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Calcium in PDB 4fmp: Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm

Enzymatic activity of Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm

All present enzymatic activity of Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm:
3.1.1.3;

Protein crystallography data

The structure of Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm, PDB code: 4fmp was solved by N.D.Nisbar, R.N.Z.R.A.Rahman, M.S.M.Ali, A.T.C.Leow, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 55.786, 143.392, 63.965, 90.00, 105.88, 90.00
R / Rfree (%) 17.3 / 24.2

Other elements in 4fmp:

The structure of Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm (pdb code 4fmp). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm, PDB code: 4fmp:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 4fmp

Go back to Calcium Binding Sites List in 4fmp
Calcium binding site 1 out of 2 in the Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca401

b:70.0
occ:1.00
O A:GLY286 2.4 39.9 1.0
OE2 A:GLU360 2.5 32.1 1.0
O A:PRO366 2.5 40.2 1.0
O A:HOH611 2.7 40.8 1.0
OD2 A:ASP365 2.9 35.7 1.0
CD A:GLU360 3.4 30.4 1.0
C A:GLY286 3.5 38.8 1.0
CG A:GLU360 3.7 29.9 1.0
C A:PRO366 3.7 39.4 1.0
CG A:ASP365 4.0 38.7 1.0
O A:HOH522 4.0 38.8 1.0
CB A:ASN367 4.2 38.4 1.0
CA A:GLY286 4.3 38.8 1.0
CA A:ASN367 4.4 38.7 1.0
N A:ASN367 4.5 38.8 1.0
N A:MET287 4.5 38.1 1.0
N A:ASN288 4.5 36.6 1.0
CB A:ASP365 4.5 36.7 1.0
N A:PRO366 4.5 38.4 1.0
NH2 A:ARG271 4.6 42.1 1.0
OE1 A:GLU360 4.6 34.1 1.0
C A:MET287 4.6 36.9 1.0
CA A:MET287 4.7 37.6 1.0
CD A:PRO366 4.7 39.5 1.0
C A:ASP365 4.7 37.4 1.0
CA A:PRO366 4.7 39.3 1.0
CG A:PRO366 4.8 39.3 1.0
OD2 A:ASP357 4.9 44.0 1.0
CG A:ASN367 4.9 41.6 1.0
OD1 A:ASP365 5.0 43.0 1.0
O A:ASP365 5.0 35.5 1.0

Calcium binding site 2 out of 2 in 4fmp

Go back to Calcium Binding Sites List in 4fmp
Calcium binding site 2 out of 2 in the Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Thermostable, Organic-Solvent Tolerant Lipase From Geobacillus Sp. Strain Arm within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca401

b:62.0
occ:1.00
O B:GLY286 2.3 30.1 1.0
OE2 B:GLU360 2.6 35.4 1.0
O B:PRO366 2.6 32.4 1.0
OD2 B:ASP365 2.9 37.1 1.0
O B:HOH580 2.9 32.9 1.0
O B:HOH608 3.1 45.2 1.0
C B:GLY286 3.5 30.1 1.0
CD B:GLU360 3.5 31.4 1.0
C B:PRO366 3.8 33.5 1.0
CG B:GLU360 3.8 28.3 1.0
CG B:ASP365 4.0 39.7 1.0
CA B:GLY286 4.1 28.7 1.0
NH2 B:ARG271 4.2 34.6 1.0
CB B:ASN367 4.3 34.2 1.0
N B:ASN288 4.3 30.4 1.0
C B:MET287 4.4 31.1 1.0
N B:MET287 4.5 29.3 1.0
CA B:ASN367 4.5 33.6 1.0
N B:ASN367 4.6 32.5 1.0
CA B:MET287 4.6 30.1 1.0
N B:PRO366 4.6 34.7 1.0
CG B:PRO366 4.6 35.7 1.0
CB B:ASP365 4.6 34.8 1.0
OE1 B:GLU360 4.7 33.1 1.0
CD B:PRO366 4.8 33.8 1.0
CA B:PRO366 4.8 34.1 1.0
C B:ASP365 4.8 34.3 1.0
CA B:ASN288 4.9 32.9 1.0
O B:MET287 4.9 30.5 1.0
OD2 B:ASP357 4.9 38.5 1.0

Reference:

N.D.Nisbar, R.N.Z.R.A.Rahman, M.S.M.Ali, A.T.C.Leow. Crystallization of Novel Arm Lipase and Elucidation of Its Space-Grown Crystal Structure Thesis 2013.
Page generated: Sat Dec 12 04:46:58 2020

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