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Magnesium in PDB 2g77: Crystal Structure of GYP1 Tbc Domain in Complex with RAB33 Gtpase Bound to Gdp and ALF3

Protein crystallography data

The structure of Crystal Structure of GYP1 Tbc Domain in Complex with RAB33 Gtpase Bound to Gdp and ALF3, PDB code: 2g77 was solved by X.Pan, S.Eathiraj, M.Munson, D.G.Lambright, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 2.26
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 72.200, 94.526, 102.561, 90.00, 90.00, 90.00
R / Rfree (%) 20.5 / 24.4

Other elements in 2g77:

The structure of Crystal Structure of GYP1 Tbc Domain in Complex with RAB33 Gtpase Bound to Gdp and ALF3 also contains other interesting chemical elements:

Fluorine (F) 3 atoms
Aluminium (Al) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of GYP1 Tbc Domain in Complex with RAB33 Gtpase Bound to Gdp and ALF3 (pdb code 2g77). 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 GYP1 Tbc Domain in Complex with RAB33 Gtpase Bound to Gdp and ALF3, PDB code: 2g77:

Magnesium binding site 1 out of 1 in 2g77

Go back to Magnesium Binding Sites List in 2g77
Magnesium binding site 1 out of 1 in the Crystal Structure of GYP1 Tbc Domain in Complex with RAB33 Gtpase Bound to Gdp and ALF3


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 GYP1 Tbc Domain in Complex with RAB33 Gtpase Bound to Gdp and ALF3 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg503

b:13.3
occ:1.00
O B:HOH504 2.0 26.0 1.0
OG1 B:THR65 2.0 24.6 1.0
OG1 B:THR47 2.0 32.9 1.0
O B:HOH632 2.1 22.7 1.0
O3B B:GDP501 2.2 22.5 1.0
F1 B:AF3502 2.4 44.0 1.0
CB B:THR65 3.1 25.9 1.0
CB B:THR47 3.1 29.4 1.0
PB B:GDP501 3.4 28.0 1.0
AL B:AF3502 3.6 41.5 1.0
O1B B:GDP501 3.7 27.1 1.0
OD2 B:ASP88 3.8 39.6 1.0
N B:THR65 3.8 27.0 1.0
N B:THR47 3.9 29.7 1.0
CA B:THR47 4.0 30.1 1.0
CA B:THR65 4.0 25.9 1.0
O1A B:GDP501 4.1 30.2 1.0
OD1 B:ASP88 4.2 37.6 1.0
CG2 B:THR47 4.2 26.5 1.0
CG2 B:THR65 4.2 25.4 1.0
F2 B:AF3502 4.3 33.3 1.0
O2B B:GDP501 4.3 26.7 1.0
O B:HOH540 4.3 25.5 1.0
CG B:ASP88 4.4 35.0 1.0
O3A B:GDP501 4.4 29.7 1.0
O2A B:GDP501 4.4 26.8 1.0
O B:GLU63 4.4 31.3 1.0
PA B:GDP501 4.5 27.6 1.0
O B:THR89 4.6 33.4 1.0
NH1 A:ARG343 4.8 23.1 1.0
F3 B:AF3502 4.9 33.3 1.0
C B:LYS46 4.9 29.6 1.0
O B:HOH550 4.9 58.1 1.0
C B:ALA64 4.9 28.7 1.0

Reference:

X.Pan, S.Eathiraj, M.Munson, D.G.Lambright. Tbc-Domain Gaps For Rab Gtpases Accelerate Gtp Hydrolysis By A Dual-Finger Mechanism. Nature V. 442 303 2006.
ISSN: ISSN 0028-0836
PubMed: 16855591
DOI: 10.1038/NATURE04847
Page generated: Mon Dec 14 07:24:06 2020

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