Calcium in PDB 4m63: Crystal Structure of A Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl

All present enzymatic activity of Crystal Structure of A Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl:
3.6.1.3;

The structure of Crystal Structure of A Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl, PDB code: 4m63 was solved by D.R.Tomchick, J.A.Zahm, M.K.Rosen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.59 / 2.75
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	287.759, 66.084, 103.160, 90.00, 94.01, 90.00
R / Rfree (%)	21.9 / 27.2

The binding sites of Calcium atom in the Crystal Structure of A Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl (pdb code 4m63). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Crystal Structure of A Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl, PDB code: 4m63:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structure of A Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl


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 Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca402 b:89.6 occ:1.00 O1B C:ATP401 2.3 81.1 1.0 O2G C:ATP401 2.4 65.2 1.0 HG21 C:VAL339 3.6 71.7 1.0 HZ3 C:LYS18 3.6 68.8 1.0 PB C:ATP401 3.7 70.7 1.0 OD2 C:ASP154 3.9 81.4 1.0 PG C:ATP401 3.9 74.0 1.0 OE1 C:GLN137 4.0 62.8 1.0 HA2 C:GLY13 4.1 56.5 1.0 OD2 C:ASP11 4.2 66.4 1.0 HA3 C:GLY13 4.2 56.5 1.0 HG11 C:VAL339 4.3 60.5 1.0 O1A C:ATP401 4.3 61.6 1.0 O3B C:ATP401 4.3 76.1 1.0 CD C:GLN137 4.3 63.2 1.0 HZ1 C:LYS18 4.4 68.8 1.0 NZ C:LYS18 4.4 57.3 1.0 OD1 C:ASP11 4.4 55.3 1.0 HB3 C:GLN137 4.4 83.5 1.0 O3A C:ATP401 4.4 70.5 1.0 CG2 C:VAL339 4.5 59.8 1.0 HA3 C:GLY156 4.6 65.4 1.0 HG2 C:GLN137 4.6 76.1 1.0 CA C:GLY13 4.6 47.1 1.0 O1G C:ATP401 4.6 73.3 1.0 HB C:VAL339 4.7 66.5 1.0 OD1 C:ASP154 4.7 87.2 1.0 CG C:ASP154 4.7 80.0 1.0 HZ2 C:LYS18 4.7 68.8 1.0 CG C:ASP11 4.7 60.5 1.0 HG23 C:VAL339 4.8 71.7 1.0 NE2 C:GLN137 4.8 68.6 1.0 PA C:ATP401 4.8 68.8 1.0 O3G C:ATP401 4.8 73.3 1.0 HE22 C:GLN137 4.9 82.3 1.0 O2B C:ATP401 4.9 57.3 1.0 CG C:GLN137 4.9 63.4 1.0

Calcium binding site 2 out of 3 in the Crystal Structure of A Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl


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 Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca402 b:74.0 occ:1.00 O1B D:ATP401 2.5 69.3 1.0 O2G D:ATP401 2.5 72.3 1.0 HZ3 D:LYS18 3.3 83.2 1.0 OE1 D:GLN137 3.7 68.2 1.0 HA2 D:GLY13 3.8 92.3 1.0 OD1 D:ASP11 3.8 69.6 1.0 OD2 D:ASP11 3.9 60.4 1.0 HZ1 D:LYS18 3.9 83.2 1.0 PB D:ATP401 4.0 71.7 1.0 NZ D:LYS18 4.0 69.3 1.0 HG21 D:VAL339 4.0 69.1 1.0 PG D:ATP401 4.0 67.0 1.0 CD D:GLN137 4.0 60.9 1.0 HA3 D:GLY13 4.0 92.3 1.0 HZ2 D:LYS18 4.1 83.2 1.0 HG11 D:VAL339 4.1 64.0 1.0 CG D:ASP11 4.3 57.6 1.0 HG2 D:GLN137 4.3 71.5 1.0 HB3 D:GLN137 4.3 80.1 1.0 CA D:GLY13 4.4 76.9 1.0 OD2 D:ASP154 4.4 69.6 1.0 NE2 D:GLN137 4.5 58.9 1.0 O3B D:ATP401 4.5 78.3 1.0 HE22 D:GLN137 4.5 70.6 1.0 O3A D:ATP401 4.5 64.6 1.0 O3G D:ATP401 4.6 63.3 1.0 CG D:GLN137 4.6 59.6 1.0 O D:ASN12 4.7 67.2 1.0 O1A D:ATP401 4.8 62.1 1.0 HB D:VAL339 4.8 65.8 1.0 CG2 D:VAL339 4.9 57.6 1.0 HA3 D:GLY156 4.9 60.7 1.0 CB D:GLN137 4.9 66.8 1.0 HE21 D:GLN137 5.0 70.6 1.0 N D:GLY13 5.0 77.1 1.0

