Magnesium in PDB 1d5c: Crystal Structure of Plasmodium Falciparum RAB6 Complexed with Gdp

The structure of Crystal Structure of Plasmodium Falciparum RAB6 Complexed with Gdp, PDB code: 1d5c was solved by D.Chattopadhyay, G.Langsley, M.Carson, R.Recacha, L.Delucas, C.Smith, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	9.94 / 2.30
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	81.200, 81.200, 90.840, 90.00, 90.00, 90.00
R / Rfree (%)	21.4 / 24.6

The binding sites of Magnesium atom in the Crystal Structure of Plasmodium Falciparum RAB6 Complexed with Gdp (pdb code 1d5c). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of Plasmodium Falciparum RAB6 Complexed with Gdp, PDB code: 1d5c:

Magnesium binding site 1 out of 1 in the Crystal Structure of Plasmodium Falciparum RAB6 Complexed with Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Plasmodium Falciparum RAB6 Complexed with Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg300 b:33.4 occ:1.00 O A:HOH351 2.0 30.3 1.0 O A:HOH350 2.0 33.2 1.0 O3B A:GDP201 2.1 23.3 1.0 O A:HOH353 2.1 35.3 1.0 O A:HOH352 2.1 29.3 1.0 OG1 A:THR25 2.2 28.7 1.0 PB A:GDP201 3.2 27.0 1.0 O1B A:GDP201 3.4 25.4 1.0 CB A:THR25 3.4 28.4 1.0 N A:THR25 4.1 26.2 1.0 O A:THR43 4.1 51.3 1.0 O A:HOH354 4.1 36.2 1.0 OD2 A:ASP66 4.2 36.3 1.0 O1A A:GDP201 4.2 28.6 1.0 O2B A:GDP201 4.2 25.4 1.0 OD1 A:ASP66 4.2 35.1 1.0 O3A A:GDP201 4.3 25.6 1.0 CA A:THR25 4.3 26.7 1.0 O A:HOH302 4.3 30.1 1.0 CG2 A:THR25 4.4 25.1 1.0 O A:HOH355 4.5 50.9 1.0 O A:THR67 4.5 31.9 1.0 CG A:ASP66 4.6 34.6 1.0 PA A:GDP201 4.7 26.7 1.0 OG1 A:THR43 4.8 56.2 1.0 O2A A:GDP201 4.8 26.3 1.0 O A:HOH332 4.8 35.9 1.0 O A:GLY45 4.8 38.0 1.0 OH A:TYR40 4.8 53.3 0.0 CE A:LYS24 4.9 24.6 1.0 NZ A:LYS24 5.0 24.4 1.0 CB A:LYS24 5.0 23.7 1.0

D.Chattopadhyay, G.Langsley, M.Carson, R.Recacha, L.Delucas, C.Smith. Structure of the Nucleotide-Binding Domain of Plasmodium Falciparum RAB6 in the Gdp-Bound Form. Acta Crystallogr.,Sect.D V. 56 937 2000.
ISSN: ISSN 0907-4449
PubMed: 10944329
DOI: 10.1107/S0907444900007575