Calcium in PDB 2vb6: Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2)

The structure of Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2), PDB code: 2vb6 was solved by J.Menetrey, P.Llinas, J.Cicolari, G.Squires, X.Liu, A.Li, H.L.Sweeney, A.Houdusse, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.18 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	73.310, 107.590, 178.300, 90.00, 90.00, 90.00
R / Rfree (%)	21 / 25.3

The structure of Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2) also contains other interesting chemical elements:

Fluorine	(F)	3 atoms
Magnesium	(Mg)	1 atom

The binding sites of Calcium atom in the Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2) (pdb code 2vb6). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2), PDB code: 2vb6:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1148 b:64.5 occ:1.00 OD1 B:ASP20 2.1 35.5 1.0 O B:THR26 2.2 37.0 1.0 OD1 B:ASP22 2.3 40.0 1.0 OD2 B:ASP24 2.7 43.2 1.0 CG B:ASP22 3.2 40.8 1.0 CG B:ASP24 3.2 42.3 1.0 CG B:ASP20 3.3 34.6 1.0 OD2 B:ASP22 3.4 40.5 1.0 C B:THR26 3.4 37.5 1.0 OD1 B:ASP24 3.7 42.6 1.0 O B:HOH2005 3.9 39.4 1.0 OE1 B:GLU31 3.9 47.1 1.0 CB B:ASP24 4.0 41.8 1.0 CA B:ASP20 4.0 35.9 1.0 CB B:ASP20 4.0 35.5 1.0 N B:THR26 4.0 37.8 1.0 N B:GLY23 4.2 41.9 1.0 OD2 B:ASP20 4.3 31.8 1.0 CA B:THR26 4.3 37.6 1.0 N B:ILE27 4.4 37.6 1.0 CG2 B:ILE27 4.4 36.9 1.0 OG1 B:THR26 4.4 36.6 1.0 C B:ASP20 4.5 37.1 1.0 CA B:ILE27 4.5 37.7 1.0 CB B:ASP22 4.6 40.7 1.0 N B:GLY25 4.6 39.6 1.0 N B:ASP22 4.7 40.3 1.0 CA B:ASP24 4.7 41.5 1.0 N B:LYS21 4.8 38.1 1.0 C B:ASP24 4.8 40.5 1.0 CA B:GLY23 4.8 42.2 1.0 C B:ASP22 4.9 41.5 1.0 CA B:ASP22 4.9 41.0 1.0

Calcium binding site 2 out of 4 in the Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1149 b:72.3 occ:1.00 OD1 B:ASP56 2.3 54.4 1.0 O B:THR62 2.3 45.1 1.0 OD1 B:ASN60 2.5 48.9 1.0 CB B:ASP58 3.3 53.0 1.0 OD2 B:ASP58 3.3 53.5 1.0 CG B:ASP58 3.3 53.2 1.0 C B:THR62 3.4 45.0 1.0 CG B:ASP56 3.5 54.0 1.0 CG B:ASN60 3.5 47.5 1.0 OG1 B:THR62 4.0 46.5 1.0 N B:THR62 4.0 45.6 1.0 ND2 B:ASN60 4.1 45.8 1.0 OD1 B:ASP58 4.1 54.8 1.0 CA B:ASP56 4.1 53.6 1.0 OE1 B:GLU67 4.1 43.2 1.0 CA B:THR62 4.2 45.5 1.0 CB B:ASP56 4.3 53.8 1.0 CD1 B:ILE63 4.3 44.5 1.0 OD2 B:ASP56 4.4 54.9 1.0 N B:ILE63 4.4 44.5 1.0 N B:ALA57 4.6 53.5 1.0 CA B:ASP58 4.6 52.5 1.0 C B:ASP56 4.6 53.6 1.0 N B:ASN60 4.7 48.6 1.0 OE2 B:GLU67 4.7 43.8 1.0 CA B:ILE63 4.7 44.2 1.0 CB B:THR62 4.8 45.5 1.0 CD B:GLU67 4.8 41.3 1.0 CB B:ASN60 4.8 47.7 1.0 N B:GLY61 4.8 46.6 1.0 O B:VAL55 4.8 53.3 1.0 N B:GLY59 4.9 51.0 1.0 C B:ASP58 5.0 51.9 1.0

