Calcium in PDB 3b7y: Crystal Structure of the C2 Domain of the E3 Ubiquitin- Protein Ligase NEDD4

The structure of Crystal Structure of the C2 Domain of the E3 Ubiquitin- Protein Ligase NEDD4, PDB code: 3b7y was solved by J.R.Walker, M.Ruzanov, C.Butler-Cole, J.Weigelt, C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Paganon, Structural Genomicsconsortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.23 / 1.80
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	38.778, 47.997, 50.786, 108.89, 111.11, 100.86
R / Rfree (%)	16.9 / 20.9

The binding sites of Calcium atom in the Crystal Structure of the C2 Domain of the E3 Ubiquitin- Protein Ligase NEDD4 (pdb code 3b7y). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of the C2 Domain of the E3 Ubiquitin- Protein Ligase NEDD4, PDB code: 3b7y:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of the C2 Domain of the E3 Ubiquitin- Protein Ligase NEDD4


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 the C2 Domain of the E3 Ubiquitin- Protein Ligase NEDD4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:87.0 occ:1.00 O A:ASN195 2.3 74.8 1.0 O A:THR198 2.3 79.6 1.0 OD1 A:ASP200 2.4 62.3 1.0 CG A:ASP200 3.4 61.1 1.0 C A:ASN195 3.4 76.2 1.0 C A:THR198 3.5 83.7 1.0 N A:ASP200 3.7 66.0 1.0 N A:ASN195 3.8 67.7 1.0 C A:ARG199 3.9 71.6 1.0 OD2 A:ASP200 3.9 60.9 1.0 CA A:ASN195 4.0 73.9 1.0 CB A:ASN195 4.2 76.0 1.0 CA A:ARG199 4.2 75.7 1.0 N A:ARG199 4.3 81.2 1.0 CA A:ASP200 4.3 63.2 1.0 N A:THR198 4.3 92.5 1.0 CB A:ASP200 4.4 58.2 1.0 O A:ARG199 4.5 71.5 1.0 N A:ARG196 4.5 88.9 1.0 CA A:THR198 4.6 90.5 1.0 C A:ARG196 4.8 95.4 1.0 O A:ARG196 4.9 97.2 1.0 CA A:ARG196 4.9 92.5 1.0 C A:GLU194 5.0 64.2 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of the C2 Domain of the E3 Ubiquitin- Protein Ligase NEDD4


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 the C2 Domain of the E3 Ubiquitin- Protein Ligase NEDD4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:95.4 occ:1.00 O A:GLU194 2.4 65.0 1.0 OD2 A:ASP141 2.6 71.6 1.0 OD1 A:ASN195 2.8 75.4 1.0 OD1 A:ASP193 3.3 67.0 1.0 C A:GLU194 3.4 64.2 1.0 OD2 A:ASP193 3.6 66.0 1.0 CG A:ASP141 3.7 67.6 1.0 CG A:ASP193 3.7 65.1 1.0 CG A:ASN195 3.8 76.2 1.0 CA A:ASN195 3.9 73.9 1.0 N A:ASN195 4.0 67.7 1.0 CB A:ASP141 4.1 61.8 1.0 N A:ASP141 4.3 62.4 1.0 N A:GLU194 4.4 55.8 1.0 CB A:ASN195 4.4 76.0 1.0 CA A:GLU194 4.5 59.5 1.0 C A:ASP193 4.6 55.7 1.0 OD1 A:ASP141 4.7 65.7 1.0 CA A:ASP141 4.8 59.3 1.0 O A:ASP193 4.8 55.5 1.0 ND2 A:ASN195 4.8 74.8 1.0 CA A:SER140 4.9 71.6 1.0 N A:SER140 5.0 76.7 1.0 CB A:ASP193 5.0 56.3 1.0

J.R.Walker, M.Ruzanov, C.Butler-Cole, J.Weigelt, C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Paganon. C2 Domain of the Human E3 Ubiquitin-Protein Ligase NEDD4. To Be Published.