Zinc in PDB 1wxo: Structure of Archaeal Trans-Editing Protein Alax in Complex with Zinc

The structure of Structure of Archaeal Trans-Editing Protein Alax in Complex with Zinc, PDB code: 1wxo was solved by M.Sokabe, A.Okada, T.Nakashima, M.Yao, I.Tanaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.88
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	42.472, 97.971, 60.584, 90.00, 95.81, 90.00
R / Rfree (%)	19.3 / 23.2

The binding sites of Zinc atom in the Structure of Archaeal Trans-Editing Protein Alax in Complex with Zinc (pdb code 1wxo). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Structure of Archaeal Trans-Editing Protein Alax in Complex with Zinc, PDB code: 1wxo:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Structure of Archaeal Trans-Editing Protein Alax 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 Structure of Archaeal Trans-Editing Protein Alax in Complex with Zinc within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:30.1 occ:1.00 NE2 A:HIS120 2.0 19.7 1.0 NE2 A:HIS9 2.0 30.6 1.0 NE2 A:HIS13 2.2 19.2 1.0 SG A:CYS116 2.3 21.1 1.0 CE1 A:HIS120 2.8 22.8 1.0 CD2 A:HIS9 2.9 29.7 1.0 CE1 A:HIS9 3.0 32.5 1.0 CD2 A:HIS120 3.1 21.7 1.0 CE1 A:HIS13 3.1 22.8 1.0 CD2 A:HIS13 3.2 19.8 1.0 CB A:CYS116 3.3 19.9 1.0 ND1 A:HIS120 3.9 20.0 1.0 CG A:HIS9 4.0 29.4 1.0 ND1 A:HIS9 4.0 29.8 1.0 CG A:HIS120 4.1 20.8 1.0 ND1 A:HIS13 4.2 23.0 1.0 CG2 A:VAL106 4.2 17.5 1.0 CG A:HIS13 4.3 18.9 1.0 O A:HOH1139 4.3 43.7 1.0 CB A:LYS118 4.5 28.0 1.0 O A:HIS9 4.6 18.9 1.0 CA A:CYS116 4.7 19.4 1.0 N A:LYS118 4.9 25.4 1.0 O A:LYS118 5.0 23.4 1.0 C A:CYS116 5.0 21.0 1.0

Zinc binding site 2 out of 3 in the Structure of Archaeal Trans-Editing Protein Alax 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 Structure of Archaeal Trans-Editing Protein Alax in Complex with Zinc within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1002 b:26.5 occ:1.00 NE2 B:HIS9 1.9 21.6 1.0 NE2 B:HIS120 1.9 23.0 1.0 NE2 B:HIS13 2.1 21.2 1.0 SG B:CYS116 2.3 20.5 1.0 CE1 B:HIS120 2.8 24.3 1.0 CE1 B:HIS9 2.9 22.6 1.0 CD2 B:HIS9 2.9 22.9 1.0 CE1 B:HIS13 3.0 22.4 1.0 CD2 B:HIS13 3.1 22.2 1.0 CD2 B:HIS120 3.1 24.2 1.0 CB B:CYS116 3.3 19.5 1.0 ND1 B:HIS120 3.9 24.1 1.0 ND1 B:HIS9 4.0 23.0 1.0 CG B:HIS9 4.0 22.9 1.0 CG B:HIS120 4.1 23.3 1.0 ND1 B:HIS13 4.1 22.5 1.0 CG2 B:VAL106 4.1 19.4 1.0 CG B:HIS13 4.2 20.4 1.0 CB B:LYS118 4.5 26.8 1.0 CA B:CYS116 4.7 19.7 1.0 O B:HIS9 4.7 18.5 1.0 O B:HOH1102 4.8 37.8 1.0 N B:LYS118 4.9 26.7 1.0 CG B:LYS118 5.0 28.8 1.0 CB B:VAL106 5.0 18.8 1.0

Zinc binding site 3 out of 3 in the Structure of Archaeal Trans-Editing Protein Alax in Complex with Zinc


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Archaeal Trans-Editing Protein Alax in Complex with Zinc within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1003 b:28.3 occ:1.00 NE2 C:HIS9 1.9 31.7 1.0 NE2 C:HIS120 2.0 26.7 1.0 NE2 C:HIS13 2.1 20.2 1.0 SG C:CYS116 2.2 26.5 1.0 CE1 C:HIS120 2.7 25.7 1.0 CE1 C:HIS9 2.8 30.4 1.0 CD2 C:HIS9 3.0 31.4 1.0 CE1 C:HIS13 3.0 20.4 1.0 CD2 C:HIS120 3.1 26.1 1.0 CD2 C:HIS13 3.2 21.6 1.0 CB C:CYS116 3.3 26.4 1.0 ND1 C:HIS120 3.9 28.0 1.0 ND1 C:HIS9 3.9 31.5 1.0 CG C:HIS9 4.0 31.6 1.0 CG C:HIS120 4.1 25.7 1.0 ND1 C:HIS13 4.1 18.9 1.0 CG C:HIS13 4.2 19.7 1.0 CG2 C:VAL106 4.3 19.5 1.0 CB C:LYS118 4.4 35.9 1.0 CA C:CYS116 4.7 24.4 1.0 O C:HIS9 4.8 22.4 1.0 N C:LYS118 4.9 34.2 1.0 CB C:VAL106 5.0 20.9 1.0 O C:LYS118 5.0 32.6 1.0

M.Sokabe, A.Okada, M.Yao, T.Nakashima, I.Tanaka. Molecular Basis of Alanine Discrimination in Editing Site Proc.Natl.Acad.Sci.Usa V. 102 11669 2005.
ISSN: ISSN 0027-8424
PubMed: 16087889
DOI: 10.1073/PNAS.0502119102