Calcium in PDB 1yax: Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium

The structure of Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium, PDB code: 1yax was solved by U.S.Cho, W.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	118.078, 134.871, 58.444, 90.00, 119.61, 90.00
R / Rfree (%)	24.2 / 28

The binding sites of Calcium atom in the Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium (pdb code 1yax). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium, PDB code: 1yax:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in the Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1002 b:59.2 occ:1.00 O A:HOH1048 2.1 51.9 1.0 O A:HOH1027 2.3 83.2 1.0 OE1 A:GLU154 2.3 52.5 1.0 OE1 D:GLU123 2.4 54.3 1.0 OE2 A:GLU154 3.0 46.3 1.0 CD A:GLU154 3.0 39.0 1.0 CD D:GLU123 3.4 45.7 1.0 OE1 A:GLU123 4.1 24.3 1.0 OE2 D:GLU123 4.1 49.2 1.0 CG D:GLU123 4.3 41.9 1.0 OE2 A:GLU123 4.3 25.8 1.0 CG2 D:THR156 4.4 33.8 1.0 CD A:GLU123 4.4 23.8 1.0 CA D:CA1001 4.4 49.9 1.0 CG A:GLU154 4.5 32.1 1.0 OE2 D:GLU154 4.5 47.4 1.0

Calcium binding site 2 out of 7 in the Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1006 b:56.8 occ:1.00 OD2 A:ASP149 2.8 41.4 1.0 OD1 A:ASP149 3.1 42.2 1.0 CG A:ASP149 3.3 40.8 1.0 CB A:ASP149 4.6 40.1 1.0

Calcium binding site 3 out of 7 in the Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1007 b:69.7 occ:1.00 O A:GLU121 2.5 17.0 1.0 C A:GLU121 3.5 16.3 1.0 CA A:ILE122 3.5 17.5 1.0 N A:GLU123 3.9 18.7 1.0 N A:ILE122 4.0 17.0 1.0 C A:ILE122 4.3 18.0 1.0 CH2 A:TRP113 4.3 15.5 1.0 CZ2 A:TRP113 4.4 16.6 1.0 CB A:ILE122 4.6 18.0 1.0 CG2 A:ILE122 4.7 17.9 1.0 CA A:GLU121 4.8 16.0 1.0 CG1 A:ILE122 4.8 18.7 1.0 O A:HOH1041 5.0 52.6 1.0

Calcium binding site 4 out of 7 in the Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1004 b:49.9 occ:1.00 O C:HOH1008 2.3 39.5 1.0 OE2 C:GLU154 2.3 45.5 1.0 OE2 B:GLU123 2.4 49.0 1.0 OE2 B:GLU154 2.4 47.8 1.0 O C:HOH1007 2.5 47.5 1.0 OE1 B:GLU154 2.8 42.1 1.0 CD B:GLU154 2.8 41.5 1.0 CD C:GLU154 3.0 36.9 1.0 CD B:GLU123 3.3 45.1 1.0 OE1 B:GLU123 3.6 51.8 1.0 CG C:GLU154 3.6 29.7 1.0 OE1 C:GLU154 3.8 48.9 1.0 O C:HOH1023 4.0 45.5 1.0 CG B:GLU154 4.2 39.7 1.0 OE2 C:GLU123 4.4 35.0 1.0 OE1 C:GLU184 4.4 14.2 1.0 CA C:CA1003 4.5 55.3 1.0 CG B:GLU123 4.7 41.8 1.0 CD C:GLU123 4.8 32.6 1.0 OG1 C:THR156 4.8 13.9 1.0 OE1 C:GLU123 5.0 47.8 1.0 CB C:GLU154 5.0 24.4 1.0

Calcium binding site 5 out of 7 in the Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1003 b:55.3 occ:1.00 O C:HOH1023 2.2 45.5 1.0 OE1 C:GLU154 2.3 48.9 1.0 OE1 B:GLU123 2.4 51.8 1.0 OE1 C:GLU123 2.4 47.8 1.0 O B:HOH1013 2.8 60.8 1.0 OE2 C:GLU154 3.0 45.5 1.0 CD C:GLU154 3.0 36.9 1.0 CD C:GLU123 3.4 32.6 1.0 CD B:GLU123 3.5 45.1 1.0 OE2 C:GLU123 3.7 35.0 1.0 OE2 B:GLU123 4.2 49.0 1.0 CA B:CA1004 4.5 49.9 1.0 CG C:GLU154 4.5 29.7 1.0 CG B:GLU123 4.5 41.8 1.0 CG C:GLU123 4.7 26.1 1.0 O C:HOH1008 4.9 39.5 1.0

Calcium binding site 6 out of 7 in the Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1005 b:58.8 occ:1.00 OD2 C:ASP149 2.9 41.3 1.0 OD1 C:ASP149 3.2 41.8 1.0 CG C:ASP149 3.4 40.1 1.0 CB C:ASP149 4.7 38.7 1.0

Calcium binding site 7 out of 7 in the Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Cystal Structure Analysis of S.Typhimurium Phoq Sensor Domain with Calcium within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca1001 b:49.9 occ:1.00 OE2 A:GLU154 2.3 46.3 1.0 OE2 D:GLU154 2.3 47.4 1.0 O A:HOH1053 2.3 52.8 1.0 OE2 D:GLU123 2.3 49.2 1.0 O A:HOH1009 2.5 45.0 1.0 CD D:GLU154 2.9 40.6 1.0 OE1 D:GLU154 2.9 40.1 1.0 CD A:GLU154 3.1 39.0 1.0 CD D:GLU123 3.3 45.7 1.0 OE1 D:GLU123 3.5 54.3 1.0 CG A:GLU154 3.7 32.1 1.0 OE1 A:GLU154 3.9 52.5 1.0 OE2 A:GLU123 4.1 25.8 1.0 CG D:GLU154 4.2 38.7 1.0 OE1 A:GLU184 4.4 15.3 1.0 CA A:CA1002 4.4 59.2 1.0 O A:HOH1048 4.6 51.9 1.0 CG D:GLU123 4.7 41.9 1.0 OG1 A:THR156 4.7 14.4 1.0 CD A:GLU123 4.9 23.8 1.0

U.S.Cho, M.W.Bader, M.F.Amaya, M.E.Daley, R.E.Klevit, S.I.Miller, W.Xu. Metal Bridges Between the Phoq Sensor Domain and the Membrane Regulate Transmembrane Signaling. J.Mol.Biol. V. 356 1193 2006.
ISSN: ISSN 0022-2836
PubMed: 16406409
DOI: 10.1016/J.JMB.2005.12.032