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Manganese in PDB 2f1d: X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase

Enzymatic activity of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase

All present enzymatic activity of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase:
4.2.1.19;

Protein crystallography data

The structure of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase, PDB code: 2f1d was solved by D.W.Rice, S.E.Glynn, P.J.Baker, S.E.Sedelnikova, C.L.Davies, T.C.Eadsforth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 3.00
Space group H 3 1
Cell size a, b, c (Å), α, β, γ (°) 157.949, 157.949, 479.965, 90.00, 90.00, 120.00
R / Rfree (%) 24 / 28.6

Manganese Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 32;

Binding sites:

The binding sites of Manganese atom in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase (pdb code 2f1d). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 32 binding sites of Manganese where determined in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase, PDB code: 2f1d:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Manganese binding site 1 out of 32 in 2f1d

Go back to Manganese Binding Sites List in 2f1d
Manganese binding site 1 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


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 Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn300

b:17.4
occ:1.00
OE1 B:GLU77 2.3 17.4 1.0
NE2 B:HIS145 2.3 17.4 1.0
NE2 A:HIS170 2.4 17.4 1.0
NE2 B:HIS73 2.5 17.4 1.0
CE1 A:HIS170 3.2 17.4 1.0
CD2 B:HIS145 3.3 17.4 1.0
CE1 B:HIS145 3.4 17.4 1.0
CD B:GLU77 3.4 17.4 1.0
CD2 B:HIS73 3.4 17.4 1.0
CD2 A:HIS170 3.5 17.4 1.0
CE1 B:HIS73 3.5 17.4 1.0
OE2 B:GLU77 3.8 17.4 1.0
OD2 A:ASP108 4.0 17.4 1.0
ND1 A:HIS170 4.4 17.4 1.0
CG B:HIS145 4.4 17.4 1.0
ND1 B:HIS145 4.5 17.4 1.0
CG A:HIS170 4.5 17.4 1.0
ND1 B:HIS73 4.6 17.4 1.0
CG B:HIS73 4.6 17.4 1.0
CG B:GLU77 4.6 17.4 1.0
CB B:GLU77 4.7 17.4 1.0
CG A:ASP108 5.0 17.4 1.0

Manganese binding site 2 out of 32 in 2f1d

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Manganese binding site 2 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


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 Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn301

b:17.4
occ:1.00
NE2 B:HIS74 2.3 17.4 1.0
NE2 A:HIS47 2.3 17.4 1.0
OE1 A:GLU173 2.4 17.4 1.0
NE2 A:HIS169 2.5 17.4 1.0
OE2 A:GLU173 3.1 17.4 1.0
CD A:GLU173 3.1 17.4 1.0
CE1 B:HIS74 3.1 17.4 1.0
CE1 A:HIS47 3.2 17.4 1.0
CD2 B:HIS74 3.3 17.4 1.0
CE1 A:HIS169 3.3 17.4 1.0
CD2 A:HIS47 3.4 17.4 1.0
CD2 A:HIS169 3.5 17.4 1.0
ND1 B:HIS74 4.3 17.4 1.0
ND1 A:HIS47 4.3 17.4 1.0
CG B:HIS74 4.4 17.4 1.0
CG A:HIS47 4.5 17.4 1.0
ND1 A:HIS169 4.5 17.4 1.0
CG A:GLU173 4.6 17.4 1.0
CG A:HIS169 4.6 17.4 1.0
OE2 B:GLU21 4.8 17.4 1.0

Manganese binding site 3 out of 32 in 2f1d

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Manganese binding site 3 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn300

