B:GLU176 4.3 12.0 1.0 C B:G5A402 4.3 24.6 1.0 CA B:CYS131 4.3 12.0 1.0 OH B:TYR135 4.3 24.0 1.0 N B:CYS131 4.4 11.1 1.0 C42 D:PNS1000 4.4 44.7 1.0 C43 D:PNS1000 4.5 42.5 1.0 CE1 B:HIS257 4.6 20.1 1.0 NE2 B:HIS257 4.6 19.7 1.0 CB B:GLU176 4.7 9.4 1.0 O B:G5A402 4.8 22.7 1.0 CA B:CYS279 5.0 11.8 1.0

M.Mocibob, N.Ivic, M.Luic, I.Weygand-Durasevic. Adaptation of Aminoacyl-Trna Synthetase Catalytic Core to Carrier Protein Aminoacylation. Structure V. 21 614 2013.
ISSN: ISSN 0969-2126
PubMed: 23541895
DOI: 10.1016/J.STR.2013.02.017