Calcium in PDB 3klt: Crystal Structure of A Vimentin Fragment

The structure of Crystal Structure of A Vimentin Fragment, PDB code: 3klt was solved by S.Nicolet, S.V.Strelkov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.47 / 2.70
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	63.200, 30.100, 82.980, 90.00, 102.71, 90.00
R / Rfree (%)	29.1 / 33.1

The structure of Crystal Structure of A Vimentin Fragment also contains other interesting chemical elements:

Samarium

(Sm)

3 atoms

The binding sites of Calcium atom in the Crystal Structure of A Vimentin Fragment (pdb code 3klt). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Crystal Structure of A Vimentin Fragment, PDB code: 3klt:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in the Crystal Structure of A Vimentin Fragment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of A Vimentin Fragment within 5.0Å range:

Calcium binding site 2 out of 6 in the Crystal Structure of A Vimentin Fragment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of A Vimentin Fragment within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca7 b:74.8 occ:1.00 OE1 B:GLU288 4.4 99.1 1.0

Calcium binding site 3 out of 6 in the Crystal Structure of A Vimentin Fragment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of A Vimentin Fragment within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca4 b:75.3 occ:1.00 CG1 A:VAL272 4.8 17.8 1.0 CZ C:PHE295 4.8 29.2 1.0 CD1 C:TYR291 4.9 24.4 1.0 CE1 C:TYR291 4.9 29.5 1.0 CD1 D:TYR291 4.9 36.1 1.0

Calcium binding site 4 out of 6 in the Crystal Structure of A Vimentin Fragment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of A Vimentin Fragment within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca5 b:85.0 occ:1.00 OE2 D:GLU315 3.9 0.9 1.0 OE2 D:GLU318 4.4 0.5 1.0 CD D:GLU315 4.6 0.8 1.0

Calcium binding site 5 out of 6 in the Crystal Structure of A Vimentin Fragment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of A Vimentin Fragment within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca8 b:80.9 occ:1.00 NZ D:LYS294 3.3 41.2 1.0 CE D:LYS294 3.9 27.9 1.0 OG D:SER293 4.2 50.1 1.0 CD1 D:TRP290 4.2 24.9 1.0 NE1 D:TRP290 4.5 36.0 1.0 O2 D:PGE6 4.6 67.9 1.0 CB D:SER293 4.8 15.2 1.0

Calcium binding site 6 out of 6 in the Crystal Structure of A Vimentin Fragment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of A Vimentin Fragment within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca9 b:0.2 occ:1.00 OD1 D:ASP297 3.7 60.1 1.0 CG D:ASP297 4.5 57.2 1.0 OD2 D:ASP297 4.7 48.8 1.0 OE1 D:GLU300 4.9 79.5 1.0

S.Nicolet, H.Herrmann, U.Aebi, S.V.Strelkov. Atomic Structure of Vimentin Coil 2. J.Struct.Biol. V. 170 369 2010.
ISSN: ISSN 1047-8477
PubMed: 20176112
DOI: 10.1016/J.JSB.2010.02.012