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Calcium in PDB 4wor: Staphylococcal Nuclease in Complex with CA2+ and Thymidine-3'-5'- Diphosphate (Pdtp) at Room Temperature

Enzymatic activity of Staphylococcal Nuclease in Complex with CA2+ and Thymidine-3'-5'- Diphosphate (Pdtp) at Room Temperature

All present enzymatic activity of Staphylococcal Nuclease in Complex with CA2+ and Thymidine-3'-5'- Diphosphate (Pdtp) at Room Temperature:
3.1.31.1;

Protein crystallography data

The structure of Staphylococcal Nuclease in Complex with CA2+ and Thymidine-3'-5'- Diphosphate (Pdtp) at Room Temperature, PDB code: 4wor was solved by M.E.Wall, S.E.Ealick, S.M.Gruner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.25 / 1.60
Space group P 41
Cell size a, b, c (Å), α, β, γ (°) 48.499, 48.499, 63.430, 90.00, 90.00, 90.00
R / Rfree (%) 18 / 20.4

Calcium Binding Sites:

The binding sites of Calcium atom in the Staphylococcal Nuclease in Complex with CA2+ and Thymidine-3'-5'- Diphosphate (Pdtp) at Room Temperature (pdb code 4wor). 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 Staphylococcal Nuclease in Complex with CA2+ and Thymidine-3'-5'- Diphosphate (Pdtp) at Room Temperature, PDB code: 4wor:

Calcium binding site 1 out of 1 in 4wor

Go back to Calcium Binding Sites List in 4wor
Calcium binding site 1 out of 1 in the Staphylococcal Nuclease in Complex with CA2+ and Thymidine-3'-5'- Diphosphate (Pdtp) at Room Temperature


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Staphylococcal Nuclease in Complex with CA2+ and Thymidine-3'-5'- Diphosphate (Pdtp) at Room Temperature within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca201

b:27.9
occ:0.79
 OD1 A:ASP40 2.5 30.9 1.0
OD1 A:ASP21 2.5 25.3 1.0
O A:THR41 2.8 29.2 1.0
O A:HOH311 3.0 33.0 1.0
O6P A:THP202 3.0 26.4 1.0
H A:THR41 3.3 26.6 1.0
CG A:ASP21 3.4 25.9 1.0
HH21 A:ARG35 3.6 27.1 1.0
OD2 A:ASP21 3.6 23.2 1.0
CG A:ASP40 3.7 32.2 1.0
N A:THR41 3.8 22.2 1.0
HA A:ASP40 3.8 28.3 1.0
NH2 A:ARG35 3.9 22.6 1.0
C A:THR41 3.9 27.3 1.0
O A:HOH310 3.9 33.2 1.0
OG1 A:THR41 4.0 23.8 1.0
HH22 A:ARG35 4.0 27.1 1.0
OE1 A:GLU43 4.1 59.5 1.0
P2 A:THP202 4.2 27.6 1.0
O5P A:THP202 4.2 25.4 1.0
CA A:THR41 4.3 22.3 1.0
OD2 A:ASP40 4.4 38.0 1.0
CA A:ASP40 4.5 23.6 1.0
C A:ASP40 4.5 24.3 1.0
HA A:GLU43 4.5 62.7 1.0
CZ A:ARG35 4.5 23.7 1.0
HG1 A:THR41 4.6 28.6 1.0
O4P A:THP202 4.6 34.1 1.0
HE A:ARG35 4.6 27.4 1.0
CB A:ASP40 4.7 26.1 1.0
NE A:ARG35 4.8 22.8 1.0
CB A:THR41 4.8 26.1 1.0
CB A:ASP21 4.8 20.5 1.0
HB3 A:ASP21 4.9 24.6 1.0
C A:PRO42 4.9 35.4 1.0
HB2 A:GLU43 4.9 65.0 1.0
N A:GLU43 5.0 46.1 1.0

Reference:

M.E.Wall, S.E.Ealick, S.M.Gruner. Three-Dimensional Diffuse X-Ray Scattering From Crystals of Staphylococcal Nuclease. Proc. Natl. Acad. Sci. 6180 1997U.S.A..
ISSN: ISSN 0027-8424
PubMed: 9177191
DOI: 10.1073/PNAS.94.12.6180
Page generated: Wed Jul 9 02:42:28 2025

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