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Calcium in PDB 3qmp: Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate.

Enzymatic activity of Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate.

All present enzymatic activity of Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate.:
3.4.21.64;

Protein crystallography data

The structure of Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate., PDB code: 3qmp was solved by J.Jakoncic, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.81 / 1.10
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 67.967, 67.967, 102.215, 90.00, 90.00, 90.00
R / Rfree (%) 10.3 / 11.9

Calcium Binding Sites:

The binding sites of Calcium atom in the Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate. (pdb code 3qmp). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate., PDB code: 3qmp:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 3qmp

Go back to Calcium Binding Sites List in 3qmp
Calcium binding site 1 out of 4 in the Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca280

b:4.0
occ:1.00
 O A:HOH496 2.4 5.7 0.8
O A:VAL177 2.4 4.7 1.0
O A:PRO175 2.4 4.8 1.0
O A:HOH408 2.4 5.0 1.0
O A:HOH451 2.4 6.3 1.0
OD2 A:ASP200 2.4 4.2 1.0
O A:HOH495 2.5 5.4 0.8
OD1 A:ASP200 2.7 5.7 1.0
CG A:ASP200 2.9 4.0 1.0
O A:HOH496 3.3 6.5 0.2
O A:HOH495 3.4 6.5 0.2
C A:PRO175 3.5 4.3 1.0
O A:HOH606 3.6 5.6 0.6
C A:VAL177 3.6 3.5 1.0
N A:VAL177 4.2 4.2 1.0
CA A:PRO175 4.2 4.8 0.2
CA A:PRO175 4.3 5.4 0.8
O A:VAL198 4.3 5.4 1.0
CB A:ASP200 4.4 4.0 1.0
C A:SER176 4.4 4.4 1.0
N A:SER176 4.4 4.4 1.0
O A:HOH651 4.5 13.6 1.0
N A:CYS178 4.5 3.5 1.0
CA A:CYS178 4.5 3.6 1.0
O A:GLU174 4.5 4.4 1.0
O A:HOH373 4.5 17.8 1.0
CA A:VAL177 4.6 4.1 1.0
N A:THR179 4.6 3.3 1.0
CA A:SER176 4.7 4.6 1.0
O A:HOH733 4.7 11.8 0.5
O A:HOH558 4.7 7.9 1.0
OG1 A:THR179 4.8 4.1 1.0
O A:HOH512 4.8 16.2 0.5
SG A:CYS249 4.9 5.2 1.0
O A:HOH733 4.9 20.6 0.5
O A:SER176 5.0 5.2 1.0

Calcium binding site 2 out of 4 in 3qmp

Go back to Calcium Binding Sites List in 3qmp
Calcium binding site 2 out of 4 in the Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca283

b:45.0
occ:0.40
 O A:HOH539 1.6 19.4 0.6
O A:HOH484 2.9 22.0 0.5
OG A:SER62 3.5 9.0 1.0
OG A:SER63 4.1 10.1 0.8
N A:SER63 4.1 6.8 1.0
O A:HOH478 4.2 37.2 1.0
CB A:SER62 4.4 7.8 1.0
CA A:SER62 4.4 7.1 1.0
O A:HOH477 4.5 33.5 1.0
NE A:ARG64 4.6 12.7 0.3
CG A:ARG64 4.6 8.1 0.3
C A:SER62 4.9 6.4 1.0
CB A:SER63 4.9 6.9 0.2
O A:HOH694 4.9 17.6 1.0
O A:HOH638 4.9 17.4 1.0
CD A:ARG64 4.9 10.2 0.3
N A:ARG64 4.9 7.0 1.0
CB A:SER63 5.0 8.2 0.8

Calcium binding site 3 out of 4 in 3qmp

Go back to Calcium Binding Sites List in 3qmp
Calcium binding site 3 out of 4 in the Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca284

b:27.6
occ:0.30
 O A:HOH373 3.7 17.8 1.0
O A:HOH518 3.7 32.6 1.0
NH2 A:ARG250 4.0 16.2 0.5
O A:HOH495 4.4 6.5 0.2
O A:HOH495 4.5 5.4 0.8

Calcium binding site 4 out of 4 in 3qmp

Go back to Calcium Binding Sites List in 3qmp
Calcium binding site 4 out of 4 in the Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Selenium Sad Structure Solution of Proteinase K Grown in SO4-Less Solution and Soaked in Selenate. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca285

b:20.2
occ:0.50
 O A:HOH540 1.8 20.5 0.5
O A:HOH541 1.9 13.5 0.5
O A:HOH439 3.6 27.1 1.0
OH A:TYR195 3.8 12.4 1.0
O A:HOH640 3.9 15.4 1.0
CB A:ASP165 4.0 5.9 1.0
N A:ASP165 4.1 5.4 1.0
O A:HOH560 4.6 7.8 1.0
CA A:ASP165 4.7 5.5 1.0
CZ A:TYR195 4.7 9.2 1.0
CE1 A:TYR195 4.7 9.2 1.0
C A:ALA164 5.0 5.3 1.0

Reference:

J.Jakoncic, J.Jakoncic. N/A N/A.
Page generated: Tue Jul 8 16:01:13 2025

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