Calcium in PDB 1k1x: Crystal Structure of 4-Alpha-Glucanotransferase From Thermococcus Litoralis

All present enzymatic activity of Crystal Structure of 4-Alpha-Glucanotransferase From Thermococcus Litoralis:
2.4.1.25;

The structure of Crystal Structure of 4-Alpha-Glucanotransferase From Thermococcus Litoralis, PDB code: 1k1x was solved by H.Imamura, S.Fushinobu, T.Kumasaka, M.Yamamoto, B.S.Jeon, T.Wakagi, H.Matsuzawa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.00 / 2.40
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	137.682, 161.494, 70.384, 90.00, 90.00, 90.00
R / Rfree (%)	19.5 / 23.6

The binding sites of Calcium atom in the Crystal Structure of 4-Alpha-Glucanotransferase From Thermococcus Litoralis (pdb code 1k1x). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Crystal Structure of 4-Alpha-Glucanotransferase From Thermococcus Litoralis, PDB code: 1k1x:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structure of 4-Alpha-Glucanotransferase From Thermococcus Litoralis


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 4-Alpha-Glucanotransferase From Thermococcus Litoralis within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1601 b:36.1 occ:1.00 OD1 A:ASP396 2.2 69.8 1.0 OD2 A:ASP394 2.6 36.9 1.0 OE2 A:GLU400 2.6 26.7 1.0 O A:ARG398 2.6 35.7 1.0 OD1 A:ASP392 2.6 40.0 1.0 OE1 A:GLU400 2.7 26.7 1.0 CD A:GLU400 3.0 26.7 1.0 CG A:ASP396 3.0 69.8 1.0 CG A:ASP392 3.2 40.0 1.0 C A:ARG398 3.5 35.7 1.0 OD2 A:ASP396 3.5 69.8 1.0 OD2 A:ASP392 3.7 40.0 1.0 CG A:ASP394 3.8 36.9 1.0 N A:ASP396 3.8 30.8 1.0 N A:ARG398 3.8 35.7 1.0 CA A:ASP392 4.0 33.9 1.0 CB A:ASP392 4.1 40.0 1.0 CA A:ARG398 4.1 35.7 1.0 NE2 A:HIS415 4.2 45.3 1.0 CB A:ASP396 4.2 69.8 1.0 N A:VAL393 4.2 27.6 1.0 N A:ASP394 4.3 30.5 1.0 OD1 A:ASP394 4.3 36.9 1.0 N A:ALA399 4.3 32.4 1.0 CE1 A:HIS415 4.4 45.3 1.0 N A:PHE395 4.4 28.0 1.0 C A:ASP392 4.4 33.9 1.0 CA A:ASP396 4.4 30.8 1.0 N A:GLY397 4.5 35.2 1.0 CB A:ARG398 4.5 88.2 1.0 CG A:GLU400 4.5 26.7 1.0 CA A:ALA399 4.6 32.4 1.0 C A:ASP396 4.6 30.8 1.0 C A:ALA399 4.7 32.4 1.0 C A:ASP394 4.7 30.5 1.0 N A:GLU400 4.8 24.2 1.0 C A:PHE395 4.8 28.0 1.0 CA A:ASP394 4.8 30.5 1.0 CA A:PHE395 4.9 28.0 1.0 CB A:ASP394 4.9 36.9 1.0 C A:GLY397 5.0 35.2 1.0

Calcium binding site 2 out of 3 in the Crystal Structure of 4-Alpha-Glucanotransferase From Thermococcus Litoralis


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 4-Alpha-Glucanotransferase From Thermococcus Litoralis within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1602 b:28.2 occ:1.00 OD2 B:ASP394 2.5 39.6 1.0 OE2 B:GLU400 2.6 26.5 1.0 OD1 B:ASP396 2.6 34.8 1.0 O B:ARG398 2.6 32.3 1.0 OD1 B:ASP392 2.7 29.0 1.0 OE1 B:GLU400 2.8 26.5 1.0 CD B:GLU400 3.0 26.5 1.0 CG B:ASP396 3.2 34.8 1.0 OD2 B:ASP396 3.3 34.8 1.0 C B:ARG398 3.6 32.3 1.0 CG B:ASP394 3.6 39.6 1.0 CG B:ASP392 3.7 29.0 1.0 OD1 B:ASP394 4.0 39.6 1.0 NE2 B:HIS415 4.0 58.6 1.0 N B:ARG398 4.1 32.3 1.0 CE1 B:HIS415 4.2 58.6 1.0 CA B:ARG398 4.3 32.3 1.0 N B:ASP394 4.3 25.1 1.0 NZ B:LYS413 4.3 41.3 1.0 CA B:ASP392 4.3 23.1 1.0 N B:ASP396 4.3 29.5 1.0 N B:VAL393 4.4 21.1 1.0 CB B:ASP396 4.4 34.8 1.0 CB B:ASP392 4.5 29.0 1.0 N B:ALA399 4.5 23.5 1.0 OD2 B:ASP392 4.5 29.0 1.0 CB B:ARG398 4.5 60.5 1.0 CG B:GLU400 4.5 26.5 1.0 C B:ALA399 4.6 23.5 1.0 C B:ASP392 4.6 23.1 1.0 CA B:ALA399 4.8 23.5 1.0 CB B:ASP394 4.8 39.6 1.0 N B:GLU400 4.8 22.4 1.0 CA B:ASP396 4.8 29.5 1.0 N B:PHE395 4.8 33.8 1.0 CA B:ASP394 4.8 25.1 1.0 C B:ASP394 4.9 25.1 1.0 N B:GLY397 4.9 35.0 1.0 O B:ALA399 4.9 23.5 1.0

Calcium binding site 3 out of 3 in the Crystal Structure of 4-Alpha-Glucanotransferase From Thermococcus Litoralis


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 4-Alpha-Glucanotransferase From Thermococcus Litoralis within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1603 b:34.9 occ:1.00 O B:HOH1759 2.7 23.9 1.0 O B:HOH1668 2.9 27.0 1.0 O B:HOH1681 2.9 19.3 1.0 OE2 B:GLU60 2.9 49.8 1.0 OE1 B:GLU60 3.1 49.8 1.0 CD B:GLU60 3.4 49.8 1.0 O B:HOH1695 4.0 38.9 1.0 CG B:GLU60 4.8 49.8 1.0 O B:GLU60 4.8 34.6 1.0 O B:HOH1764 4.8 39.7 1.0 CA B:GLU60 5.0 34.6 1.0

H.Imamura, S.Fushinobu, M.Yamamoto, T.Kumasaka, B.S.Jeon, T.Wakagi, H.Matsuzawa. Crystal Structures of 4-Alpha-Glucanotransferase From Thermococcus Litoralis and Its Complex with An Inhibitor J.Biol.Chem. V. 278 19378 2003.
ISSN: ISSN 0021-9258
PubMed: 12618437
DOI: 10.1074/JBC.M213134200