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Magnesium in PDB 4e7s: Myosin VI D23R I24R R569E (Md) Pre-Powerstroke State

Protein crystallography data

The structure of Myosin VI D23R I24R R569E (Md) Pre-Powerstroke State, PDB code: 4e7s 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) 29.77 / 2.25
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 81.947, 135.140, 196.540, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 21.6

Other elements in 4e7s:

The structure of Myosin VI D23R I24R R569E (Md) Pre-Powerstroke State also contains other interesting chemical elements:

Vanadium (V) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Myosin VI D23R I24R R569E (Md) Pre-Powerstroke State (pdb code 4e7s). 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 D23R I24R R569E (Md) Pre-Powerstroke State, PDB code: 4e7s:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 4e7s

Go back to Magnesium Binding Sites List in 4e7s
Magnesium binding site 1 out of 2 in the Myosin VI D23R I24R R569E (Md) Pre-Powerstroke State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Myosin VI D23R I24R R569E (Md) Pre-Powerstroke State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg803

b:37.0
occ:1.00
O2 A:VO4802 2.0 40.0 1.0
O1B A:ADP801 2.1 30.3 1.0
OG1 A:THR158 2.1 40.0 1.0
O A:HOH901 2.2 37.7 1.0
O A:HOH902 2.3 35.5 1.0
OG A:SER204 2.4 35.1 1.0
CB A:THR158 3.0 34.1 1.0
CB A:SER204 3.3 37.1 1.0
PB A:ADP801 3.3 34.1 1.0
O2B A:ADP801 3.6 35.5 1.0
V A:VO4802 3.6 35.9 1.0
N A:THR158 3.9 34.8 1.0
N A:SER204 3.9 37.2 1.0
CA A:THR158 3.9 32.4 1.0
OD2 A:ASP456 4.1 47.7 1.0
CG2 A:THR158 4.1 33.8 1.0
O2A A:ADP801 4.1 30.2 1.0
OD1 A:ASP456 4.1 50.0 1.0
CA A:SER204 4.2 35.8 1.0
O3A A:ADP801 4.3 30.5 1.0
O A:HOH956 4.4 43.0 1.0
O3B A:ADP801 4.4 32.9 1.0
PA A:ADP801 4.5 32.4 1.0
O A:HOH1060 4.5 53.3 1.0
CG A:ASP456 4.5 49.5 1.0
O4 A:VO4802 4.6 35.8 1.0
O1A A:ADP801 4.6 31.9 1.0
O1 A:VO4802 4.6 36.6 1.0
O A:ASN202 4.7 36.0 1.0
O A:HOH1099 4.8 50.0 1.0
O A:ILE457 4.8 35.6 1.0
ND2 A:ASN200 4.9 34.8 1.0
ND2 A:ASN194 5.0 36.5 1.0
CE A:LYS157 5.0 31.1 1.0
CB A:LYS157 5.0 30.6 1.0
C A:SER203 5.0 36.1 1.0
O3 A:VO4802 5.0 37.4 1.0
C A:LYS157 5.0 36.1 1.0

Magnesium binding site 2 out of 2 in 4e7s

Go back to Magnesium Binding Sites List in 4e7s
Magnesium binding site 2 out of 2 in the Myosin VI D23R I24R R569E (Md) Pre-Powerstroke State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Myosin VI D23R I24R R569E (Md) Pre-Powerstroke State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg803

b:35.9
occ:1.00
O2 B:VO4802 2.0 38.1 1.0
OG1 B:THR158 2.2 41.8 1.0
O1B B:ADP801 2.2 30.7 1.0
O B:HOH901 2.2 38.4 1.0
O B:HOH902 2.2 34.5 1.0
OG B:SER204 2.3 37.5 1.0
CB B:THR158 2.9 39.3 1.0
CB B:SER204 3.3 39.8 1.0
PB B:ADP801 3.4 35.4 1.0
O2B B:ADP801 3.7 33.7 1.0
V B:VO4802 3.7 35.4 1.0
N B:SER204 3.9 41.5 1.0
N B:THR158 3.9 38.0 1.0
CA B:THR158 3.9 42.1 1.0
CG2 B:THR158 4.0 39.9 1.0
O2A B:ADP801 4.1 32.4 1.0
OD2 B:ASP456 4.1 47.7 1.0
OD1 B:ASP456 4.1 50.2 1.0
CA B:SER204 4.2 40.8 1.0
O3A B:ADP801 4.4 35.3 1.0
O3B B:ADP801 4.5 36.2 1.0
PA B:ADP801 4.5 34.5 1.0
CG B:ASP456 4.5 46.7 1.0
O4 B:VO4802 4.6 35.5 1.0
O B:ASN202 4.6 36.0 1.0
O1A B:ADP801 4.6 31.8 1.0
O1 B:VO4802 4.7 36.1 1.0
O B:ILE457 4.8 43.5 1.0
ND2 B:ASN200 5.0 30.6 1.0
C B:SER203 5.0 40.6 1.0
ND2 B:ASN194 5.0 41.4 1.0
C B:LYS157 5.0 38.2 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 13:39:23 2020

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