Calcium in PDB 1ve5: Crystal Structure of T.Th. HB8 Threonine Deaminase

All present enzymatic activity of Crystal Structure of T.Th. HB8 Threonine Deaminase:
4.3.1.19;

The structure of Crystal Structure of T.Th. HB8 Threonine Deaminase, PDB code: 1ve5 was solved by M.Goto, Riken Structural Genomics/Proteomics Initiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.15
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	53.590, 158.190, 80.300, 90.00, 108.52, 90.00
R / Rfree (%)	20.2 / 24.5

The binding sites of Calcium atom in the Crystal Structure of T.Th. HB8 Threonine Deaminase (pdb code 1ve5). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of T.Th. HB8 Threonine Deaminase, PDB code: 1ve5:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of T.Th. HB8 Threonine Deaminase


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 T.Th. HB8 Threonine Deaminase within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2001 b:42.1 occ:1.00 O A:HOH1067 2.6 29.7 1.0 OE1 A:GLU203 2.7 33.8 1.0 O A:ALA207 2.7 41.2 1.0 OD2 A:ASP209 2.7 42.9 1.0 O A:HOH1223 2.7 39.1 1.0 O A:HOH1231 2.8 34.2 1.0 CG A:ASP209 3.4 42.3 1.0 OD1 A:ASP209 3.6 44.3 1.0 C A:ALA207 3.7 42.3 1.0 CD A:GLU203 3.8 36.2 1.0 N A:ASP209 4.1 42.4 1.0 CB A:ALA207 4.1 42.4 1.0 N A:ALA210 4.2 41.3 1.0 O A:VAL177 4.2 34.8 1.0 CB A:GLU203 4.2 33.5 1.0 O A:VAL233 4.4 37.7 1.0 CG A:GLU203 4.4 35.2 1.0 O A:THR235 4.5 43.8 1.0 CB A:ALA210 4.5 40.4 1.0 CA A:ALA207 4.5 42.6 1.0 CB A:ASP209 4.6 43.0 1.0 N A:ASP208 4.6 41.6 1.0 OE2 A:GLU203 4.7 37.3 1.0 CA A:ASP208 4.7 41.8 1.0 CA A:ASP209 4.8 42.4 1.0 C A:ASP208 4.8 41.9 1.0 O A:GLY178 4.9 29.1 1.0 OG1 A:THR235 4.9 49.7 1.0 C A:ASP209 5.0 42.1 1.0 CA A:ALA210 5.0 40.0 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of T.Th. HB8 Threonine Deaminase


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 T.Th. HB8 Threonine Deaminase within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca2003 b:28.9 occ:1.00 OE1 B:GLU203 2.5 24.3 1.0 OD2 B:ASP209 2.5 19.2 1.0 O B:ALA207 2.6 27.0 1.0 O B:HOH1012 2.6 25.7 1.0 CD B:GLU203 3.3 26.1 1.0 CG B:ASP209 3.4 24.6 1.0 C B:ALA207 3.7 28.5 1.0 CG B:GLU203 3.7 24.4 1.0 OD1 B:ASP209 3.8 22.2 1.0 N B:ASP209 4.1 24.5 1.0 CB B:ALA207 4.1 29.6 1.0 O B:VAL233 4.2 27.4 1.0 N B:ALA210 4.3 23.2 1.0 OE2 B:GLU203 4.3 27.2 1.0 O B:VAL177 4.3 20.2 1.0 O B:THR235 4.3 27.9 1.0 CA B:ALA207 4.5 28.6 1.0 N B:ASP208 4.6 27.5 1.0 CA B:ASP208 4.6 27.6 1.0 CB B:ASP209 4.7 22.1 1.0 CB B:ALA210 4.7 25.6 1.0 C B:ASP208 4.8 26.4 1.0 CD1 B:LEU222 4.8 41.5 1.0 CB B:GLU203 4.8 23.6 1.0 O B:GLY178 4.8 19.7 1.0 CA B:ASP209 4.8 23.4 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of T.Th. HB8 Threonine Deaminase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of T.Th. HB8 Threonine Deaminase within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca2004 b:47.3 occ:1.00 OD2 C:ASP209 2.6 44.7 1.0 O C:ALA207 2.7 44.7 1.0 O C:HOH1063 2.7 33.9 1.0 OE1 C:GLU203 2.8 38.7 1.0 CG C:ASP209 3.3 43.9 1.0 OD1 C:ASP209 3.6 43.6 1.0 C C:ALA207 3.8 44.9 1.0 CD C:GLU203 3.9 41.9 1.0 N C:ASP209 4.0 42.2 1.0 CB C:ALA207 4.2 43.5 1.0 O C:VAL233 4.3 41.7 1.0 O C:VAL177 4.3 32.3 1.0 N C:ALA210 4.3 40.1 1.0 CB C:GLU203 4.4 35.9 1.0 OG1 C:THR235 4.5 51.0 1.0 O C:THR235 4.5 47.0 1.0 CG C:GLU203 4.5 38.8 1.0 CB C:ASP209 4.6 41.6 1.0 CA C:ALA207 4.6 44.9 1.0 O C:GLY178 4.6 33.0 1.0 CB C:ALA210 4.7 40.0 1.0 N C:ASP208 4.7 44.8 1.0 CA C:ASP209 4.7 42.1 1.0 CA C:ASP208 4.8 44.2 1.0 C C:ASP208 4.9 42.6 1.0 OE2 C:GLU203 4.9 41.5 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of T.Th. HB8 Threonine Deaminase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of T.Th. HB8 Threonine Deaminase within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca2002 b:41.1 occ:1.00 OE1 D:GLU203 2.6 36.4 1.0 O D:ALA207 2.7 47.2 1.0 OD2 D:ASP209 2.8 48.6 1.0 CG D:ASP209 3.4 47.4 1.0 OD1 D:ASP209 3.6 49.0 1.0 C D:ALA207 3.7 45.9 1.0 CD D:GLU203 3.8 38.9 1.0 CB D:ALA207 3.8 45.5 1.0 N D:ASP209 4.1 44.2 1.0 O D:VAL233 4.1 40.6 1.0 O D:VAL177 4.2 34.9 1.0 N D:ALA210 4.3 41.8 1.0 CB D:GLU203 4.3 34.6 1.0 CA D:ALA207 4.4 46.2 1.0 O D:THR235 4.4 42.8 1.0 CG D:GLU203 4.4 37.8 1.0 CB D:ASP209 4.5 45.9 1.0 N D:ASP208 4.7 45.1 1.0 CB D:ALA210 4.8 39.9 1.0 OE2 D:GLU203 4.8 39.0 1.0 CA D:ASP209 4.8 44.4 1.0 CD1 D:LEU222 4.8 58.9 1.0 CA D:ASP208 4.9 45.2 1.0 O D:GLY178 4.9 28.5 1.0 C D:ASP208 4.9 44.1 1.0

M.Goto, M.Goto, Riken Structural Genomics/Proteomics Initiative (Rsgi). N/A N/A.