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Magnesium in PDB 3lvq: The Crystal Structure of ASAP3 in Complex with ARF6 in Transition State

Protein crystallography data

The structure of The Crystal Structure of ASAP3 in Complex with ARF6 in Transition State, PDB code: 3lvq was solved by S.A.Ismail, I.R.Vetter, B.Sot, A.Wittinghofer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.42 / 3.38
Space group P 62
Cell size a, b, c (Å), α, β, γ (°) 146.290, 146.290, 49.520, 90.00, 90.00, 120.00
R / Rfree (%) 21.9 / 25.7

Other elements in 3lvq:

The structure of The Crystal Structure of ASAP3 in Complex with ARF6 in Transition State also contains other interesting chemical elements:

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

Magnesium Binding Sites:

The binding sites of Magnesium atom in the The Crystal Structure of ASAP3 in Complex with ARF6 in Transition State (pdb code 3lvq). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the The Crystal Structure of ASAP3 in Complex with ARF6 in Transition State, PDB code: 3lvq:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3lvq

Go back to Magnesium Binding Sites List in 3lvq
Magnesium binding site 1 out of 2 in the The Crystal Structure of ASAP3 in Complex with ARF6 in Transition State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Crystal Structure of ASAP3 in Complex with ARF6 in Transition State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg681

b:51.0
occ:1.00
OG1 E:THR44 2.0 0.9 1.0
F2 E:AF3683 2.0 71.0 1.0
O2B E:GDP682 2.4 48.7 1.0
O E:HOH220 2.4 57.1 1.0
O3B E:GDP682 2.6 57.4 1.0
OG1 E:THR27 2.7 0.1 1.0
O E:HOH230 2.7 54.4 1.0
AL E:AF3683 2.8 79.3 1.0
PB E:GDP682 3.0 58.0 1.0
F1 E:AF3683 3.0 81.8 1.0
NZ E:LYS26 3.4 0.3 1.0
CB E:THR44 3.4 0.7 1.0
O1B E:GDP682 3.7 62.3 1.0
OD1 E:ASP63 3.7 0.3 1.0
CB E:THR27 3.8 0.4 1.0
N E:THR27 3.9 0.5 1.0
CG2 E:THR44 4.0 0.4 1.0
OD2 E:ASP63 4.0 0.7 1.0
N E:THR44 4.0 0.8 1.0
O2A E:GDP682 4.3 61.7 1.0
CB E:LYS26 4.3 0.6 1.0
CA E:THR44 4.3 0.9 1.0
CG E:ASP63 4.3 0.6 1.0
O3A E:GDP682 4.4 54.7 1.0
F3 E:AF3683 4.4 71.0 1.0
CA E:THR27 4.5 0.1 1.0
O1A E:GDP682 4.5 53.7 1.0
PA E:GDP682 4.7 55.2 1.0
CA E:GLY65 4.8 0.5 1.0
C E:LYS26 4.8 0.5 1.0
CE E:LYS26 4.9 0.8 1.0
O E:THR44 4.9 0.3 1.0
NH2 E:ARG469 4.9 0.7 1.0
CA E:LYS26 4.9 0.1 1.0
N E:LYS26 5.0 0.6 1.0

Magnesium binding site 2 out of 2 in 3lvq

Go back to Magnesium Binding Sites List in 3lvq
Magnesium binding site 2 out of 2 in the The Crystal Structure of ASAP3 in Complex with ARF6 in Transition State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Crystal Structure of ASAP3 in Complex with ARF6 in Transition State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg684

b:0.4
occ:1.00
OD2 E:ASP68 3.1 0.7 1.0
OE1 E:GLN479 3.5 0.5 1.0
OD1 E:ASP68 3.7 0.6 1.0
O E:LEU485 3.8 0.5 1.0
CG E:ASP68 3.8 0.7 1.0
OE2 E:GLU98 4.0 0.7 1.0
OE2 E:GLU490 4.0 1.0 1.0
OE1 E:GLU98 4.4 0.8 1.0
CD E:GLU98 4.5 0.5 1.0
CD E:GLN479 4.7 0.7 1.0
CD E:GLU490 4.9 0.4 1.0
OE1 E:GLU490 4.9 0.1 1.0
C E:LEU485 4.9 0.0 1.0

Reference:

S.A.Ismail, I.R.Vetter, B.Sot, A.Wittinghofer. The Structure of An Arf-Arfgap Complex Reveals A CA2+ Regulatory Mechanism Cell(Cambridge,Mass.) V. 141 812 2010.
ISSN: ISSN 0092-8674
PubMed: 20510928
DOI: 10.1016/J.CELL.2010.03.051
Page generated: Mon Dec 14 08:24:47 2020

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