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Calcium in PDB 8olc: SA11 Rotavirus Trypsinized Triple Layered Particle

Other elements in 8olc:

The structure of SA11 Rotavirus Trypsinized Triple Layered Particle also contains other interesting chemical elements:

Zinc (Zn) 5 atoms

Calcium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 26;

Binding sites:

The binding sites of Calcium atom in the SA11 Rotavirus Trypsinized Triple Layered Particle (pdb code 8olc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 26 binding sites of Calcium where determined in the SA11 Rotavirus Trypsinized Triple Layered Particle, PDB code: 8olc:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 26 in 8olc

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Calcium binding site 1 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
c:Ca401

b:30.0
occ:1.00
 OD2 d:ASP301 2.3 97.7 1.0
OE1 c:GLN177 2.3 97.4 1.0
OD1 c:ASP228 2.4 97.0 1.0
O c:VAL229 2.8 96.0 1.0
CG c:ASP228 3.1 97.0 1.0
OD2 c:ASP228 3.1 97.0 1.0
CG d:ASP301 3.4 97.7 1.0
CD c:GLN177 3.5 97.4 1.0
OD1 d:ASP301 3.9 97.7 1.0
O c:ASP179 4.0 99.4 1.0
C c:VAL229 4.0 96.0 1.0
N c:VAL229 4.3 96.0 1.0
NE2 c:GLN177 4.3 97.4 1.0
CB c:GLN177 4.4 97.4 1.0
CB c:ASP228 4.5 97.0 1.0
O c:ASN182 4.5 96.2 1.0
CB d:ASP301 4.5 97.7 1.0
CG c:GLN177 4.6 97.4 1.0
C c:ASP228 4.7 97.0 1.0
OH d:TYR302 4.8 96.5 1.0
CA c:ASP228 4.8 97.0 1.0
N c:ASP231 4.8 103.5 1.0
C c:VAL230 4.8 97.9 1.0
CA c:VAL229 4.8 96.0 1.0
C c:ASP179 4.9 99.4 1.0
CA c:ASP231 4.9 103.5 1.0
N c:VAL230 4.9 97.9 1.0
CA c:GLU180 4.9 98.9 1.0
CA c:VAL230 5.0 97.9 1.0

Calcium binding site 2 out of 26 in 8olc

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Calcium binding site 2 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Ca402

b:30.0
occ:1.00
 OD2 d:ASP95 1.9 105.8 1.0
O c:GLY206 2.6 104.9 1.0
CG d:ASP95 2.7 105.8 1.0
O c:THR214 2.7 108.4 1.0
OD1 d:ASP95 3.1 105.8 1.0
C c:GLY206 3.8 104.9 1.0
C c:THR214 3.8 108.4 1.0
CB d:ASP95 3.8 105.8 1.0
OE1 c:GLU216 4.1 104.3 1.0
CA c:THR214 4.3 108.4 1.0
CA c:CYS207 4.3 107.3 1.0
CB c:CYS207 4.4 107.3 1.0
CB c:THR214 4.4 108.4 1.0
N c:CYS207 4.5 107.3 1.0
CA c:GLY206 4.8 104.9 1.0
CA d:ASP95 4.9 105.8 1.0
N c:PHE215 4.9 105.8 1.0

Calcium binding site 3 out of 26 in 8olc

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Calcium binding site 3 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Ca403

b:30.0
occ:1.00
 OE2 d:GLU216 2.2 101.2 1.0
O d:GLY206 2.3 102.1 1.0
O d:THR214 3.0 100.5 1.0
CD d:GLU216 3.2 101.2 1.0
C d:GLY206 3.5 102.1 1.0
CG d:GLU216 3.9 101.2 1.0
C d:THR214 4.1 100.5 1.0
OD2 e:ASP95 4.2 104.9 1.0
OE1 d:GLU216 4.2 101.2 1.0
CA d:GLY206 4.3 102.1 1.0
N d:CYS207 4.4 100.3 1.0
CA d:CYS207 4.4 100.3 1.0
CG e:ASP95 4.5 104.9 1.0
CB d:CYS207 4.6 100.3 1.0
CA d:THR214 4.6 100.5 1.0
CB d:THR214 4.7 100.5 1.0
O d:PHE215 4.8 99.9 1.0
OD1 e:ASP95 4.8 104.9 1.0
C d:PHE215 5.0 99.9 1.0

