Calcium in PDB 3w5m: Crystal Structure of Streptomyces Avermitilis Alpha-L-Rhamnosidase

All present enzymatic activity of Crystal Structure of Streptomyces Avermitilis Alpha-L-Rhamnosidase:
3.2.1.40;

The structure of Crystal Structure of Streptomyces Avermitilis Alpha-L-Rhamnosidase, PDB code: 3w5m was solved by Z.Fujimoto, A.Jackson, M.Michikawa, T.Maehara, M.Momma, B.F.Henrissat, H.J.Gilbert, S.Kaneko, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.60 / 1.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	52.769, 128.414, 75.173, 90.00, 99.34, 90.00
R / Rfree (%)	18 / 21.4

The binding sites of Calcium atom in the Crystal Structure of Streptomyces Avermitilis Alpha-L-Rhamnosidase (pdb code 3w5m). 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 Crystal Structure of Streptomyces Avermitilis Alpha-L-Rhamnosidase, PDB code: 3w5m:

Calcium binding site 1 out of 1 in the Crystal Structure of Streptomyces Avermitilis Alpha-L-Rhamnosidase


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 Streptomyces Avermitilis Alpha-L-Rhamnosidase within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1201 b:31.1 occ:1.00 OD1 A:ASN228 2.3 24.6 1.0 OD1 A:ASP179 2.3 25.3 1.0 O A:HOH2255 2.4 28.8 1.0 O A:PRO233 2.5 23.4 1.0 O A:HOH2181 2.6 44.2 1.0 OD1 A:ASN180 2.6 30.2 1.0 O A:HOH2076 2.6 34.2 1.0 CG A:ASP179 3.3 24.0 1.0 CG A:ASN180 3.5 28.6 1.0 CG A:ASN228 3.5 23.2 1.0 OD2 A:ASP179 3.6 23.7 1.0 C A:PRO233 3.7 22.9 1.0 ND2 A:ASN180 3.7 29.7 1.0 ND2 A:ASN228 4.2 22.4 1.0 O A:SER230 4.3 34.1 1.0 O A:ASP179 4.4 24.8 1.0 N A:ALA229 4.4 25.5 1.0 N A:PRO233 4.4 26.3 1.0 C A:ASP179 4.4 22.5 1.0 CA A:PRO233 4.5 24.0 1.0 O A:HOH2679 4.6 38.1 1.0 CB A:ASP179 4.6 22.5 1.0 C A:GLY232 4.6 26.4 1.0 CB A:ASN228 4.6 23.7 1.0 N A:ALA234 4.6 22.0 1.0 N A:ASN180 4.6 22.2 1.0 CA A:ALA234 4.7 20.4 1.0 O A:HOH2359 4.7 45.5 1.0 O A:GLY232 4.7 27.6 1.0 CA A:ASN228 4.7 23.6 1.0 CB A:ASN180 4.8 26.5 1.0 N A:SER230 4.9 30.9 1.0 CA A:ASP179 4.9 21.9 1.0 CD A:PRO233 5.0 25.8 1.0 CB A:PRO233 5.0 25.6 1.0 C A:ASN228 5.0 24.6 1.0

Z.Fujimoto, A.Jackson, M.Michikawa, T.Maehara, M.Momma, B.F.Henrissat, H.J.Gilbert, S.Kaneko. The Structure of A Streptomyces Avermitilis Alpha-L-Rhamnosidase Reveals A Novel Carbohydrate-Binding Module CBM67 Within the Six-Domain Arrangement. J.Biol.Chem. V. 288 12376 2013.
ISSN: ISSN 0021-9258
PubMed: 23486481
DOI: 10.1074/JBC.M113.460097