Calcium in PDB 4x3n: Crystal Structure of 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum

The structure of Crystal Structure of 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum, PDB code: 4x3n was solved by M.-K.Kim, J.-H.Kim, J.-S.Kim, S.-O.Kang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	72.19 / 1.89
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	78.161, 85.244, 135.744, 90.00, 90.00, 90.00
R / Rfree (%)	20.4 / 25.2

The binding sites of Calcium atom in the Crystal Structure of 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum (pdb code 4x3n). 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 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum, PDB code: 4x3n:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structure of 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum


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 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:25.7 occ:1.00 O A:ARG150 2.3 22.8 1.0 OD1 A:ASP144 2.3 22.4 1.0 O A:HOH426 2.4 19.8 1.0 OD1 A:ASN146 2.4 20.4 1.0 OD1 A:ASP148 2.5 19.4 1.0 OE2 A:GLU155 2.5 21.1 1.0 OE1 A:GLU155 2.7 22.3 1.0 CD A:GLU155 2.9 21.3 1.0 CG A:ASP148 3.3 21.7 1.0 C A:ARG150 3.4 21.7 1.0 CG A:ASP144 3.4 21.3 1.0 CG A:ASN146 3.5 22.0 1.0 OD2 A:ASP148 3.6 23.2 1.0 ND2 A:ASN146 3.8 26.1 1.0 N A:ARG150 4.1 22.1 1.0 CA A:ARG150 4.1 21.6 1.0 CA A:ASP144 4.2 22.6 1.0 CB A:ASP144 4.2 21.6 1.0 OD2 A:ASP144 4.3 19.9 1.0 CB A:ARG150 4.3 21.6 1.0 N A:ASP148 4.4 21.8 1.0 N A:VAL151 4.4 20.0 1.0 N A:ASN146 4.4 22.2 1.0 CG A:GLU155 4.4 20.1 1.0 C A:ASP144 4.5 22.5 1.0 CB A:ASP148 4.5 22.2 1.0 CA A:VAL151 4.6 23.9 1.0 N A:VAL145 4.6 21.7 1.0 CB A:ASN146 4.7 22.1 1.0 N A:PHE147 4.8 20.5 1.0 CA A:ASP148 4.8 22.7 1.0 N A:SER152 4.9 20.1 1.0 CA A:ASN146 4.9 22.4 1.0

Calcium binding site 2 out of 3 in the Crystal Structure of 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum


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 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca301 b:30.1 occ:1.00 OD1 B:ASN146 2.4 22.6 1.0 O B:ARG150 2.4 18.9 1.0 OD1 B:ASP144 2.4 23.0 1.0 OD1 B:ASP148 2.4 22.0 1.0 OE2 B:GLU155 2.5 21.8 1.0 O B:HOH500 2.5 23.7 1.0 OE1 B:GLU155 2.8 20.0 1.0 CD B:GLU155 3.0 22.6 1.0 CG B:ASP148 3.3 22.3 1.0 CG B:ASN146 3.4 27.3 1.0 C B:ARG150 3.5 19.8 1.0 CG B:ASP144 3.5 21.7 1.0 OD2 B:ASP148 3.6 24.8 1.0 ND2 B:ASN146 3.9 26.8 1.0 N B:ARG150 4.1 20.5 1.0 CA B:ASP144 4.2 21.3 1.0 CA B:ARG150 4.2 21.7 1.0 N B:ASP148 4.3 23.5 1.0 OD2 B:ASP144 4.3 22.5 1.0 CB B:ASP144 4.3 19.3 1.0 N B:ASN146 4.3 23.7 1.0 CB B:ARG150 4.3 19.7 1.0 CG B:GLU155 4.5 22.8 1.0 C B:ASP144 4.5 23.4 1.0 N B:VAL151 4.5 19.3 1.0 CB B:ASP148 4.5 23.3 1.0 N B:VAL145 4.5 27.2 1.0 CA B:VAL151 4.6 20.1 1.0 CB B:ASN146 4.7 25.2 1.0 CA B:ASP148 4.8 22.2 1.0 N B:PHE147 4.8 22.0 1.0 N B:GLY149 4.9 20.5 1.0 CA B:ASN146 4.9 23.1 1.0 C B:ASN146 4.9 23.4 1.0 N B:SER152 4.9 24.4 1.0

Calcium binding site 3 out of 3 in the Crystal Structure of 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum


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 34 kDa F-Actin Bundling Protein From Dictyostelium Discoideum within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca301 b:30.4 occ:1.00 O C:ARG150 2.3 25.4 1.0 OD1 C:ASP144 2.3 27.1 1.0 OD1 C:ASN146 2.4 26.7 1.0 O C:HOH432 2.4 26.8 1.0 OD1 C:ASP148 2.4 17.7 1.0 OE2 C:GLU155 2.5 29.6 1.0 OE1 C:GLU155 2.7 23.4 1.0 CD C:GLU155 3.0 27.6 1.0 CG C:ASP148 3.3 26.9 1.0 C C:ARG150 3.4 27.3 1.0 CG C:ASN146 3.5 29.1 1.0 CG C:ASP144 3.5 24.8 1.0 OD2 C:ASP148 3.6 21.1 1.0 ND2 C:ASN146 3.9 28.3 1.0 CA C:ASP144 4.2 28.6 1.0 N C:ARG150 4.2 24.7 1.0 CA C:ARG150 4.2 26.5 1.0 CB C:ARG150 4.3 26.8 1.0 CB C:ASP144 4.3 25.0 1.0 N C:ASP148 4.3 26.0 1.0 N C:VAL151 4.4 26.1 1.0 OD2 C:ASP144 4.4 22.6 1.0 CG C:GLU155 4.5 28.0 1.0 N C:ASN146 4.5 30.5 1.0 CB C:ASP148 4.5 26.2 1.0 C C:ASP144 4.6 30.3 1.0 CA C:VAL151 4.6 24.8 1.0 N C:VAL145 4.6 35.5 1.0 CB C:ASN146 4.8 31.8 1.0 CA C:ASP148 4.8 26.6 1.0 N C:SER152 4.9 23.0 1.0 N C:PHE147 4.9 26.9 1.0 CA C:ASN146 4.9 30.5 1.0 N C:GLY149 5.0 22.8 1.0 C C:ASN146 5.0 27.9 1.0

M.K.Kim, J.H.Kim, J.S.Kim, S.O.Kang. Structure of the 34 kDa F-Actin-Bundling Protein ABP34 From Dictyostelium Discoideum. Acta Crystallogr.,Sect.D V. 71 1835 2015.
ISSN: ESSN 1399-0047
PubMed: 26327373
DOI: 10.1107/S139900471501264X