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Manganese in PDB 1s4p: Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor

Enzymatic activity of Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor

All present enzymatic activity of Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor:
2.4.1.131;

Protein crystallography data

The structure of Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor, PDB code: 1s4p was solved by Y.D.Lobsanov, P.A.Romero, B.Sleno, B.Yu, P.Yip, A.Herscovics, P.L.Howell, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.96 / 2.01
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 60.694, 101.068, 62.036, 90.00, 98.81, 90.00
R / Rfree (%) 20.3 / 25.6

Other elements in 1s4p:

The structure of Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor (pdb code 1s4p). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor, PDB code: 1s4p:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 1s4p

Go back to Manganese Binding Sites List in 1s4p
Manganese binding site 1 out of 2 in the Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn909

b:24.8
occ:1.00
 NE2 A:HIS388 2.1 21.1 1.0
OE1 A:GLU247 2.2 21.3 1.0
O1A A:GDP904 2.2 25.4 1.0
O2B A:GDP904 2.3 26.3 1.0
O A:HOH939 2.3 21.5 1.0
O A:HOH1156 2.4 18.2 1.0
CE1 A:HIS388 2.8 21.1 1.0
PB A:GDP904 3.3 26.2 1.0
CD2 A:HIS388 3.4 22.2 1.0
PA A:GDP904 3.4 25.2 1.0
CD A:GLU247 3.4 20.6 1.0
O3A A:GDP904 3.6 25.4 1.0
O3B A:GDP904 3.7 26.2 1.0
O A:HOH971 3.9 24.3 1.0
O A:HOH1029 4.0 35.5 1.0
O A:HOH969 4.0 26.3 1.0
ND1 A:HIS388 4.1 20.9 1.0
OE2 A:GLU247 4.1 23.9 1.0
C5' A:GDP904 4.3 23.3 1.0
O5' A:GDP904 4.3 25.2 1.0
CG A:HIS388 4.3 18.5 1.0
CB A:GLU247 4.4 17.2 1.0
CG A:GLU247 4.5 16.4 1.0
O2A A:GDP904 4.5 26.0 1.0
O A:HOH1236 4.6 28.8 1.0
O1B A:GDP904 4.7 27.8 1.0
O A:HOH1050 4.7 34.2 1.0
C3' A:GDP904 4.7 23.8 1.0
O A:HOH994 4.8 28.1 1.0
O A:PRO248 4.9 20.3 1.0
C4' A:GDP904 5.0 23.6 1.0

Manganese binding site 2 out of 2 in 1s4p

Go back to Manganese Binding Sites List in 1s4p
Manganese binding site 2 out of 2 in the Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Yeast ALPHA1,2-Mannosyltransferase KRE2P/MNT1P: Ternary Complex with Gdp/Mn and Methyl-Alpha-Mannoside Acceptor within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn906

b:25.0
occ:1.00
 NE2 B:HIS388 2.2 19.1 1.0
O1A B:GDP905 2.2 22.4 1.0
O2B B:GDP905 2.3 25.5 1.0
OE1 B:GLU247 2.3 21.6 1.0
O B:HOH1141 2.3 17.3 1.0
O B:HOH1140 2.3 22.6 1.0
CE1 B:HIS388 3.0 18.6 1.0
PB B:GDP905 3.3 25.5 1.0
CD2 B:HIS388 3.3 18.2 1.0
PA B:GDP905 3.4 23.2 1.0
CD B:GLU247 3.5 21.2 1.0
O3B B:GDP905 3.5 25.9 1.0
O3A B:GDP905 3.6 23.6 1.0
O B:HOH1010 3.8 24.9 1.0
O B:HOH983 3.9 24.6 1.0
O B:HOH1026 4.0 39.9 1.0
ND1 B:HIS388 4.2 20.3 1.0
OE2 B:GLU247 4.2 27.2 1.0
C5' B:GDP905 4.2 23.3 1.0
O5' B:GDP905 4.3 24.6 1.0
CG B:HIS388 4.4 16.5 1.0
CB B:GLU247 4.4 15.3 1.0
O B:HOH1131 4.5 30.6 1.0
O2A B:GDP905 4.5 25.7 1.0
CG B:GLU247 4.6 21.1 1.0
O1B B:GDP905 4.6 28.1 1.0
O B:HOH1091 4.6 24.6 1.0
C3' B:GDP905 4.7 23.5 1.0
O B:PRO248 4.9 17.6 1.0
O B:HOH978 4.9 42.1 1.0
C4' B:GDP905 5.0 24.9 1.0

Reference:

Y.D.Lobsanov, P.A.Romero, B.Sleno, B.Yu, P.Yip, A.Herscovics, P.L.Howell. Structure of KRE2P/MNT1P: A Yeast {Alpha}1,2-Mannosyltransferase Involved in Mannoprotein Biosynthesis J.Biol.Chem. V. 279 17921 2004.
ISSN: ISSN 0021-9258
PubMed: 14752117
DOI: 10.1074/JBC.M312720200
Page generated: Tue Dec 15 03:55:24 2020

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