b:17.4
occ:1.00
NE2 B:HIS170 2.4 17.4 1.0
NE2 G:HIS145 2.4 17.4 1.0
OE1 G:GLU77 2.5 17.4 1.0
NE2 G:HIS73 2.6 17.4 1.0
CE1 G:HIS145 3.1 17.4 1.0
CD G:GLU77 3.2 17.4 1.0
CD2 B:HIS170 3.3 17.4 1.0
OE2 G:GLU77 3.3 17.4 1.0
CE1 B:HIS170 3.3 17.4 1.0
CD2 G:HIS145 3.5 17.4 1.0
CD2 G:HIS73 3.6 17.4 1.0
CE1 G:HIS73 3.6 17.4 1.0
OD2 B:ASP108 3.9 17.4 1.0
ND1 G:HIS145 4.3 17.4 1.0
ND1 B:HIS170 4.5 17.4 1.0
CG B:HIS170 4.5 17.4 1.0
CG G:HIS145 4.6 17.4 1.0
CG G:GLU77 4.6 17.4 1.0
ND1 G:HIS73 4.7 17.4 1.0
CG G:HIS73 4.7 17.4 1.0
CG B:ASP108 4.9 17.4 1.0
CD1 B:LEU107 5.0 17.4 1.0

Manganese binding site 4 out of 32 in 2f1d

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Manganese binding site 4 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn301

b:17.4
occ:1.00
OE1 B:GLU173 2.1 17.4 1.0
NE2 B:HIS169 2.4 17.4 1.0
NE2 G:HIS74 2.4 17.4 1.0
NE2 B:HIS47 2.4 17.4 1.0
CD B:GLU173 3.1 17.4 1.0
CE1 B:HIS169 3.2 17.4 1.0
CE1 G:HIS74 3.3 17.4 1.0
OE2 B:GLU173 3.3 17.4 1.0
CD2 B:HIS47 3.4 17.4 1.0
CD2 B:HIS169 3.4 17.4 1.0
CD2 G:HIS74 3.4 17.4 1.0
CE1 B:HIS47 3.4 17.4 1.0
ND1 B:HIS169 4.3 17.4 1.0
CG B:GLU173 4.4 17.4 1.0
ND1 G:HIS74 4.4 17.4 1.0
CG B:HIS169 4.4 17.4 1.0
OE2 G:GLU21 4.5 17.4 1.0
ND1 B:HIS47 4.5 17.4 1.0
CG B:HIS47 4.5 17.4 1.0
CG G:HIS74 4.5 17.4 1.0
CB B:GLU173 4.9 17.4 1.0

Manganese binding site 5 out of 32 in 2f1d

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Manganese binding site 5 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn300

b:17.4
occ:1.00
NE2 C:HIS170 2.5 17.4 1.0
CD2 C:HIS170 3.4 17.4 1.0
CE1 C:HIS170 3.5 17.4 1.0
OD2 C:ASP108 4.0 17.4 1.0
CG C:HIS170 4.6 17.4 1.0
ND1 C:HIS170 4.6 17.4 1.0
CG C:ASP108 5.0 17.4 1.0

Manganese binding site 6 out of 32 in 2f1d

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Manganese binding site 6 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn301

b:17.4
occ:1.00
OE1 C:GLU173 2.1 17.4 1.0
NE2 C:HIS47 2.4 17.4 1.0
NE2 C:HIS169 2.5 17.4 1.0
CD C:GLU173 2.8 17.4 1.0
OE2 C:GLU173 2.8 17.4 1.0
CD2 C:HIS47 3.3 17.4 1.0
CE1 C:HIS47 3.3 17.4 1.0
CE1 C:HIS169 3.3 17.4 1.0
CD2 C:HIS169 3.4 17.4 1.0
CG C:GLU173 4.3 17.4 1.0
ND1 C:HIS47 4.4 17.4 1.0
CG C:HIS47 4.5 17.4 1.0
ND1 C:HIS169 4.5 17.4 1.0
CG C:HIS169 4.5 17.4 1.0
CB C:GLU173 5.0 17.4 1.0

Manganese binding site 7 out of 32 in 2f1d

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Manganese binding site 7 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn300

