Atomistry » Manganese » PDB 2feu-2hr6 » 2g73
Atomistry »
  Manganese »
    PDB 2feu-2hr6 »
      2g73 »

Manganese in PDB 2g73: Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp

Enzymatic activity of Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp

All present enzymatic activity of Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp:
5.3.3.2;

Protein crystallography data

The structure of Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp, PDB code: 2g73 was solved by J.De Ruyck, J.Wouters, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 1.97
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 68.935, 71.477, 91.955, 90.00, 90.00, 90.00
R / Rfree (%) 21.3 / 27.6

Other elements in 2g73:

The structure of Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp (pdb code 2g73). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp, PDB code: 2g73:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 2g73

Go back to Manganese Binding Sites List in 2g73
Manganese binding site 1 out of 2 in the Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn184

b:21.3
occ:1.00
NE2 A:HIS69 1.9 18.2 1.0
NE2 A:HIS25 2.1 18.4 1.0
OE1 A:GLU114 2.1 27.6 1.0
NE2 A:HIS32 2.2 22.5 1.0
OE2 A:GLU116 2.2 23.4 1.0
OE2 A:GLU114 2.2 25.4 1.0
CD A:GLU114 2.5 32.5 1.0
CE1 A:HIS69 2.8 24.2 1.0
CE1 A:HIS32 3.0 19.5 1.0
CE1 A:HIS25 3.1 22.4 1.0
CD2 A:HIS69 3.1 18.7 1.0
CD2 A:HIS25 3.1 16.2 1.0
CD2 A:HIS32 3.3 24.9 1.0
CD A:GLU116 3.3 26.3 1.0
CG A:GLU116 3.9 28.6 1.0
ND1 A:HIS69 4.0 21.8 1.0
CG A:GLU114 4.0 25.2 1.0
CG A:HIS69 4.1 23.6 1.0
ND1 A:HIS25 4.2 22.1 1.0
ND1 A:HIS32 4.2 25.0 1.0
O A:HOH210 4.2 28.1 1.0
CG A:HIS25 4.2 22.6 1.0
OE1 A:GLU116 4.2 34.2 1.0
C10 A:EIP186 4.3 25.1 0.5
CG A:HIS32 4.4 25.1 1.0
C10 A:EIP186 4.4 24.6 0.5
C13 A:EIP186 4.5 36.0 0.5
C12 A:EIP186 4.7 35.7 0.5
C11 A:EIP186 4.7 29.6 0.5
C12 A:EIP186 4.7 35.6 0.5
CG1 A:VAL6 4.9 20.4 1.0
C11 A:EIP186 4.9 29.6 0.5
CB A:GLU114 4.9 23.0 1.0

Manganese binding site 2 out of 2 in 2g73

Go back to Manganese Binding Sites List in 2g73
Manganese binding site 2 out of 2 in the Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Y104F Mutant Type 1 Ipp Isomerase Complex with Eipp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn184

b:29.2
occ:1.00
NE2 B:HIS25 1.9 35.9 1.0
NE2 B:HIS32 2.0 35.1 1.0
NE2 B:HIS69 2.0 28.9 1.0
OE2 B:GLU114 2.2 25.9 1.0
OE2 B:GLU116 2.4 30.9 1.0
OE1 B:GLU114 2.4 31.0 1.0
CD B:GLU114 2.7 34.8 1.0
CE1 B:HIS25 2.7 35.0 1.0
CD2 B:HIS32 2.9 39.8 1.0
CD2 B:HIS69 2.9 34.3 1.0
CE1 B:HIS32 3.0 40.0 1.0
CE1 B:HIS69 3.0 34.0 1.0
CD2 B:HIS25 3.1 36.4 1.0
CD B:GLU116 3.5 42.1 1.0
ND1 B:HIS25 3.9 39.9 1.0
ND1 B:HIS32 4.1 41.1 1.0
ND1 B:HIS69 4.1 35.2 1.0
CG B:HIS32 4.1 37.7 1.0
CG B:HIS69 4.1 30.9 1.0
CG B:HIS25 4.1 39.5 1.0
C11 B:EIP186 4.2 37.6 0.5
CG B:GLU114 4.2 35.7 1.0
OE1 B:GLU116 4.3 40.6 1.0
C10 B:EIP186 4.4 34.6 0.5
C12 B:EIP186 4.4 42.7 0.5
CG B:GLU116 4.5 34.9 1.0
C10 B:EIP186 4.5 34.0 0.5
O B:HOH1294 4.6 48.1 1.0
CG1 B:VAL6 4.8 39.3 1.0
CB B:ALA34 4.9 17.2 1.0
C14 B:EIP186 4.9 37.4 0.5
C12 B:EIP186 4.9 43.0 0.5

Reference:

J.De Ruyck, V.Durisotti, Y.Oudjama, J.Wouters. Structural Role For Tyr-104 in Escherichia Coli Isopentenyl-Diphosphate Isomerase: Site-Directed Mutagenesis, Enzymology, and Protein Crystallography. J.Biol.Chem. V. 281 17864 2006.
ISSN: ISSN 0021-9258
PubMed: 16617181
DOI: 10.1074/JBC.M601851200
Page generated: Tue Dec 15 04:01:57 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy