Calcium in PDB 4g01: ARA7-Gdp-CA2+/VPS9A

The structure of ARA7-Gdp-CA2+/VPS9A, PDB code: 4g01 was solved by K.Ihara, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	55.73 / 2.20
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	68.349, 76.139, 81.787, 90.00, 90.00, 90.00
R / Rfree (%)	19.8 / 27.3

The binding sites of Calcium atom in the ARA7-Gdp-CA2+/VPS9A (pdb code 4g01). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the ARA7-Gdp-CA2+/VPS9A, PDB code: 4g01:

Calcium binding site 1 out of 1 in the ARA7-Gdp-CA2+/VPS9A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of ARA7-Gdp-CA2+/VPS9A within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca300 b:24.6 occ:1.00 O2B B:GDP200 2.2 21.2 1.0 O A:PRO182 2.3 25.5 1.0 OG B:SER24 2.4 22.6 1.0 O A:HOH410 2.4 17.9 1.0 O A:HOH404 2.4 18.5 1.0 OD2 A:ASP185 2.5 27.7 1.0 O A:HOH485 2.5 25.5 1.0 CB B:SER24 3.4 22.1 1.0 C A:PRO182 3.4 25.9 1.0 PB B:GDP200 3.5 24.5 1.0 CG A:ASP185 3.6 24.1 1.0 O3B B:GDP200 3.7 23.4 1.0 CB A:ASP185 4.1 24.3 1.0 CA A:PRO182 4.2 28.3 1.0 N B:SER24 4.2 22.4 1.0 O2A B:GDP200 4.3 23.2 1.0 OD2 B:ASP65 4.3 21.7 1.0 N A:GLY183 4.3 24.3 1.0 O B:HOH322 4.3 21.5 1.0 CA B:SER24 4.4 22.3 1.0 N A:ASP185 4.5 23.4 1.0 O3A B:GDP200 4.5 22.1 1.0 CA A:GLY183 4.5 23.2 1.0 O A:ALA181 4.6 32.2 1.0 O1B B:GDP200 4.6 24.0 1.0 OD1 A:ASP185 4.6 26.0 1.0 OD1 B:ASP65 4.7 18.8 1.0 PA B:GDP200 4.7 24.0 1.0 N A:ALA184 4.8 22.5 1.0 O1A B:GDP200 4.8 23.5 1.0 C A:GLY183 4.9 22.9 1.0 CG B:ASP65 4.9 21.6 1.0 CA A:ASP185 5.0 24.3 1.0

T.Uejima, K.Ihara, M.Sunada, M.Kawasaki, T.Ueda, R.Kato, A.Nakano, S.Wakatsuki. Direct Metal Recognition By Guanine Nucleotide-Exchange Factor in the Initial Step of the Exchange Reaction Acta Crystallogr.,Sect.D V. 69 345 2013.
ISSN: ISSN 0907-4449
PubMed: 23519409
DOI: 10.1107/S0907444912047294