Magnesium in PDB 6t5t: Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat

The structure of Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat, PDB code: 6t5t was solved by S.Grazulis, M.Zaremba, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	54.95 / 1.70
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	52.098, 99.551, 109.901, 90.00, 90.00, 90.00
R / Rfree (%)	18.1 / 21.3

The structure of Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat also contains other interesting chemical elements:

Potassium	(K)	3 atoms
Chlorine	(Cl)	1 atom

The binding sites of Magnesium atom in the Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat (pdb code 6t5t). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat, PDB code: 6t5t:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:25.2 occ:1.00 OP1 R:DT3 1.9 27.5 1.0 OP3 R:DA1 2.1 27.1 1.0 O R:HOH107 2.1 27.9 1.0 OE1 A:GLN159 2.2 27.2 1.0 O A:LEU427 2.2 26.9 1.0 OXT A:LEU427 2.3 27.4 1.0 C A:LEU427 2.6 28.6 1.0 CD A:GLN159 3.1 22.3 1.0 P R:DA1 3.3 29.6 1.0 P R:DT3 3.3 28.6 1.0 NE2 A:GLN159 3.4 26.5 1.0 OP1 R:DA1 3.6 26.7 1.0 NZ A:LYS163 3.9 27.3 1.0 O3' R:DT2 3.9 26.3 1.0 C5' R:DA1 4.1 31.7 1.0 CA A:LEU427 4.1 27.9 1.0 O5' R:DA1 4.2 27.4 1.0 OP2 R:DT3 4.2 28.5 1.0 NE A:ARG380 4.2 29.8 1.0 NH2 A:ARG380 4.2 31.7 1.0 O A:HOH670 4.2 34.5 1.0 OP2 R:DA1 4.3 26.7 1.0 O5' R:DT3 4.3 29.0 1.0 O A:HOH678 4.4 35.2 1.0 NE2 A:GLN137 4.4 27.9 1.0 CE A:LYS163 4.5 26.2 1.0 CG A:GLN159 4.6 28.1 1.0 CZ A:ARG380 4.7 32.4 1.0 CB A:LEU427 4.7 23.2 1.0 OE1 A:GLN137 4.9 27.4 1.0 CG A:ARG380 4.9 36.1 1.0 O R:HOH104 4.9 38.3 1.0 N A:LEU427 4.9 25.2 1.0

Magnesium binding site 2 out of 3 in the Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:46.5 occ:1.00 O A:HOH859 2.7 47.0 1.0 O A:HOH803 2.9 32.1 1.0 O A:HOH796 2.9 43.4 1.0 O A:SER220 3.0 32.1 1.0 OG1 A:THR224 3.1 33.3 1.0 N A:THR224 3.2 27.4 1.0 C A:GLU221 3.4 22.2 1.0 N A:LEU223 3.4 27.1 1.0 CA A:GLU221 3.5 27.1 1.0 O A:GLU221 3.6 25.2 1.0 CB A:THR224 3.8 30.4 1.0 N A:TYR222 3.8 24.0 1.0 C A:SER220 3.9 28.1 1.0 CB A:LEU223 3.9 30.1 1.0 CA A:LEU223 3.9 32.9 1.0 C A:LEU223 4.0 32.9 1.0 CA A:THR224 4.1 24.5 1.0 N A:GLU221 4.1 27.0 1.0 C A:TYR222 4.2 30.4 1.0 CA A:TYR222 4.6 26.0 1.0 CB A:GLU221 4.8 25.2 1.0 CG A:LEU223 4.9 34.1 1.0

Magnesium binding site 3 out of 3 in the Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg503 b:44.5 occ:1.00 O A:HOH723 2.8 34.1 1.0 N A:HIS362 2.9 29.4 1.0 O A:GLU358 2.9 34.2 1.0 CB A:HIS362 3.4 28.4 1.0 N A:TYR361 3.4 32.2 1.0 C A:GLU359 3.5 34.2 1.0 O A:GLU359 3.6 32.6 1.0 CA A:HIS362 3.7 31.9 1.0 CA A:GLU359 3.8 37.7 1.0 N A:TYR360 3.8 32.9 1.0 C A:TYR361 3.8 30.5 1.0 C A:GLU358 3.8 36.3 1.0 CA A:TYR361 3.9 38.4 1.0 CB A:TYR361 4.1 37.5 1.0 C A:TYR360 4.2 35.7 1.0 N A:GLU359 4.2 33.0 1.0 CA A:TYR360 4.6 36.8 1.0 CG A:HIS362 4.8 39.1 1.0 O A:TYR361 4.9 30.1 1.0 C A:HIS362 4.9 28.0 1.0 O A:SER357 4.9 34.5 1.0

E.Golovinas, E.Manakova, G.Sasnauskas, M.Zaremba. Crystal Structure of Archaeoglobus Fulgidus Argonaute Protein with Cognate Dna Oligoduplex 5'-Pattgtggccacaat To Be Published.