Atomistry » Calcium » PDB 3p1o-3pdd » 3p7u
Atomistry »
  Calcium »
    PDB 3p1o-3pdd »
      3p7u »

Calcium in PDB 3p7u: Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy)

Enzymatic activity of Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy)

All present enzymatic activity of Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy):
3.4.24.27;

Protein crystallography data

The structure of Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy), PDB code: 3p7u was solved by D.H.Juers, M.Weik, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.67 / 2.20
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 93.750, 93.750, 128.840, 90.00, 90.00, 120.00
R / Rfree (%) 14.5 / 20

Other elements in 3p7u:

The structure of Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy) also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy) (pdb code 3p7u). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy), PDB code: 3p7u:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 3p7u

Go back to Calcium Binding Sites List in 3p7u
Calcium binding site 1 out of 4 in the Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca317

b:12.5
occ:1.00
 O E:GLU187 2.2 11.2 1.0
OD2 E:ASP138 2.4 15.2 1.0
OD1 E:ASP185 2.4 15.8 1.0
O E:HOH334 2.4 12.7 1.0
OE2 E:GLU190 2.5 12.8 1.0
OE1 E:GLU177 2.5 15.0 1.0
OE1 E:GLU190 2.7 11.0 1.0
OE2 E:GLU177 2.8 16.1 1.0
CD E:GLU190 2.9 14.4 1.0
CD E:GLU177 3.0 14.8 1.0
C E:GLU187 3.4 13.0 1.0
CG E:ASP185 3.4 16.5 1.0
CG E:ASP138 3.5 14.3 1.0
OD2 E:ASP185 3.8 19.3 1.0
CA E:CA318 3.8 24.2 1.0
CB E:ASP138 4.0 10.4 1.0
O E:ASP185 4.1 14.3 1.0
N E:ILE188 4.2 12.2 1.0
CA E:ILE188 4.3 13.5 1.0
N E:GLU187 4.3 13.3 1.0
CA E:GLU187 4.3 13.8 1.0
CG E:GLU190 4.4 13.3 1.0
N E:GLY189 4.4 13.5 1.0
OD1 E:ASP138 4.4 15.8 1.0
CG E:GLU177 4.5 11.9 1.0
O E:HOH338 4.5 17.6 1.0
C E:ASP185 4.6 14.9 1.0
CB E:GLU187 4.7 13.9 1.0
N E:ASP185 4.7 15.7 1.0
CB E:ASP185 4.7 15.3 1.0
C E:ILE188 4.8 13.9 1.0
CB E:GLU177 5.0 11.6 1.0
CA E:ASP185 5.0 15.1 1.0
N E:GLU190 5.0 14.1 1.0

Calcium binding site 2 out of 4 in 3p7u

Go back to Calcium Binding Sites List in 3p7u
Calcium binding site 2 out of 4 in the Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca318

b:24.2
occ:1.00
 O E:HOH393 2.1 25.3 1.0
O E:ASN183 2.3 23.1 1.0
O E:HOH341 2.3 26.5 1.0
OE2 E:GLU190 2.4 12.8 1.0
OE2 E:GLU177 2.5 16.1 1.0
OD2 E:ASP185 2.6 19.3 1.0
CD E:GLU177 3.2 14.8 1.0
CG E:ASP185 3.4 16.5 1.0
CD E:GLU190 3.4 14.4 1.0
C E:ASN183 3.5 23.2 1.0
OE1 E:GLU177 3.7 15.0 1.0
OD1 E:ASP185 3.7 15.8 1.0
CA E:CA317 3.8 12.5 1.0
CG E:GLU190 3.9 13.3 1.0
OD2 E:ASP191 4.0 24.9 1.0
CA E:PRO184 4.1 18.2 1.0
OD1 E:ASP191 4.1 23.0 1.0
CG E:GLU177 4.2 11.9 1.0
N E:ASP185 4.2 15.7 1.0
O E:HOH485 4.3 28.3 1.0
C E:PRO184 4.3 17.0 1.0
O E:LYS182 4.3 28.1 1.0
N E:PRO184 4.3 20.6 1.0
CB E:ASN183 4.3 26.7 1.0
CG E:ASP191 4.4 21.1 1.0
OE1 E:GLU190 4.5 11.0 1.0
CB E:ASP185 4.5 15.3 1.0
CA E:ASN183 4.5 25.5 1.0
O E:PRO184 4.9 16.3 1.0

