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Calcium in PDB 2hyk: The Crystal Structure of An Endo-Beta-1,3-Glucanase From Alkaliphilic Nocardiopsis Sp.Strain F96

Enzymatic activity of The Crystal Structure of An Endo-Beta-1,3-Glucanase From Alkaliphilic Nocardiopsis Sp.Strain F96

All present enzymatic activity of The Crystal Structure of An Endo-Beta-1,3-Glucanase From Alkaliphilic Nocardiopsis Sp.Strain F96:
3.2.1.39;

Protein crystallography data

The structure of The Crystal Structure of An Endo-Beta-1,3-Glucanase From Alkaliphilic Nocardiopsis Sp.Strain F96, PDB code: 2hyk was solved by G.Fibriansah, S.Nakamura, T.Kumasaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.65 / 1.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 34.589, 71.843, 39.666, 90.00, 90.21, 90.00
R / Rfree (%) 14.3 / 16.2

Calcium Binding Sites:

The binding sites of Calcium atom in the The Crystal Structure of An Endo-Beta-1,3-Glucanase From Alkaliphilic Nocardiopsis Sp.Strain F96 (pdb code 2hyk). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the The Crystal Structure of An Endo-Beta-1,3-Glucanase From Alkaliphilic Nocardiopsis Sp.Strain F96, PDB code: 2hyk:

Calcium binding site 1 out of 1 in 2hyk

Go back to Calcium Binding Sites List in 2hyk
Calcium binding site 1 out of 1 in the The Crystal Structure of An Endo-Beta-1,3-Glucanase From Alkaliphilic Nocardiopsis Sp.Strain F96


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Crystal Structure of An Endo-Beta-1,3-Glucanase From Alkaliphilic Nocardiopsis Sp.Strain F96 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca477

b:9.2
occ:1.00
 O A:GLY58 2.3 7.6 1.0
OD1 A:ASP237 2.3 4.3 1.0
O A:GLU14 2.3 5.6 1.0
O A:HOH510 2.4 11.5 1.0
O A:ASP237 2.4 3.7 1.0
O A:HOH601 2.5 17.5 1.0
O A:HOH537 2.5 16.4 1.0
C A:GLY58 3.4 7.3 1.0
C A:ASP237 3.4 3.7 1.0
C A:GLU14 3.5 5.7 1.0
CG A:ASP237 3.5 3.9 1.0
CA A:GLY58 3.8 7.4 1.0
CA A:ASP237 3.9 3.7 1.0
CA A:GLU14 4.1 5.9 1.0
CB A:ASP237 4.3 3.4 1.0
O A:HOH669 4.3 29.6 1.0
CB A:GLU14 4.4 6.0 1.0
OD2 A:ASP237 4.4 5.5 1.0
N A:PHE15 4.6 5.9 1.0
N A:TYR238 4.6 3.5 1.0
N A:ASN59 4.6 7.1 1.0
OE1 A:GLU14 4.6 7.5 1.0
CB A:PHE15 4.6 5.9 1.0
OD1 A:ASP16 4.7 10.7 1.0
C A:PHE15 4.7 6.1 1.0
O A:PHE15 4.8 5.9 1.0
CB A:TYR238 4.8 3.7 1.0
CA A:PHE15 4.8 6.0 1.0
ND2 A:ASN59 4.9 8.3 1.0
CD2 A:TYR238 4.9 4.5 1.0
CA A:TYR238 5.0 3.4 1.0

Reference:

G.Fibriansah, S.Masuda, N.Koizumi, S.Nakamura, T.Kumasaka. The 1.3 A Crystal Structure of A Novel Endo-Beta-1,3-Glucanase of Glycoside Hydrolase Family 16 From Alkaliphilic Nocardiopsis Sp. Strain F96. Proteins V. 69 683 2007.
ISSN: ISSN 0887-3585
PubMed: 17879342
DOI: 10.1002/PROT.21589
Page generated: Tue Jul 8 06:04:51 2025

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