Calcium in PDB 5b6s: Catalytic Domain of Coprinopsis Cinerea GH62 Alpha-L- Arabinofuranosidase

All present enzymatic activity of Catalytic Domain of Coprinopsis Cinerea GH62 Alpha-L- Arabinofuranosidase:
3.2.1.55;

The structure of Catalytic Domain of Coprinopsis Cinerea GH62 Alpha-L- Arabinofuranosidase, PDB code: 5b6s was solved by T.Tonozuka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	74.10 / 1.70
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	47.713, 77.735, 74.202, 90.00, 93.00, 90.00
R / Rfree (%)	13.9 / 17

The binding sites of Calcium atom in the Catalytic Domain of Coprinopsis Cinerea GH62 Alpha-L- Arabinofuranosidase (pdb code 5b6s). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Catalytic Domain of Coprinopsis Cinerea GH62 Alpha-L- Arabinofuranosidase, PDB code: 5b6s:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Catalytic Domain of Coprinopsis Cinerea GH62 Alpha-L- Arabinofuranosidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Catalytic Domain of Coprinopsis Cinerea GH62 Alpha-L- Arabinofuranosidase within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:12.8 occ:1.00 O A:HOH854 2.1 10.5 1.0 O A:HOH625 2.2 10.0 1.0 O A:HOH772 2.2 7.9 1.0 O A:HOH626 2.2 8.3 1.0 O A:HOH858 2.2 11.5 1.0 NE2 A:HIS346 2.3 11.0 1.0 CD2 A:HIS346 3.1 10.4 1.0 CE1 A:HIS346 3.3 10.7 1.0 O A:HOH616 3.8 9.7 1.0 O A:PRO165 4.0 8.7 1.0 O A:HOH682 4.1 10.5 1.0 CG A:HIS346 4.3 10.3 1.0 O A:ASP109 4.3 8.7 1.0 O A:GLY347 4.3 9.4 1.0 ND1 A:HIS346 4.4 11.0 1.0 O A:PRO110 4.4 9.3 1.0 OE2 A:GLU348 4.5 8.6 1.0 O A:HOH730 4.5 9.9 1.0 C A:ASP109 4.7 9.0 1.0 ND2 A:ASN279 4.8 9.9 1.0 CE3 A:TRP226 4.8 8.0 1.0 CZ3 A:TRP226 4.8 8.1 1.0 O A:ALA278 4.9 10.6 1.0 CB A:ASP109 5.0 9.3 1.0 CG A:GLU348 5.0 8.5 1.0 C A:PRO165 5.0 8.5 1.0

Calcium binding site 2 out of 2 in the Catalytic Domain of Coprinopsis Cinerea GH62 Alpha-L- Arabinofuranosidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Catalytic Domain of Coprinopsis Cinerea GH62 Alpha-L- Arabinofuranosidase within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca501 b:14.9 occ:1.00 O B:HOH825 2.1 11.7 1.0 O B:HOH627 2.1 12.0 1.0 O B:HOH780 2.2 12.5 1.0 O B:HOH828 2.2 11.4 1.0 O B:HOH693 2.2 9.7 1.0 NE2 B:HIS346 2.3 12.9 1.0 CD2 B:HIS346 3.1 12.0 1.0 CE1 B:HIS346 3.4 11.9 1.0 O B:HOH635 3.6 15.1 1.0 O B:PRO165 4.0 9.4 1.0 O B:HOH705 4.1 9.7 1.0 CG B:HIS346 4.3 11.3 1.0 O B:GLY347 4.3 9.7 1.0 O B:PRO110 4.4 9.2 1.0 ND1 B:HIS346 4.4 11.8 1.0 O B:ASP109 4.5 10.2 1.0 O B:HOH738 4.5 9.5 1.0 OE2 B:GLU348 4.6 10.0 1.0 ND2 B:ASN279 4.7 10.1 1.0 CE3 B:TRP226 4.7 9.3 1.0 CZ3 B:TRP226 4.8 9.4 1.0 C B:ASP109 4.8 9.3 1.0 CG B:GLU348 4.9 9.8 1.0 O B:ALA278 4.9 10.5 1.0

T.Tonozuka, Y.Tanaka, S.Okuyama, T.Miyazaki, A.Nishikawa, M.Yoshida. Structure of the Catalytic Domain of Alpha-L-Arabinofuranosidase From Coprinopsis Cinerea, CCABF62A, Provides Insights Into Structure-Function Relationships in Glycoside Hydrolase Family 62 Appl. Biochem. Biotechnol. V. 181 511 2017.
ISSN: ISSN 1559-0291
PubMed: 27589854
DOI: 10.1007/S12010-016-2227-0