Manganese in PDB 8igi: Crystal Structure of HP1526 (Xtha)- A Base Excision Dna Repair Protein in Helicobacter Pylori

The structure of Crystal Structure of HP1526 (Xtha)- A Base Excision Dna Repair Protein in Helicobacter Pylori, PDB code: 8igi was solved by T.T.Dinh, O.Dao, K.H.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.05 / 1.84
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	72.096, 71.909, 108.033, 90, 90, 90
R / Rfree (%)	16.7 / 19.6

The binding sites of Manganese atom in the Crystal Structure of HP1526 (Xtha)- A Base Excision Dna Repair Protein in Helicobacter Pylori (pdb code 8igi). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of HP1526 (Xtha)- A Base Excision Dna Repair Protein in Helicobacter Pylori, PDB code: 8igi:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Crystal Structure of HP1526 (Xtha)- A Base Excision Dna Repair Protein in Helicobacter Pylori


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of HP1526 (Xtha)- A Base Excision Dna Repair Protein in Helicobacter Pylori within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn301 b:15.0 occ:1.00 O A:HOH413 2.2 15.2 1.0 O A:HOH425 2.3 13.2 1.0 OE1 A:GLU72 4.2 20.0 1.0 OE2 A:GLU72 4.3 17.4 1.0 O A:HOH456 4.6 16.2 1.0 CD A:GLU72 4.7 17.9 1.0

Manganese binding site 2 out of 2 in the Crystal Structure of HP1526 (Xtha)- A Base Excision Dna Repair Protein in Helicobacter Pylori


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of HP1526 (Xtha)- A Base Excision Dna Repair Protein in Helicobacter Pylori within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn302 b:16.1 occ:1.00 OD1 A:ASN9 2.1 15.1 1.0 OE2 A:GLU35 2.1 16.3 1.0 O A:HOH437 2.2 12.4 1.0 O A:HOH402 2.2 15.8 1.0 CD A:GLU35 2.9 18.7 1.0 OE1 A:GLU35 3.0 19.3 1.0 CG A:ASN9 3.1 16.9 1.0 CB A:ASN9 3.8 14.7 1.0 O A:HOH459 4.0 18.6 1.0 CA A:ASN9 4.0 13.2 1.0 OD1 A:ASP241 4.1 15.6 1.0 NZ A:LYS37 4.1 20.9 1.0 ND2 A:ASN9 4.1 15.6 1.0 OD2 A:ASP241 4.1 16.4 1.0 CG A:GLU35 4.4 18.9 1.0 CE A:LYS37 4.4 20.6 1.0 OD1 A:ASN7 4.4 12.3 1.0 CG A:ASP241 4.5 18.1 1.0 O A:HOH435 4.8 16.9 1.0 CB A:GLU35 4.9 15.3 1.0 ND2 A:ASN7 4.9 13.0 1.0 N A:ASN9 4.9 12.1 1.0 C A:ASN9 5.0 16.1 1.0

T.Dinh, O.Dao, A.Killivalavan, D.Ngo, K.H.Lee. Crystal Structure of the Apurinic/Apyrimidinic Endonuclease Xtha (HP1526 Protein) From Helicobacter Pylori. Biochem.Biophys.Res.Commun. V. 663 8 2023.
ISSN: ESSN 1090-2104
PubMed: 37116395
DOI: 10.1016/J.BBRC.2023.04.047