b:17.4
occ:1.00
NE2 D:HIS170 2.4 17.4 1.0
NE2 A:HIS73 2.5 17.4 1.0
NE2 A:HIS145 2.5 17.4 1.0
OE1 A:GLU77 2.7 17.4 1.0
CD A:GLU77 3.2 17.4 1.0
OE2 A:GLU77 3.3 17.4 1.0
CE1 A:HIS73 3.4 17.4 1.0
CE1 D:HIS170 3.4 17.4 1.0
CD2 D:HIS170 3.4 17.4 1.0
CD2 A:HIS145 3.5 17.4 1.0
CD2 A:HIS73 3.5 17.4 1.0
CE1 A:HIS145 3.5 17.4 1.0
OD2 D:ASP108 3.6 17.4 1.0
CG A:GLU77 4.4 17.4 1.0
ND1 A:HIS73 4.5 17.4 1.0
ND1 D:HIS170 4.5 17.4 1.0
CG D:HIS170 4.6 17.4 1.0
CG A:HIS73 4.6 17.4 1.0
ND1 A:HIS145 4.6 17.4 1.0
CG A:HIS145 4.6 17.4 1.0
CG D:ASP108 4.8 17.4 1.0
CB A:GLU77 4.8 17.4 1.0

Manganese binding site 8 out of 32 in 2f1d

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Manganese binding site 8 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn301

b:17.4
occ:1.00
NE2 A:HIS74 2.2 17.4 1.0
OE1 D:GLU173 2.3 17.4 1.0
NE2 D:HIS169 2.3 17.4 1.0
NE2 D:HIS47 2.4 17.4 1.0
CE1 A:HIS74 3.1 17.4 1.0
CD D:GLU173 3.1 17.4 1.0
CE1 D:HIS169 3.2 17.4 1.0
CE1 D:HIS47 3.2 17.4 1.0
CD2 A:HIS74 3.2 17.4 1.0
OE2 D:GLU173 3.3 17.4 1.0
CD2 D:HIS169 3.4 17.4 1.0
CD2 D:HIS47 3.5 17.4 1.0
ND1 A:HIS74 4.3 17.4 1.0
ND1 D:HIS169 4.3 17.4 1.0
CG A:HIS74 4.3 17.4 1.0
ND1 D:HIS47 4.4 17.4 1.0
CG D:HIS169 4.4 17.4 1.0
CG D:GLU173 4.5 17.4 1.0
CG D:HIS47 4.5 17.4 1.0

Manganese binding site 9 out of 32 in 2f1d

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Manganese binding site 9 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 9 of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mn300

b:17.4
occ:1.00
NE2 E:HIS170 2.2 17.4 1.0
CE1 E:HIS170 3.1 17.4 1.0
CD2 E:HIS170 3.2 17.4 1.0
OD2 E:ASP108 4.0 17.4 1.0
ND1 E:HIS170 4.2 17.4 1.0
CG E:HIS170 4.3 17.4 1.0
CD1 E:LEU107 4.9 17.4 1.0

Manganese binding site 10 out of 32 in 2f1d

Go back to Manganese Binding Sites List in 2f1d
Manganese binding site 10 out of 32 in the X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 10 of X-Ray Structure of Imidazoleglycerol-Phosphate Dehydratase within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mn301

b:17.4
occ:1.00
OE1 E:GLU173 2.1 17.4 1.0
NE2 E:HIS47 2.3 17.4 1.0
NE2 E:HIS169 2.3 17.4 1.0
CD E:GLU173 3.0 17.4 1.0
CE1 E:HIS47 3.1 17.4 1.0
CE1 E:HIS169 3.1 17.4 1.0
OE2 E:GLU173 3.3 17.4 1.0
CD2 E:HIS47 3.3 17.4 1.0
CD2 E:HIS169 3.4 17.4 1.0
ND1 E:HIS47 4.3 17.4 1.0
ND1 E:HIS169 4.3 17.4 1.0
CG E:GLU173 4.4 17.4 1.0
CG E:HIS47 4.4 17.4 1.0
CG E:HIS169 4.5 17.4 1.0

Reference:

S.E.Glynn, P.J.Baker, S.E.Sedelnikova, C.L.Davies, T.C.Eadsforth, C.W.Levy, H.F.Rodgers, G.M.Blackburn, T.R.Hawkes, R.Viner, D.W.Rice. Structure and Mechanism of Imidazoleglycerol-Phosphate Dehydratase. Structure V. 13 1809 2005.
ISSN: ISSN 0969-2126
PubMed: 16338409
DOI: 10.1016/J.STR.2005.08.012
Page generated: Tue Dec 15 04:01:28 2020

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