Calcium in PDB 2ygg: Complex of Cambr and Cam

The structure of Complex of Cambr and Cam, PDB code: 2ygg was solved by S.Koester, O.Yildiz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.668 / 2.23
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	200.700, 38.350, 34.100, 90.00, 91.35, 90.00
R / Rfree (%)	17.34 / 23.17

The binding sites of Calcium atom in the Complex of Cambr and Cam (pdb code 2ygg). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Complex of Cambr and Cam, PDB code: 2ygg:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Complex of Cambr and Cam


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Complex of Cambr and Cam within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1151 b:13.2 occ:1.00 OD1 B:ASP94 2.2 10.5 1.0 O B:TYR100 2.4 21.8 1.0 O B:HOH2025 2.4 17.1 1.0 OD1 B:ASN98 2.5 14.5 1.0 OE1 B:GLU105 2.6 14.9 1.0 OD1 B:ASP96 2.6 37.8 1.0 OE2 B:GLU105 2.7 15.5 1.0 CD B:GLU105 3.0 17.8 1.0 CG B:ASP96 3.2 29.9 1.0 OD2 B:ASP96 3.4 34.0 1.0 CG B:ASP94 3.4 16.6 1.0 CG B:ASN98 3.4 17.8 1.0 C B:TYR100 3.5 15.6 1.0 ND2 B:ASN98 4.1 15.9 1.0 N B:ASN98 4.2 15.4 1.0 OD2 B:ASP94 4.3 15.9 1.0 CA B:ASP94 4.3 15.8 1.0 N B:TYR100 4.3 13.2 1.0 CB B:ASP94 4.3 8.9 1.0 O B:HOH2028 4.3 21.9 1.0 N B:ASP96 4.4 20.3 1.0 CA B:TYR100 4.4 11.5 1.0 N B:ILE101 4.5 15.7 1.0 CA B:ILE101 4.5 9.0 1.0 CB B:ASN98 4.5 14.5 1.0 CG B:GLU105 4.5 15.8 1.0 C B:ASP94 4.5 19.0 1.0 CB B:ASP96 4.5 23.7 1.0 O B:HOH2024 4.6 25.2 1.0 N B:SER102 4.6 9.0 1.0 N B:GLY97 4.6 19.0 1.0 N B:LYS95 4.7 19.6 1.0 CA B:ASN98 4.7 16.4 1.0 CB B:TYR100 4.8 8.1 1.0 CA B:ASP96 4.8 22.6 1.0 N B:GLY99 4.9 19.4 1.0 C B:ASP96 4.9 22.1 1.0 C B:ILE101 5.0 11.8 1.0

Calcium binding site 2 out of 4 in the Complex of Cambr and Cam


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Complex of Cambr and Cam within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1152 b:56.6 occ:1.00 O B:THR63 2.4 51.9 1.0 OD1 B:ASN61 2.6 44.7 1.0 OD1 B:ASP57 2.6 56.9 1.0 OD1 B:ASP59 2.7 59.4 1.0 OE2 B:GLU68 2.8 45.8 1.0 OE1 B:GLU68 2.8 42.5 1.0 O B:HOH2008 2.9 47.8 1.0 O B:HOH2007 3.0 80.2 1.0 CD B:GLU68 3.2 43.7 1.0 CG B:ASN61 3.2 54.3 1.0 CG B:ASP59 3.3 60.0 1.0 OD2 B:ASP59 3.3 63.1 1.0 ND2 B:ASN61 3.4 53.6 1.0 C B:THR63 3.5 54.0 1.0 CG B:ASP57 3.8 57.2 1.0 N B:ASP65 4.2 50.7 1.0 N B:THR63 4.3 60.3 1.0 CA B:ILE64 4.3 49.6 1.0 N B:ASN61 4.3 51.7 1.0 N B:ILE64 4.4 50.1 1.0 CB B:ASN61 4.5 55.8 1.0 CA B:THR63 4.5 56.9 1.0 OG1 B:THR63 4.5 62.4 1.0 OD2 B:ASP57 4.5 57.9 1.0 N B:ASP59 4.6 44.9 1.0 CG B:GLU68 4.6 40.3 1.0 CB B:ASP59 4.6 54.3 1.0 N B:GLY60 4.7 53.5 1.0 CG B:ASP65 4.7 71.2 1.0 C B:ILE64 4.7 51.0 1.0 CA B:ASP57 4.8 51.4 1.0 CA B:ASN61 4.8 55.2 1.0 CB B:ASP57 4.8 53.4 1.0 OD2 B:ASP65 4.9 74.6 1.0 OD1 B:ASP65 4.9 74.6 1.0 C B:ASP57 4.9 49.3 1.0 N B:GLY62 4.9 58.1 1.0 C B:ASN61 5.0 55.2 1.0 CA B:ASP59 5.0 49.4 1.0

