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Zinc in PDB 1ah7: Phospholipase C From Bacillus Cereus

Enzymatic activity of Phospholipase C From Bacillus Cereus

All present enzymatic activity of Phospholipase C From Bacillus Cereus:
3.1.4.3;

Protein crystallography data

The structure of Phospholipase C From Bacillus Cereus, PDB code: 1ah7 was solved by R.Greaves, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 12.45 / 1.50
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 89.760, 89.760, 74.030, 90.00, 90.00, 90.00
R / Rfree (%) 20.3 / 23.1

Zinc Binding Sites:

The binding sites of Zinc atom in the Phospholipase C From Bacillus Cereus (pdb code 1ah7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Phospholipase C From Bacillus Cereus, PDB code: 1ah7:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 1ah7

Go back to Zinc Binding Sites List in 1ah7
Zinc binding site 1 out of 3 in the Phospholipase C From Bacillus Cereus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Phospholipase C From Bacillus Cereus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn246

b:2.0
occ:1.00
NE2 A:HIS118 2.0 7.0 1.0
ND1 A:HIS69 2.1 6.4 1.0
O A:HOH249 2.2 7.8 1.0
OD2 A:ASP122 2.2 10.4 1.0
OD1 A:ASP55 2.3 9.8 1.0
CE1 A:HIS69 2.7 10.9 1.0
CD2 A:HIS118 2.9 11.2 1.0
CE1 A:HIS118 3.0 11.2 1.0
CG A:ASP122 3.2 12.3 1.0
CG A:HIS69 3.3 9.7 1.0
CG A:ASP55 3.3 11.1 1.0
O A:HOH452 3.4 46.8 1.0
OD2 A:ASP55 3.6 13.1 1.0
OD1 A:ASP122 3.6 9.4 1.0
ZN A:ZN248 3.6 2.0 1.0
CB A:HIS69 3.8 8.1 1.0
NE2 A:HIS69 3.9 11.2 1.0
CG A:HIS118 4.0 10.2 1.0
NE2 A:HIS14 4.0 7.4 1.0
ND1 A:HIS118 4.1 10.2 1.0
CD2 A:HIS69 4.2 10.4 1.0
O A:HOH250 4.5 19.3 1.0
CB A:ASP122 4.5 10.8 1.0
CE1 A:HIS14 4.5 11.4 1.0
CB A:ASP55 4.6 11.3 1.0
CE1 A:HIS128 4.9 14.3 1.0
CD2 A:HIS14 4.9 11.5 1.0
CA A:HIS69 4.9 8.7 1.0
CB A:ALA54 5.0 12.8 1.0
CA A:ASP55 5.0 10.6 1.0
O A:TRP1 5.0 8.7 1.0

Zinc binding site 2 out of 3 in 1ah7

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Zinc binding site 2 out of 3 in the Phospholipase C From Bacillus Cereus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Phospholipase C From Bacillus Cereus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn247

b:2.0
occ:0.80
NE2 A:HIS128 2.1 12.5 1.0
O A:HOH250 2.2 19.3 1.0
OE2 A:GLU146 2.2 7.8 0.8
NE2 A:HIS142 2.2 11.5 1.0
O A:HOH251 2.3 19.4 1.0
OE1 A:GLU146 2.5 13.8 0.8
CD A:GLU146 2.7 10.8 0.8
CE1 A:HIS128 2.9 14.3 1.0
CD2 A:HIS142 3.1 14.7 1.0
CE1 A:HIS142 3.1 14.2 1.0
CD2 A:HIS128 3.2 11.6 1.0
OE1 A:GLU146 3.2 7.3 0.0
N A:TRP1 3.9 8.7 1.0
ND1 A:HIS128 4.1 10.0 1.0
O A:HOH452 4.1 46.8 1.0
CG A:GLU146 4.1 10.2 0.8
O A:HOH259 4.2 41.4 1.0
O A:HOH341 4.2 43.0 1.0
CG A:HIS128 4.2 10.0 1.0
ND1 A:HIS142 4.2 12.5 1.0
CG A:HIS142 4.3 12.2 1.0
OE1 A:GLN125 4.3 14.5 1.0
CD A:GLU146 4.4 8.0 0.0
O A:HOH254 4.4 48.1 1.0
O A:HOH249 4.4 7.8 1.0
ZN A:ZN248 4.6 2.0 1.0
CA A:TRP1 4.8 11.5 1.0
OE2 A:GLU146 5.0 7.9 0.0
O A:TRP1 5.0 8.7 1.0

Zinc binding site 3 out of 3 in 1ah7

Go back to Zinc Binding Sites List in 1ah7
Zinc binding site 3 out of 3 in the Phospholipase C From Bacillus Cereus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Phospholipase C From Bacillus Cereus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn248

b:2.0
occ:1.00
N A:TRP1 2.1 8.7 1.0
NE2 A:HIS14 2.1 7.4 1.0
O A:HOH249 2.1 7.8 1.0
OD1 A:ASP122 2.1 9.4 1.0
O A:TRP1 2.2 8.7 1.0
C A:TRP1 2.9 11.9 1.0
CA A:TRP1 2.9 11.5 1.0
CE1 A:HIS14 3.0 11.4 1.0
O A:HOH250 3.0 19.3 1.0
CD2 A:HIS14 3.0 11.5 1.0
CG A:ASP122 3.1 12.3 1.0
CB A:TRP1 3.5 10.2 1.0
OD2 A:ASP122 3.6 10.4 1.0
ZN A:ZN246 3.6 2.0 1.0
NE2 A:HIS118 4.1 7.0 1.0
ND1 A:HIS14 4.1 11.1 1.0
CG A:HIS14 4.1 10.5 1.0
N A:SER2 4.2 12.6 1.0
CG A:TRP1 4.2 11.4 1.0
OD2 A:ASP55 4.2 13.1 1.0
CD1 A:TRP1 4.3 11.8 1.0
CE1 A:HIS118 4.4 11.2 1.0
OE1 A:GLU146 4.4 7.3 0.0
CB A:ASP122 4.4 10.8 1.0
OE2 A:GLU146 4.6 7.8 0.8
ZN A:ZN247 4.6 2.0 0.8
CE1 A:HIS128 4.6 14.3 1.0
NE2 A:HIS128 4.6 12.5 1.0
CA A:ASP122 4.7 9.4 1.0
O A:HOH341 4.7 43.0 1.0
O A:HOH452 4.7 46.8 1.0
OD1 A:ASP55 4.8 9.8 1.0
CD2 A:HIS118 4.9 11.2 1.0
CA A:SER2 4.9 11.8 1.0

Reference:

E.Hough, L.K.Hansen, B.Birknes, K.Jynge, S.Hansen, A.Hordvik, C.Little, E.Dodson, Z.Derewenda. High-Resolution (1.5 A) Crystal Structure of Phospholipase C From Bacillus Cereus. Nature V. 338 357 1989.
ISSN: ISSN 0028-0836
PubMed: 2493587
DOI: 10.1038/338357A0
Page generated: Fri Sep 25 20:56:53 2020
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