Zinc in PDB 2zzf: Crystal Structure of Alanyl-Trna Synthetase Without Oligomerization Domain

All present enzymatic activity of Crystal Structure of Alanyl-Trna Synthetase Without Oligomerization Domain:
6.1.1.7;

The structure of Crystal Structure of Alanyl-Trna Synthetase Without Oligomerization Domain, PDB code: 2zzf was solved by M.Sokabe, T.Ose, K.Tokunaga, A.Nakamura, O.Nureki, M.Yao, I.Tanaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.15 / 2.70
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	164.258, 98.840, 72.927, 90.00, 108.64, 90.00
R / Rfree (%)	20.6 / 26.3

The binding sites of Zinc atom in the Crystal Structure of Alanyl-Trna Synthetase Without Oligomerization Domain (pdb code 2zzf). 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 Alanyl-Trna Synthetase Without Oligomerization Domain, PDB code: 2zzf:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Alanyl-Trna Synthetase Without Oligomerization Domain


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 Alanyl-Trna Synthetase Without Oligomerization Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn753 b:89.4 occ:1.00 NE2 A:HIS613 2.1 73.6 1.0 NE2 A:HIS617 2.2 75.4 1.0 O A:HOH759 2.7 78.6 1.0 SG A:CYS717 2.8 79.0 1.0 CE1 A:HIS617 3.0 75.0 1.0 CD2 A:HIS613 3.0 73.4 1.0 CE1 A:HIS613 3.1 75.1 1.0 CD2 A:HIS617 3.4 73.2 1.0 OE1 A:GLN715 3.5 91.5 1.0 CB A:CYS717 4.0 79.1 1.0 NE2 A:HIS721 4.1 79.5 1.0 ND1 A:HIS613 4.2 74.2 1.0 CG A:HIS613 4.2 71.7 1.0 ND1 A:HIS617 4.2 75.4 1.0 CE1 A:HIS721 4.3 80.8 1.0 CG A:HIS617 4.4 73.2 1.0 CD A:GLN715 4.4 88.8 1.0 O A:GLY553 4.8 79.9 1.0 CA A:CYS717 4.9 79.4 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Alanyl-Trna Synthetase Without Oligomerization Domain


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 Alanyl-Trna Synthetase Without Oligomerization Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn754 b:69.7 occ:1.00 SG A:CYS42 2.1 72.5 1.0 SG A:CYS23 2.3 68.5 1.0 SG A:CYS20 2.4 64.8 1.0 SG A:CYS37 2.6 74.5 1.0 CB A:CYS42 3.1 76.5 1.0 CB A:CYS23 3.2 68.5 1.0 CB A:CYS37 3.2 73.3 1.0 CB A:CYS20 3.3 65.1 1.0 N A:CYS23 3.5 69.1 1.0 N A:CYS37 3.8 73.6 1.0 CA A:CYS23 3.9 68.6 1.0 CA A:CYS37 4.1 73.6 1.0 NZ A:LYS188 4.5 73.2 1.0 CA A:CYS42 4.6 76.7 1.0 CB A:VAL22 4.6 68.1 1.0 O A:ASP39 4.6 77.3 1.0 C A:VAL22 4.7 69.1 1.0 CA A:CYS20 4.7 65.4 1.0 C A:CYS23 4.8 68.3 1.0 C A:THR36 4.9 73.8 1.0 N A:GLY24 5.0 67.9 1.0 CA A:VAL22 5.0 68.2 1.0 CE A:LYS188 5.0 70.6 1.0 N A:VAL22 5.0 68.3 1.0

M.Sokabe, T.Ose, A.Nakamura, K.Tokunaga, O.Nureki, M.Yao, I.Tanaka. The Structure of Alanyl-Trna Synthetase with Editing Domain. Proc.Natl.Acad.Sci.Usa V. 106 11028 2009.
ISSN: ISSN 0027-8424
PubMed: 19549823
DOI: 10.1073/PNAS.0904645106