Calcium binding site 3 out of 4 in 3p7u

Go back to Calcium Binding Sites List in 3p7u
Calcium binding site 3 out of 4 in the Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca319

b:13.3
occ:1.00
 O E:GLN61 2.3 10.1 1.0
OD1 E:ASP57 2.3 10.3 1.0
O E:HOH409 2.4 15.1 1.0
O E:HOH399 2.4 14.9 1.0
OD1 E:ASP59 2.4 20.3 1.0
O E:HOH376 2.4 13.2 1.0
OD2 E:ASP57 2.6 9.2 1.0
CG E:ASP57 2.8 10.8 1.0
C E:GLN61 3.4 11.5 1.0
CG E:ASP59 3.4 17.1 1.0
OD2 E:ASP59 3.8 18.6 1.0
N E:GLN61 4.0 12.0 1.0
O E:HOH401 4.0 16.8 1.0
CA E:GLN61 4.1 13.9 1.0
CB E:ASP57 4.3 10.2 1.0
CB E:GLN61 4.3 13.5 1.0
N E:ASP59 4.3 11.8 1.0
O E:HOH450 4.3 24.4 1.0
O E:HOH344 4.5 10.0 1.0
O E:HOH413 4.5 16.3 1.0
O E:HOH465 4.5 31.4 1.0
N E:PHE62 4.5 10.2 1.0
OD2 E:ASP67 4.7 11.6 1.0
CB E:ASP59 4.7 12.8 1.0
CA E:PHE62 4.8 10.6 1.0
N E:ASN60 4.8 11.6 1.0
N E:ALA58 4.8 10.3 1.0
CA E:ASP59 4.8 12.5 1.0
C E:ASP59 5.0 12.1 1.0

Calcium binding site 4 out of 4 in 3p7u

Go back to Calcium Binding Sites List in 3p7u
Calcium binding site 4 out of 4 in the Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca320

b:20.3
occ:1.00
 O E:ILE197 2.3 31.5 1.0
O E:HOH397 2.3 23.1 1.0
OG1 E:THR194 2.4 23.0 1.0
OD1 E:ASP200 2.4 16.6 1.0
O E:TYR193 2.4 20.8 1.0
O E:HOH342 2.4 19.2 1.0
O E:THR194 2.5 27.0 1.0
C E:THR194 3.3 26.7 1.0
C E:TYR193 3.4 20.6 1.0
CG E:ASP200 3.4 19.9 1.0
C E:ILE197 3.5 32.2 1.0
CB E:THR194 3.5 24.1 1.0
CA E:THR194 3.7 24.7 1.0
OD2 E:ASP200 3.8 20.3 1.0
N E:THR194 4.0 22.8 1.0
N E:ILE197 4.2 33.9 1.0
CA E:ILE197 4.2 32.7 1.0
CB E:ILE197 4.3 33.1 1.0
N E:PRO195 4.4 28.9 1.0
O E:ASP200 4.4 21.8 1.0
O E:HOH500 4.4 39.6 1.0
O E:GLU190 4.5 15.3 1.0
N E:SER198 4.6 31.7 1.0
N E:ASP200 4.6 23.8 1.0
CD2 E:TYR193 4.6 17.2 1.0
O E:HOH481 4.6 30.2 1.0
CA E:TYR193 4.6 19.5 1.0
CG2 E:THR194 4.7 24.8 1.0
CB E:ASP200 4.7 21.4 1.0
CB E:TYR193 4.8 19.6 1.0
CA E:PRO195 4.8 30.5 1.0
CA E:SER198 4.8 31.8 1.0
O E:HOH394 4.8 36.0 1.0
C E:ASP200 4.9 21.9 1.0
C E:SER198 4.9 30.3 1.0
CA E:ASP200 4.9 22.1 1.0
N E:GLY199 5.0 29.1 1.0
CG2 E:ILE197 5.0 31.5 1.0

Reference:

D.H.Juers, M.Weik. Radiation Damage Study of Thermolysin - 160K Structure B (2.4 Mgy) To Be Published.
Page generated: Sat Jul 13 16:37:52 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy