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Zinc in PDB 2ztg: Crystal Structure of Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa

Enzymatic activity of Crystal Structure of Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa

All present enzymatic activity of Crystal Structure of Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa:
6.1.1.7;

Protein crystallography data

The structure of Crystal Structure of Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa, PDB code: 2ztg was solved by M.Naganuma, S.Sekine, R.Fukunaga, S.Yokoyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.74 / 2.20
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 160.391, 49.082, 98.044, 90.00, 108.08, 90.00
R / Rfree (%) 21.5 / 26.4

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa (pdb code 2ztg). 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 Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa, PDB code: 2ztg:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2ztg

Go back to Zinc Binding Sites List in 2ztg
Zinc binding site 1 out of 2 in the Crystal Structure of Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa


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 Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn901

b:59.9
occ:1.00
 O A:HOH1146 1.7 42.4 1.0
O A:HOH1144 1.9 66.2 1.0
NE2 A:HIS452 2.1 55.0 1.0
O A:HOH1055 2.4 50.6 1.0
O A:HOH1129 2.7 42.5 1.0
O A:HOH1054 2.7 55.1 1.0
CE1 A:HIS452 2.8 54.9 1.0
CD2 A:HIS452 3.3 52.7 1.0
OE2 A:GLU447 4.0 65.0 1.0
ND1 A:HIS452 4.0 56.0 1.0
OE1 A:GLU447 4.2 65.1 1.0
CG A:HIS452 4.2 54.5 1.0
O A:HOH1145 4.5 65.7 1.0
CD A:GLU447 4.5 62.9 1.0
CD1 A:LEU429 4.7 58.2 1.0
CD2 A:LEU429 4.8 58.2 1.0

Zinc binding site 2 out of 2 in 2ztg

Go back to Zinc Binding Sites List in 2ztg
Zinc binding site 2 out of 2 in the Crystal Structure of Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa


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 Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking the C-Terminal Dimerization Domain in Complex with Ala-Sa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn902

b:70.3
occ:1.00
 NE2 A:HIS707 2.0 51.8 1.0
SG A:CYS703 2.1 52.2 1.0
NE2 A:HIS604 2.4 44.3 1.0
NE2 A:HIS600 2.4 46.4 1.0
CE1 A:HIS707 2.5 51.1 1.0
O A:HOH1114 2.5 36.8 1.0
CE1 A:HIS600 3.1 58.8 1.0
CE1 A:HIS604 3.1 41.1 1.0
CD2 A:HIS600 3.2 48.0 1.0
CB A:CYS703 3.3 43.5 1.0
CD2 A:HIS707 3.3 42.0 1.0
CD2 A:HIS604 3.4 42.5 1.0
ND1 A:HIS707 3.7 49.5 1.0
ND1 A:HIS600 3.9 58.5 1.0
CG A:HIS600 4.0 53.1 1.0
CG A:HIS707 4.1 47.9 1.0
ND1 A:HIS604 4.2 48.5 1.0
CG A:HIS604 4.3 41.7 1.0
CA A:CYS703 4.7 44.3 1.0
N A:GLY705 4.7 49.8 1.0
CG2 A:VAL694 4.8 41.3 1.0
CG1 A:VAL694 4.8 44.3 1.0
CA A:GLY705 4.9 50.8 1.0
O A:HIS600 4.9 44.3 1.0
CB A:VAL694 4.9 45.2 1.0

Reference:

M.Naganuma, S.Sekine, R.Fukunaga, S.Yokoyama. Unique Protein Architecture of Alanyl-Trna Synthetase For Aminoacylation, Editing, and Dimerization. Proc.Natl.Acad.Sci.Usa V. 106 8489 2009.
ISSN: ISSN 0027-8424
PubMed: 19423669
DOI: 10.1073/PNAS.0901572106
Page generated: Thu Oct 24 10:53:17 2024

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