Calcium binding site 3 out of 4 in the Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1150 b:31.4 occ:1.00 O B:PHE99 2.3 29.6 1.0 OD1 B:ASP95 2.3 35.7 1.0 OD1 B:ASP93 2.4 38.5 1.0 OD1 B:ASN97 2.4 36.4 1.0 OE1 B:GLU104 2.5 26.4 1.0 OE2 B:GLU104 2.5 24.4 1.0 CD B:GLU104 2.8 26.9 1.0 CG B:ASP95 3.3 34.8 1.0 CG B:ASN97 3.4 35.8 1.0 C B:PHE99 3.5 29.9 1.0 CG B:ASP93 3.5 36.7 1.0 OD2 B:ASP95 3.8 35.8 1.0 ND2 B:ASN97 4.0 36.1 1.0 O B:HOH2014 4.1 29.7 1.0 O B:HOH2026 4.1 30.9 1.0 CA B:ASP93 4.1 35.6 1.0 N B:PHE99 4.2 31.6 1.0 N B:ASP95 4.3 36.1 1.0 CB B:ASP93 4.3 35.9 1.0 N B:ASN97 4.4 35.9 1.0 CA B:PHE99 4.4 30.6 1.0 CG B:GLU104 4.4 24.9 1.0 C B:ASP93 4.4 35.8 1.0 OD2 B:ASP93 4.4 37.7 1.0 N B:ILE100 4.4 29.1 1.0 CA B:ILE100 4.5 28.2 1.0 CB B:ASP95 4.5 35.5 1.0 N B:LYS94 4.5 35.9 1.0 CB B:ASN97 4.5 35.5 1.0 N B:SER101 4.6 27.0 1.0 N B:GLY96 4.6 36.2 1.0 O B:HOH2018 4.7 29.1 1.0 CA B:ASP95 4.7 35.8 1.0 CB B:PHE99 4.8 30.8 1.0 CA B:ASN97 4.8 35.4 1.0 C B:ASP95 4.9 35.9 1.0 O B:ASP93 5.0 35.8 1.0 N B:GLY98 5.0 34.4 1.0

Calcium binding site 4 out of 4 in the Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Myosin VI (Md-INSERT2-Cam, Delta INSERT1) Post-Rigor State ( Crystal Form 2) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1151 b:41.2 occ:1.00 O B:GLN135 2.2 28.7 1.0 OD2 B:ASP131 2.3 39.7 1.0 OD2 B:ASP129 2.3 35.8 1.0 OD2 B:ASP133 2.4 33.2 1.0 OE1 B:GLU140 2.6 35.2 1.0 OE2 B:GLU140 2.9 35.6 1.0 CD B:GLU140 3.1 36.2 1.0 CG B:ASP131 3.2 38.5 1.0 C B:GLN135 3.4 29.4 1.0 CG B:ASP133 3.4 33.7 1.0 OD1 B:ASP131 3.5 39.1 1.0 CG B:ASP129 3.5 37.0 1.0 OD1 B:ASP133 4.0 33.9 1.0 N B:GLN135 4.1 30.1 1.0 CA B:ASP129 4.2 36.5 1.0 N B:ASP133 4.2 34.5 1.0 N B:VAL136 4.2 28.8 1.0 CB B:ASP129 4.2 36.6 1.0 CA B:VAL136 4.3 28.8 1.0 N B:GLY132 4.3 36.6 1.0 CA B:GLN135 4.3 30.0 1.0 N B:ASP131 4.3 37.7 1.0 N B:ASN137 4.4 29.9 1.0 CB B:ASP131 4.5 38.2 1.0 OD1 B:ASP129 4.5 38.8 1.0 C B:ASP129 4.5 36.8 1.0 N B:ILE130 4.5 37.2 1.0 CG B:GLU140 4.6 36.3 1.0 CB B:ASP133 4.6 33.7 1.0 ND2 B:ASN137 4.6 31.5 1.0 CA B:ASP131 4.7 37.8 1.0 CB B:GLN135 4.8 30.1 1.0 N B:GLY134 4.8 31.8 1.0 C B:ASP131 4.8 37.5 1.0 C B:VAL136 4.8 28.8 1.0 CA B:ASP133 4.8 33.4 1.0 CG B:ASN137 4.9 32.3 1.0 C B:ASP133 5.0 32.6 1.0

J.Menetrey, P.Llinas, J.Cicolari, G.Squires, X.Liu, A.Li, H.L.Sweeney, A.Houdusse. The Post-Rigor Structure of Myosin VI and Implications For the Recovery Stroke. Embo J. V. 27 244 2008.
ISSN: ISSN 0261-4189
PubMed: 18046460
DOI: 10.1038/SJ.EMBOJ.7601937