Calcium in PDB 9cd2: Structure of E. Coli ZDHYS365 Multi-Ubiquitin Domain Protein

The structure of Structure of E. Coli ZDHYS365 Multi-Ubiquitin Domain Protein, PDB code: 9cd2 was solved by Q.Ye, M.Gong, K.D.Corbett, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.46 / 1.87
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	117.538, 117.538, 104.444, 90, 90, 120
R / Rfree (%)	18.2 / 21.3

The binding sites of Calcium atom in the Structure of E. Coli ZDHYS365 Multi-Ubiquitin Domain Protein (pdb code 9cd2). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Structure of E. Coli ZDHYS365 Multi-Ubiquitin Domain Protein, PDB code: 9cd2:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Structure of E. Coli ZDHYS365 Multi-Ubiquitin Domain Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of E. Coli ZDHYS365 Multi-Ubiquitin Domain Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:26.9 occ:1.00 O A:ASN134 2.3 27.9 1.0 O A:GLN132 2.3 32.2 1.0 OD2 B:ASP73 2.4 30.7 1.0 O A:HOH461 2.4 25.6 1.0 O A:LEU130 2.4 28.2 1.0 OE1 A:GLU136 2.5 26.4 1.0 OE2 A:GLU136 2.5 26.2 1.0 CD A:GLU136 2.8 29.8 1.0 HB2 B:ASP73 3.3 35.3 1.0 C A:LEU130 3.4 26.1 1.0 CG B:ASP73 3.4 31.1 1.0 C A:GLN132 3.5 30.7 1.0 C A:ASN134 3.5 31.5 1.0 HA A:LEU130 3.6 31.5 1.0 HA A:VAL135 3.7 36.5 1.0 H A:GLU136 3.8 30.7 1.0 HH21 B:ARG74 3.8 37.2 1.0 CB B:ASP73 3.8 29.4 1.0 CA A:LEU130 4.0 26.2 1.0 N A:ASN134 4.0 33.5 1.0 HB3 A:LEU130 4.0 29.5 1.0 H A:ASN134 4.1 40.2 1.0 N A:GLN132 4.1 29.5 1.0 H A:GLN132 4.2 35.4 1.0 HB3 B:ASP73 4.2 35.3 1.0 HB2 A:GLN132 4.2 48.1 1.0 C A:PRO133 4.2 35.5 1.0 O A:HOH416 4.3 39.8 1.0 CG A:GLU136 4.3 28.1 1.0 CA A:GLN132 4.4 30.9 1.0 N A:GLU136 4.4 25.6 1.0 NH2 B:ARG74 4.4 31.1 1.0 N A:VAL135 4.4 31.0 1.0 HD2 A:TYR76 4.4 37.2 1.0 N A:PRO133 4.4 36.3 1.0 CA A:ASN134 4.4 34.2 1.0 C A:THR131 4.4 28.6 1.0 CA A:VAL135 4.4 30.4 1.0 HA A:THR131 4.5 36.9 1.0 N A:THR131 4.5 28.9 1.0 HA A:PRO133 4.5 46.5 1.0 OD1 B:ASP73 4.5 29.5 1.0 HB3 A:TYR76 4.6 32.1 1.0 O A:ARG77 4.6 25.5 1.0 CB A:LEU130 4.6 24.6 1.0 CA A:PRO133 4.6 38.8 1.0 HH22 B:ARG74 4.6 37.2 1.0 HG3 A:GLU136 4.7 33.7 1.0 CA A:THR131 4.7 30.7 1.0 O B:ASP73 4.7 29.2 1.0 HG2 A:GLU136 4.8 33.7 1.0 O A:PRO133 4.8 48.8 1.0 CB A:GLN132 4.8 40.0 1.0 HE B:ARG74 4.8 35.8 1.0 HD22 A:LEU130 4.8 32.0 1.0 C A:VAL135 4.8 31.0 1.0 HA A:ASN134 4.9 41.0 1.0 HB2 A:GLU136 4.9 30.8 1.0 O A:THR131 5.0 32.4 1.0

Calcium binding site 2 out of 2 in the Structure of E. Coli ZDHYS365 Multi-Ubiquitin Domain Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of E. Coli ZDHYS365 Multi-Ubiquitin Domain Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca302 b:28.5 occ:1.00 O A:HOH508 2.1 25.4 1.0 O B:ASN134 2.3 31.4 1.0 O B:LEU130 2.4 29.8 1.0 OD2 A:ASP73 2.4 31.9 1.0 O B:GLN132 2.4 32.5 1.0 OE1 B:GLU136 2.4 29.3 1.0 OE2 B:GLU136 2.5 30.5 1.0 CD B:GLU136 2.8 29.7 1.0 HB2 A:ASP73 3.3 37.0 1.0 C B:LEU130 3.4 29.5 1.0 C B:ASN134 3.4 32.2 1.0 CG A:ASP73 3.5 32.2 1.0 C B:GLN132 3.6 34.0 1.0 HA B:LEU130 3.7 34.5 1.0 HA B:VAL135 3.7 38.7 1.0 H B:GLU136 3.7 36.0 1.0 HH21 A:ARG74 3.8 38.4 1.0 CB A:ASP73 3.9 30.9 1.0 HB3 B:LEU130 4.0 33.7 1.0 CA B:LEU130 4.1 28.8 1.0 N B:ASN134 4.1 33.8 1.0 N B:GLN132 4.1 32.4 1.0 HB2 B:GLN132 4.2 45.3 1.0 H B:GLN132 4.2 38.9 1.0 HB3 A:ASP73 4.2 37.0 1.0 H B:ASN134 4.2 40.5 1.0 C B:PRO133 4.3 51.2 1.0 O B:HOH428 4.3 35.8 1.0 N B:VAL135 4.3 34.7 1.0 CG B:GLU136 4.4 29.8 1.0 CA B:GLN132 4.4 34.0 1.0 N B:GLU136 4.4 30.0 1.0 NH2 A:ARG74 4.4 32.1 1.0 CA B:ASN134 4.4 36.6 1.0 C B:THR131 4.4 33.1 1.0 HA B:THR131 4.4 39.2 1.0 N B:THR131 4.4 30.1 1.0 CA B:VAL135 4.4 32.3 1.0 HD2 B:TYR76 4.5 34.5 1.0 N B:PRO133 4.5 38.8 1.0 OD1 A:ASP73 4.6 31.0 1.0 O B:ARG77 4.6 28.6 1.0 CB B:LEU130 4.6 28.1 1.0 HH22 A:ARG74 4.6 38.4 1.0 HB3 B:TYR76 4.6 34.6 1.0 O B:HOH401 4.6 44.6 1.0 CA B:THR131 4.6 32.7 1.0 O A:ASP73 4.7 30.1 1.0 HG3 B:GLU136 4.7 35.8 1.0 O B:PRO133 4.7 54.7 1.0 HA B:PRO133 4.7 60.4 1.0 CA B:PRO133 4.7 50.3 1.0 CB B:GLN132 4.8 37.8 1.0 HG2 B:GLU136 4.8 35.8 1.0 HA B:ASN134 4.8 43.9 1.0 HE A:ARG74 4.8 36.9 1.0 C B:VAL135 4.8 30.9 1.0 HD22 B:LEU130 4.9 33.0 1.0 O B:THR131 5.0 32.7 1.0 HB2 B:GLU136 5.0 37.4 1.0 O B:ASP129 5.0 29.9 1.0

M.Gong, Q.Ye, K.D.Corbett. Structure of E. Coli ZDHYS365 Multi-Ubiquitin Domain Protein To Be Published.