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Chlorine in PDB 3p6z: Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction

Enzymatic activity of Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction

All present enzymatic activity of Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction:
3.4.21.5;

Protein crystallography data

The structure of Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction, PDB code: 3p6z was solved by M.A.Corral-Rodriguez, P.E.Bock, E.Hernandez-Carvajal, R.Gutierrez-Gallego, P.Fuentes-Prior, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.92 / 1.70
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 52.208, 62.259, 67.510, 99.38, 110.46, 92.26
R / Rfree (%) 20 / 23.9

Other elements in 3p6z:

The structure of Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction also contains other interesting chemical elements:

Sodium (Na) 9 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction (pdb code 3p6z). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction, PDB code: 3p6z:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 3p6z

Go back to Chlorine Binding Sites List in 3p6z
Chlorine binding site 1 out of 3 in the Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl850

b:32.9
occ:1.00
 O B:HOH1212 3.0 37.5 1.0
N B:GLU622 3.2 29.1 1.0
NE1 B:TRP400 3.2 24.8 1.0
NH1 H:ARG452 3.6 57.6 1.0
CA B:GLY621 3.7 26.3 1.0
CD1 B:TRP400 3.8 20.9 1.0
CB B:ARG399 3.9 24.4 1.0
C B:GLY621 4.0 28.3 1.0
NE B:ARG399 4.0 27.0 0.6
NH2 H:ARG452 4.0 57.8 1.0
CD B:ARG399 4.1 27.6 1.0
CZ H:ARG452 4.2 55.7 1.0
CA B:GLU622 4.2 31.8 1.0
CB B:GLU622 4.4 31.9 1.0
CE2 B:TRP400 4.4 19.0 1.0
OXT B:GLU622 4.5 34.1 1.0
CG B:GLU622 4.6 33.2 1.0
CG B:ARG399 4.7 28.1 1.0
C B:GLU622 4.8 33.4 1.0
OD1 B:ASP398 4.9 27.8 1.0

Chlorine binding site 2 out of 3 in 3p6z

Go back to Chlorine Binding Sites List in 3p6z
Chlorine binding site 2 out of 3 in the Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl851

b:63.8
occ:1.00
 NH1 B:ARG596 3.4 39.3 1.0
NH2 B:ARG596 3.6 41.7 1.0
CZ B:ARG596 3.9 40.2 1.0
O B:HOH1010 4.7 35.0 1.0
N B:GLY593 4.7 30.2 1.0
CB B:GLU592 4.9 31.9 1.0

Chlorine binding site 3 out of 3 in 3p6z

Go back to Chlorine Binding Sites List in 3p6z
Chlorine binding site 3 out of 3 in the Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structural Basis of Thrombin Mediated Factor V Activation: Essential Role of the Hirudin-Like Sequence GLU666-GLU672 For Processing at the Heavy Chain-B Domain Junction within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl852

b:45.4
occ:1.00
 N B:MET443 3.2 25.8 1.0
O B:HOH986 3.4 28.9 1.0
CB B:LYS469 3.8 29.3 1.0
CA B:SER442 3.8 26.8 1.0
O B:MET443 3.9 23.8 1.0
N B:LYS470 3.9 28.2 1.0
CB B:MET443 3.9 26.1 1.0
C B:SER442 4.0 25.9 1.0
CA B:MET443 4.0 25.0 1.0
CB B:LYS470 4.1 31.2 1.0
CB B:SER442 4.1 26.2 1.0
CG B:MET443 4.1 29.1 1.0
CG B:LYS470 4.2 35.3 1.0
CD B:LYS470 4.4 41.6 1.0
C B:MET443 4.4 23.9 1.0
N B:LYS469 4.4 24.1 1.0
CA B:LYS469 4.4 27.2 1.0
C B:LYS469 4.6 27.3 1.0
CA B:LYS470 4.6 29.3 1.0
O B:ILE441 4.7 27.0 1.0
OG B:SER442 4.7 28.6 1.0
O B:LYS470 4.7 26.5 1.0
CG B:LYS469 4.8 32.5 1.0
CE B:LYS470 4.8 46.4 1.0
SD B:MET443 4.9 33.7 0.6

Reference:

M.A.Corral-Rodriguez, P.E.Bock, E.Hernandez-Carvajal, R.Gutierrez-Gallego, P.Fuentes-Prior. Structural Basis of Thrombin-Mediated Factor V Activation: the GLU666-GLU672 Sequence Is Critical For Processing at the Heavy Chain-B Domain Junction. Blood V. 117 7164 2011.
ISSN: ISSN 0006-4971
PubMed: 21555742
DOI: 10.1182/BLOOD-2010-10-315309
Page generated: Sat Dec 12 10:01:49 2020

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