Calcium binding site 3 out of 3 in the Crystal Structure of A Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl


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 Filament-Like Actin Trimer Bound to the Bacterial Effector Vopl within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca402 b:69.8 occ:1.00 O2G E:ATP401 2.3 62.4 1.0 O3G E:ATP401 2.6 86.1 1.0 PG E:ATP401 2.9 96.8 1.0 HA2 E:GLY13 3.1 74.8 1.0 O1B E:ATP401 3.2 59.8 1.0 OD1 E:ASP11 3.2 58.2 1.0 OD2 E:ASP11 3.5 57.8 1.0 HG21 E:VAL339 3.6 69.7 1.0 HZ3 E:LYS18 3.7 66.1 1.0 OE1 E:GLN137 3.7 64.7 1.0 CG E:ASP11 3.7 54.7 1.0 CD E:GLN137 3.8 67.0 1.0 HA3 E:GLY13 3.8 74.8 1.0 CA E:GLY13 3.8 62.3 1.0 HG2 E:GLN137 3.9 81.6 1.0 HG11 E:VAL339 3.9 66.3 1.0 O3B E:ATP401 4.0 70.7 1.0 NE2 E:GLN137 4.1 69.1 1.0 O1G E:ATP401 4.1 98.9 1.0 HE22 E:GLN137 4.2 83.0 1.0 PB E:ATP401 4.2 65.8 1.0 HB3 E:GLN137 4.2 83.5 1.0 O E:ASN12 4.3 83.9 1.0 CG E:GLN137 4.3 68.0 1.0 N E:GLY13 4.4 63.9 1.0 HE21 E:GLN137 4.5 83.0 1.0 NZ E:LYS18 4.5 55.0 1.0 CG2 E:VAL339 4.5 58.0 1.0 C E:ASN12 4.5 78.7 1.0 HG1 E:THR106 4.6 87.4 1.0 HZ1 E:LYS18 4.6 66.1 1.0 H E:SER14 4.6 84.4 1.0 HB E:VAL339 4.6 65.9 1.0 CB E:GLN137 4.8 69.6 1.0 CG1 E:VAL339 4.8 55.2 1.0 H E:GLY13 4.9 76.7 1.0 HG23 E:VAL339 4.9 69.7 1.0 CB E:VAL339 4.9 54.9 1.0 O3A E:ATP401 5.0 56.9 1.0 OD2 E:ASP154 5.0 66.7 1.0 HZ2 E:LYS18 5.0 66.1 1.0

J.A.Zahm, S.B.Padrick, Z.Chen, C.W.Pak, A.A.Yunus, L.Henry, D.R.Tomchick, Z.Chen, M.K.Rosen. The Bacterial Effector Vopl Organizes Actin Into Filament-Like Structures. Cell(Cambridge,Mass.) V. 155 423 2013.
ISSN: ISSN 0092-8674
PubMed: 24120140
DOI: 10.1016/J.CELL.2013.09.019