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Magnesium in PDB 4e7z: Myosin VI (Md) Pre-Powerstroke State, P21 Crystal Form

Protein crystallography data

The structure of Myosin VI (Md) Pre-Powerstroke State, P21 Crystal Form, PDB code: 4e7z was solved by T.Isabet, H.L.Sweeney, A.Houdusse, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.65 / 2.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 98.148, 93.319, 101.875, 90.00, 90.60, 90.00
R / Rfree (%) 17.6 / 23.1

Other elements in 4e7z:

The structure of Myosin VI (Md) Pre-Powerstroke State, P21 Crystal Form also contains other interesting chemical elements:

Vanadium (V) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Myosin VI (Md) Pre-Powerstroke State, P21 Crystal Form (pdb code 4e7z). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Myosin VI (Md) Pre-Powerstroke State, P21 Crystal Form, PDB code: 4e7z:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 4e7z

Go back to Magnesium Binding Sites List in 4e7z
Magnesium binding site 1 out of 2 in the Myosin VI (Md) Pre-Powerstroke State, P21 Crystal Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Myosin VI (Md) Pre-Powerstroke State, P21 Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg803

b:32.4
occ:1.00
O2 A:VO4802 2.2 26.5 1.0
O1B A:ADP801 2.4 20.7 1.0
OG1 A:THR158 2.4 30.7 1.0
O A:HOH933 2.5 28.4 1.0
OG A:SER204 2.5 28.5 1.0
O A:HOH1035 2.5 22.5 1.0
CB A:THR158 2.9 26.1 1.0
CB A:SER204 3.2 27.9 1.0
PB A:ADP801 3.7 24.5 1.0
N A:THR158 3.9 26.6 1.0
OD1 A:ASP456 3.9 29.2 1.0
V A:VO4802 3.9 22.7 1.0
CA A:THR158 3.9 29.5 1.0
N A:SER204 3.9 26.1 1.0
OD2 A:ASP456 4.0 29.3 1.0
CG2 A:THR158 4.0 26.1 1.0
O2B A:ADP801 4.1 26.1 1.0
O2A A:ADP801 4.2 26.1 1.0
CA A:SER204 4.2 23.9 1.0
CG A:ASP456 4.3 31.4 1.0
O A:HOH1136 4.4 44.5 1.0
O3A A:ADP801 4.6 24.1 1.0
PA A:ADP801 4.7 25.7 1.0
O1A A:ADP801 4.7 25.0 1.0
O3B A:ADP801 4.7 23.8 1.0
O A:HOH1069 4.7 35.6 1.0
O A:ASN202 4.7 26.8 1.0
ND2 A:ASN194 4.7 25.6 1.0
O1 A:VO4802 4.7 27.5 1.0
O4 A:VO4802 4.8 25.5 1.0
O A:ILE457 4.8 25.1 1.0
C A:LYS157 4.9 26.2 1.0
O A:HOH932 5.0 33.1 1.0

Magnesium binding site 2 out of 2 in 4e7z

Go back to Magnesium Binding Sites List in 4e7z
Magnesium binding site 2 out of 2 in the Myosin VI (Md) Pre-Powerstroke State, P21 Crystal Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Myosin VI (Md) Pre-Powerstroke State, P21 Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg803

b:32.1
occ:1.00
O2 B:VO4802 2.3 30.1 1.0
O1B B:ADP801 2.4 23.8 1.0
O B:HOH983 2.4 28.3 1.0
OG1 B:THR158 2.4 28.8 1.0
O B:HOH971 2.5 24.9 1.0
OG B:SER204 2.5 24.3 1.0
CB B:SER204 3.2 25.4 1.0
CB B:THR158 3.3 27.5 1.0
PB B:ADP801 3.4 26.0 1.0
V B:VO4802 3.6 23.6 1.0
O2B B:ADP801 3.7 24.2 1.0
OD2 B:ASP456 3.8 34.1 1.0
N B:SER204 3.9 26.9 1.0
N B:THR158 3.9 26.3 1.0
OD1 B:ASP456 4.0 33.6 1.0
CA B:THR158 4.1 24.1 1.0
CA B:SER204 4.1 25.7 1.0
O4 B:VO4802 4.2 24.4 1.0
CG B:ASP456 4.3 35.0 1.0
O2A B:ADP801 4.4 25.9 1.0
O3B B:ADP801 4.4 28.2 1.0
CG2 B:THR158 4.4 26.0 1.0
O3A B:ADP801 4.5 24.1 1.0
O B:ILE457 4.5 27.3 1.0
O1 B:VO4802 4.6 22.0 1.0
PA B:ADP801 4.7 25.2 1.0
O1A B:ADP801 4.8 23.9 1.0
O B:HOH926 4.8 34.8 1.0
CB B:LYS157 4.8 25.7 1.0
C B:LYS157 4.9 26.9 1.0
O B:ASN202 4.9 24.7 1.0
ND2 B:ASN194 4.9 27.5 1.0
CE B:LYS157 5.0 23.1 1.0

Reference:

J.Menetrey, T.Isabet, V.Ropars, M.Mukherjea, O.Pylypenko, X.Liu, J.Perez, P.Vachette, H.L.Sweeney, A.M.Houdusse. Processive Steps in the Reverse Direction Require Uncoupling of the Lead Head Lever Arm of Myosin VI. Mol.Cell V. 48 75 2012.
ISSN: ISSN 1097-2765
PubMed: 22940248
DOI: 10.1016/J.MOLCEL.2012.07.034
Page generated: Mon Dec 14 13:41:05 2020

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