Manganese in PDB 5a07: X-Ray Structure of the Mannosyltransferase KTR4P From S. Cerevisiae in Complex with Gdp

The structure of X-Ray Structure of the Mannosyltransferase KTR4P From S. Cerevisiae in Complex with Gdp, PDB code: 5a07 was solved by D.D.D.Possner, J.E.Guy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	86.79 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	61.215, 102.621, 162.651, 90.00, 90.00, 90.00
R / Rfree (%)	15.627 / 19.132

The binding sites of Manganese atom in the X-Ray Structure of the Mannosyltransferase KTR4P From S. Cerevisiae in Complex with Gdp (pdb code 5a07). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the X-Ray Structure of the Mannosyltransferase KTR4P From S. Cerevisiae in Complex with Gdp, PDB code: 5a07:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the X-Ray Structure of the Mannosyltransferase KTR4P From S. Cerevisiae in Complex with Gdp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of X-Ray Structure of the Mannosyltransferase KTR4P From S. Cerevisiae in Complex with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn501 b:22.0 occ:1.00 O1B A:GDP500 2.2 22.0 1.0 OE1 A:GLU262 2.2 17.8 1.0 O2A A:GDP500 2.2 18.4 1.0 O A:HOH2177 2.3 15.1 1.0 O A:HOH2258 2.3 23.4 1.0 NE2 A:HIS411 2.4 19.8 1.0 CE1 A:HIS411 3.3 19.8 1.0 PA A:GDP500 3.4 23.2 1.0 CD A:GLU262 3.4 17.6 1.0 CD2 A:HIS411 3.4 17.3 1.0 PB A:GDP500 3.4 24.1 1.0 O3A A:GDP500 3.7 25.3 1.0 O A:HOH2232 4.1 23.2 1.0 O2B A:GDP500 4.1 25.9 1.0 OE2 A:GLU262 4.2 19.6 1.0 CB A:GLU262 4.2 16.5 1.0 C5' A:GDP500 4.3 20.0 1.0 O A:HOH2300 4.3 35.8 1.0 O A:HOH2176 4.3 20.6 1.0 O5' A:GDP500 4.4 19.5 1.0 CG A:GLU262 4.4 15.8 1.0 ND1 A:HIS411 4.5 19.0 1.0 O1A A:GDP500 4.5 22.3 1.0 O A:HOH2181 4.6 30.0 1.0 CG A:HIS411 4.6 16.9 1.0 O3B A:GDP500 4.6 27.7 1.0 C3' A:GDP500 4.6 17.5 1.0 CB A:ASN350 4.7 15.1 1.0 O A:PRO263 4.8 17.6 1.0

Manganese binding site 2 out of 2 in the X-Ray Structure of the Mannosyltransferase KTR4P From S. Cerevisiae in Complex with Gdp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of X-Ray Structure of the Mannosyltransferase KTR4P From S. Cerevisiae in Complex with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn501 b:23.6 occ:1.00 OE1 B:GLU262 2.2 18.1 1.0 O3B B:GDP500 2.2 25.1 1.0 O2A B:GDP500 2.3 20.3 1.0 O B:HOH2243 2.4 23.3 1.0 O B:HOH2171 2.4 17.3 1.0 NE2 B:HIS411 2.4 21.4 1.0 CE1 B:HIS411 3.3 20.7 1.0 PB B:GDP500 3.4 27.3 1.0 CD B:GLU262 3.4 18.8 1.0 PA B:GDP500 3.5 25.0 1.0 CD2 B:HIS411 3.5 20.3 1.0 O3A B:GDP500 3.7 30.8 1.0 O1B B:GDP500 4.0 30.2 1.0 OE2 B:GLU262 4.2 20.3 1.0 CB B:GLU262 4.2 17.8 1.0 O B:HOH2219 4.2 27.0 1.0 O B:HOH2170 4.3 25.3 1.0 O5' B:GDP500 4.3 20.9 1.0 CG B:GLU262 4.4 17.7 1.0 C5' B:GDP500 4.4 23.4 1.0 ND1 B:HIS411 4.4 19.1 1.0 O2B B:GDP500 4.6 28.2 1.0 O1A B:GDP500 4.6 24.6 1.0 CG B:HIS411 4.6 18.8 1.0 C3' B:GDP500 4.7 20.1 1.0 CB B:ASN350 4.8 16.9 1.0 O B:PRO263 4.9 18.6 1.0

D.D.D.Possner, M.Claesson, J.E.Guy. Structure of the Glycosyltransferase KTR4P From Saccharomyces Cerevisiae Plos One V. 10 36239 2015.
ISSN: ISSN 1932-6203
PubMed: 26296208
DOI: 10.1371/JOURNAL.PONE.013623