Calcium binding site 3 out of 4 in the Complex of Cambr and Cam


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Complex of Cambr and Cam within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1153 b:75.8 occ:1.00 OE1 B:GLU32 2.6 68.6 1.0 OD1 B:ASP21 2.6 63.1 1.0 O B:THR27 2.7 60.7 1.0 OE2 B:GLU32 2.7 68.4 1.0 OD1 B:ASP25 2.8 80.7 1.0 O B:HOH2002 2.8 68.3 1.0 OD1 B:ASP23 2.9 87.1 1.0 CD B:GLU32 3.0 68.7 1.0 OD2 B:ASP23 3.1 85.2 1.0 OD2 B:ASP25 3.1 83.7 1.0 CG B:ASP25 3.2 82.3 1.0 CG B:ASP23 3.3 87.1 1.0 C B:THR27 3.8 55.5 1.0 CG B:ASP21 3.9 64.3 1.0 OG1 B:THR29 4.1 65.3 1.0 CA B:ILE28 4.3 53.5 1.0 OG1 B:THR27 4.4 58.8 1.0 CB B:ASP25 4.4 81.0 1.0 CG B:GLU32 4.4 68.8 1.0 N B:THR29 4.5 62.7 1.0 N B:ILE28 4.5 48.8 1.0 CA B:ASP21 4.6 70.7 1.0 N B:THR27 4.6 53.8 1.0 CB B:ASP21 4.6 66.8 1.0 CB B:ASP23 4.7 87.2 1.0 N B:ASP25 4.7 75.4 1.0 CA B:THR27 4.7 54.6 1.0 OD2 B:ASP21 4.7 63.7 1.0 C B:ILE28 4.9 55.8 1.0 N B:ASP23 5.0 82.7 1.0 CB B:THR29 5.0 68.3 1.0

Calcium binding site 4 out of 4 in the Complex of Cambr and Cam


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Complex of Cambr and Cam within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1154 b:15.1 occ:1.00 OD1 B:ASP130 2.3 8.5 1.0 O B:HOH2053 2.4 19.2 1.0 O B:GLN136 2.4 9.8 1.0 OE1 B:GLU141 2.5 17.2 1.0 OD1 B:ASP132 2.5 14.7 1.0 OD1 B:ASP134 2.6 15.9 1.0 OE2 B:GLU141 2.7 19.2 1.0 CD B:GLU141 2.9 15.5 1.0 CG B:ASP134 3.4 17.8 1.0 CG B:ASP130 3.5 15.1 1.0 CG B:ASP132 3.5 24.8 1.0 C B:GLN136 3.6 14.6 1.0 OD2 B:ASP132 3.8 26.3 1.0 OD2 B:ASP134 3.9 16.4 1.0 N B:ASP134 4.0 26.6 1.0 N B:GLN136 4.1 10.9 1.0 OD2 B:ASP130 4.2 13.8 1.0 CA B:ASP130 4.3 20.2 1.0 N B:ILE131 4.3 20.4 1.0 N B:ASP132 4.4 23.6 1.0 N B:ASN138 4.4 8.1 1.0 CB B:ASP130 4.4 15.3 1.0 CA B:VAL137 4.4 7.1 1.0 N B:VAL137 4.4 14.5 1.0 CG B:GLU141 4.4 11.4 1.0 CA B:GLN136 4.5 13.0 1.0 CB B:ASP134 4.5 24.6 1.0 N B:GLY135 4.6 19.3 1.0 N B:GLY133 4.6 20.9 1.0 CA B:ASP134 4.6 25.9 1.0 C B:ASP130 4.7 23.0 1.0 CB B:ASP132 4.8 13.9 1.0 C B:ASP134 4.8 21.9 1.0 CG B:ASN138 4.9 15.3 1.0 CA B:ASP132 4.9 22.3 1.0 C B:VAL137 4.9 9.9 1.0 ND2 B:ASN138 4.9 10.9 1.0 C B:ASP132 5.0 22.3 1.0

S.Koester, T.Pavkov-Keller, W.Kuehlbrandt, O.Yildiz. Structure of Human Na+/H+ Exchanger NHE1 Regulatory Region in Complex with Cam and CA2+ J.Biol.Chem. V. 286 40954 2011.
ISSN: ISSN 0021-9258
PubMed: 21931166
DOI: 10.1074/JBC.M111.286906