Zinc in PDB 4zya: The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase

All present enzymatic activity of The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase:
6.1.1.22;

The structure of The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase, PDB code: 4zya was solved by J.S.Park, M.C.Park, P.Goughnour, H.S.Kim, S.J.Kim, H.J.Kim, S.H.Kim, B.W.Han, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.02 / 1.65
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	32.626, 32.626, 215.921, 90.00, 90.00, 120.00
R / Rfree (%)	20.6 / 25.4

The structure of The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Zinc atom in the The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase (pdb code 4zya). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase, PDB code: 4zya:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn101 b:23.1 occ:1.00 OE2 A:GLU39 1.9 22.5 1.0 NE2 A:HIS71 2.0 25.8 1.0 CE1 A:HIS71 2.7 25.2 1.0 CD A:GLU39 2.9 19.3 1.0 CD2 A:HIS71 3.3 23.2 1.0 OE1 A:GLU39 3.3 25.1 1.0 O A:HOH250 3.6 30.1 1.0 ND1 A:HIS71 3.9 22.0 1.0 CG A:GLU39 4.2 20.4 1.0 CG A:HIS71 4.2 24.1 1.0 CZ3 A:TRP70 4.5 18.2 1.0

Zinc binding site 2 out of 2 in the The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn101 b:24.7 occ:1.00 OE2 B:GLU39 1.9 20.5 1.0 NE2 B:HIS71 2.0 22.5 1.0 CD B:GLU39 2.8 18.6 1.0 CD2 B:HIS71 2.9 19.1 1.0 OE1 B:GLU39 3.0 24.0 1.0 CE1 B:HIS71 3.1 19.8 1.0 CG B:HIS71 4.1 17.4 1.0 ND1 B:HIS71 4.1 15.2 1.0 CG B:GLU39 4.2 21.0 1.0 CZ3 B:TRP70 4.6 15.0 1.0 CB B:GLU39 4.9 17.8 1.0

J.S.Park, M.C.Park, K.Y.Lee, P.C.Goughnour, S.J.Jeong, H.S.Kim, H.J.Kim, B.J.Lee, S.Kim, B.W.Han. Unique N-Terminal Extension Domain of Human Asparaginyl-Trna Synthetase Elicits CCR3-Mediated Chemokine Activity. Int. J. Biol. Macromol. V. 120 835 2018.
ISSN: ISSN 1879-0003
PubMed: 30171954
DOI: 10.1016/J.IJBIOMAC.2018.08.171