Calcium in PDB 1wzm: Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) Mutatnt R469K

All present enzymatic activity of Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) Mutatnt R469K:
3.2.1.135;

The structure of Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) Mutatnt R469K, PDB code: 1wzm was solved by M.Mizuno, K.Ichikawa, T.Tonozuka, A.Ohtaki, Y.Shimura, S.Kamitori, A.Nishikawa, Y.Sakano, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	51.53 / 3.20
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	110.663, 115.900, 112.594, 90.00, 90.00, 90.00
R / Rfree (%)	21.6 / 29.3

The binding sites of Calcium atom in the Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) Mutatnt R469K (pdb code 1wzm). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) Mutatnt R469K, PDB code: 1wzm:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) Mutatnt R469K


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) Mutatnt R469K within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca601 b:19.0 occ:1.00 OD2 A:ASP149 2.2 37.1 1.0 O A:ASP145 2.2 32.6 1.0 OD1 A:ASN143 2.4 20.5 1.0 O A:GLY169 2.5 37.9 1.0 OD1 A:ASN148 2.5 34.7 1.0 C A:ASP145 3.2 31.6 1.0 CG A:ASN143 3.3 23.1 1.0 CG A:ASP149 3.4 37.7 1.0 C A:GLY169 3.5 36.2 1.0 CG A:ASN148 3.6 36.5 1.0 OD2 A:ASP171 3.6 32.4 1.0 CG A:ASP171 3.6 35.1 1.0 ND2 A:ASN143 3.7 21.7 1.0 CB A:ASP171 3.9 33.8 1.0 CA A:GLY169 4.0 37.0 1.0 OD1 A:ASP149 4.0 36.6 1.0 N A:PRO146 4.0 31.0 1.0 N A:ASP145 4.1 32.3 1.0 ND2 A:ASN148 4.1 36.7 1.0 N A:ASP149 4.1 41.5 1.0 CA A:PRO146 4.2 32.6 1.0 CA A:ASP145 4.2 31.4 1.0 OD1 A:ASP171 4.2 36.6 1.0 C A:ASN148 4.4 41.5 1.0 CA A:ASP149 4.4 41.5 1.0 O A:GLN215 4.4 24.8 1.0 CB A:ASP149 4.5 38.8 1.0 CB A:ASN143 4.5 24.1 1.0 CB A:ASP145 4.6 32.4 1.0 CA A:ASN143 4.6 27.2 1.0 C A:PRO146 4.6 35.2 1.0 O A:PRO146 4.7 35.7 1.0 N A:GLY170 4.7 34.5 1.0 C A:GLY170 4.7 32.9 1.0 N A:ASP171 4.7 31.8 1.0 N A:ASN148 4.7 40.5 1.0 O A:ASN148 4.7 42.7 1.0 CB A:ASN148 4.8 38.1 1.0 N A:GLY144 4.8 30.1 1.0 CA A:ASN148 4.8 40.5 1.0 C A:ASN143 4.8 28.6 1.0 O A:GLY170 4.9 33.4 1.0 CA A:ASP171 5.0 30.7 1.0

Calcium binding site 2 out of 2 in the Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) Mutatnt R469K


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) Mutatnt R469K within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca602 b:49.4 occ:1.00 O B:ASP145 2.2 50.6 1.0 OD1 B:ASN143 2.4 49.5 1.0 OD1 B:ASN148 2.4 45.0 1.0 OD2 B:ASP149 2.5 51.5 1.0 O B:GLY169 2.6 50.7 1.0 CG B:ASN148 3.0 44.9 1.0 ND2 B:ASN148 3.0 44.8 1.0 C B:ASP145 3.1 50.8 1.0 OD1 B:ASP171 3.4 42.0 1.0 CG B:ASP171 3.5 45.5 1.0 CG B:ASN143 3.6 49.8 1.0 CB B:ASP171 3.7 46.0 1.0 C B:GLY169 3.8 51.5 1.0 CG B:ASP149 3.8 51.5 1.0 N B:PRO146 3.9 49.7 1.0 OD2 B:ASP171 4.0 46.4 1.0 CA B:PRO146 4.0 49.1 1.0 N B:ASP149 4.0 49.1 1.0 N B:ASP145 4.0 51.4 1.0 CA B:ASP145 4.1 51.5 1.0 CB B:ASN148 4.3 45.8 1.0 CA B:GLY169 4.4 51.5 1.0 ND2 B:ASN143 4.5 48.6 1.0 CA B:ASP149 4.5 50.2 1.0 C B:ASN148 4.5 48.7 1.0 N B:ASN148 4.5 46.8 1.0 CB B:ASP145 4.5 51.3 1.0 C B:PRO146 4.5 48.5 1.0 N B:ASP171 4.6 47.4 1.0 CB B:ASN143 4.6 49.4 1.0 OD1 B:ASP149 4.6 51.5 1.0 O B:GLN215 4.6 49.2 1.0 CA B:ASN143 4.6 49.5 1.0 C B:GLY170 4.7 48.7 1.0 CA B:ASN148 4.7 47.5 1.0 CB B:ASP149 4.7 51.0 1.0 N B:GLY170 4.8 51.1 1.0 CA B:ASP171 4.8 45.8 1.0 C B:ASN143 4.9 50.3 1.0 N B:GLY144 4.9 50.6 1.0 O B:PRO146 5.0 48.0 1.0

M.Mizuno, K.Ichikawa, T.Tonozuka, A.Ohtaki, Y.Shimura, S.Kamitori, A.Nishikawa, Y.Sakano. Mutagenesis and Structural Analysis of Thermoactinomyces Vulgaris R-47 Alpha-Amylase II (Tva II) To Be Published.