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Calcium in PDB 1vkq: A Re-Determination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6A Resolution Using Sulphur-Sas at 1.54A Wavelength

Enzymatic activity of A Re-Determination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6A Resolution Using Sulphur-Sas at 1.54A Wavelength

All present enzymatic activity of A Re-Determination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6A Resolution Using Sulphur-Sas at 1.54A Wavelength:
3.1.1.4;

Protein crystallography data

The structure of A Re-Determination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6A Resolution Using Sulphur-Sas at 1.54A Wavelength, PDB code: 1vkq was solved by K.Sekar, D.Velmurugan, V.Rajakannan, T.Yamane, M.Dauter, Z.Dauter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.96 / 1.60
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 46.050, 46.050, 101.580, 90.00, 90.00, 120.00
R / Rfree (%) 17.7 / 21.7

Other elements in 1vkq:

The structure of A Re-Determination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6A Resolution Using Sulphur-Sas at 1.54A Wavelength also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the A Re-Determination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6A Resolution Using Sulphur-Sas at 1.54A Wavelength (pdb code 1vkq). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the A Re-Determination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6A Resolution Using Sulphur-Sas at 1.54A Wavelength, PDB code: 1vkq:

Calcium binding site 1 out of 1 in 1vkq

Go back to Calcium Binding Sites List in 1vkq
Calcium binding site 1 out of 1 in the A Re-Determination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6A Resolution Using Sulphur-Sas at 1.54A Wavelength


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of A Re-Determination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6A Resolution Using Sulphur-Sas at 1.54A Wavelength within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca224

b:15.1
occ:1.00
 O A:GLY32 2.3 23.2 1.0
O A:TYR28 2.3 17.6 1.0
O A:GLY30 2.3 21.3 1.0
OD2 A:ASP49 2.4 17.5 1.0
OD1 A:ASP49 2.5 15.5 1.0
O A:HOH245 2.5 16.9 1.0
O A:HOH248 2.5 21.4 1.0
CG A:ASP49 2.8 16.4 1.0
C A:GLY32 3.5 24.6 1.0
C A:TYR28 3.5 16.5 1.0
C A:GLY30 3.6 21.7 1.0
N A:GLY30 3.9 18.1 1.0
N A:GLY32 4.0 25.9 1.0
CA A:GLY32 4.2 25.2 1.0
CA A:TYR28 4.2 16.3 1.0
O A:HOH230 4.2 17.2 1.0
O A:HOH342 4.2 46.2 1.0
C A:LEU31 4.3 26.6 1.0
CB A:ASP49 4.4 14.7 1.0
CA A:GLY30 4.4 19.9 1.0
O A:HOH235 4.4 18.5 1.0
N A:GLY33 4.5 24.2 1.0
N A:CYS29 4.5 16.1 1.0
N A:LEU31 4.6 24.2 1.0
O A:HOH296 4.6 34.6 1.0
CA A:LEU31 4.6 26.3 1.0
C A:CYS29 4.6 18.3 1.0
CA A:CYS29 4.7 16.1 1.0
CB A:TYR28 4.7 16.2 1.0
CA A:GLY33 4.7 24.3 1.0
O4 A:MPD226 4.8 33.2 1.0
O A:CYS45 4.8 14.2 1.0
O A:HOH323 4.8 41.2 1.0
O A:HOH261 4.8 25.6 1.0
O A:LEU31 4.9 28.3 1.0

Reference:

K.Sekar, V.Rajakannan, D.Velmurugan, T.Yamane, R.Thirumurugan, M.Dauter, Z.Dauter. A Redetermination of the Structure of the Triple Mutant (K53,56,120M) of Phospholipase A2 at 1.6 A Resolution Using Sulfur-Sas at 1.54 A Wavelength. Acta Crystallogr.,Sect.D V. 60 1586 2004.
ISSN: ISSN 0907-4449
PubMed: 15333929
DOI: 10.1107/S090744490401697X
Page generated: Fri Jul 12 06:55:33 2024

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