Calcium binding site 4 out of 26 in 8olc

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Calcium binding site 4 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Ca404

b:30.0
occ:1.00
 OD1 d:ASP231 1.8 93.9 1.0
O d:VAL229 2.5 91.0 1.0
CG d:ASP231 2.5 93.9 1.0
OE1 d:GLN177 2.7 91.9 1.0
OD2 d:ASP231 2.7 93.9 1.0
OD1 d:ASP228 2.8 93.0 1.0
OD2 e:ASP301 3.3 92.1 1.0
C d:VAL229 3.7 91.0 1.0
O d:ASP179 3.8 97.0 1.0
CB d:ASP231 3.9 93.9 1.0
CD d:GLN177 3.9 91.9 1.0
CG d:ASP228 4.0 93.0 1.0
N d:VAL229 4.1 91.0 1.0
N d:ASP231 4.2 93.9 1.0
CA d:ASP231 4.3 93.9 1.0
CG e:ASP301 4.4 92.1 1.0
CB d:GLN177 4.4 91.9 1.0
C d:VAL230 4.5 91.5 1.0
CA d:VAL229 4.6 91.0 1.0
OD2 d:ASP228 4.6 93.0 1.0
N d:VAL230 4.6 91.5 1.0
OH e:TYR302 4.6 91.3 1.0
CA d:GLU180 4.7 97.3 1.0
C d:ASP179 4.7 97.0 1.0
CA d:VAL230 4.7 91.5 1.0
CB e:ASP301 4.7 92.1 1.0
CG d:GLN177 4.8 91.9 1.0
NE2 d:GLN177 4.8 91.9 1.0
C d:ASP228 4.9 93.0 1.0
CE1 e:TYR302 4.9 91.3 1.0
OD1 d:ASN182 5.0 92.8 1.0
O d:ASN182 5.0 92.8 1.0

Calcium binding site 5 out of 26 in 8olc

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Calcium binding site 5 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
e:Ca402

b:30.0
occ:1.00
 OD1 e:ASP231 2.1 97.2 1.0
OE1 e:GLN177 2.6 94.8 1.0
O e:VAL229 2.7 94.9 1.0
OD1 e:ASP228 2.7 95.4 1.0
OD2 c:ASP301 2.7 94.8 1.0
CG e:ASP231 2.7 97.2 1.0
OD2 e:ASP231 2.8 97.2 1.0
CG e:ASP228 3.8 95.4 1.0
CG c:ASP301 3.8 94.8 1.0
CD e:GLN177 3.8 94.8 1.0
O e:ASP179 3.9 98.3 1.0
C e:VAL229 3.9 94.9 1.0
CB e:ASP231 4.2 97.2 1.0
N e:VAL229 4.2 94.9 1.0
OD1 c:ASP301 4.3 94.8 1.0
OD2 e:ASP228 4.3 95.4 1.0
N e:ASP231 4.4 97.2 1.0
CB e:GLN177 4.4 94.8 1.0
C e:VAL230 4.5 94.5 1.0
CA e:ASP231 4.6 97.2 1.0
C e:ASP179 4.6 98.3 1.0
NE2 e:GLN177 4.7 94.8 1.0
O e:ASN182 4.7 96.5 1.0
CA e:VAL229 4.8 94.9 1.0
CG e:GLN177 4.8 94.8 1.0
CA e:GLU180 4.8 98.8 1.0
CA e:VAL230 4.8 94.5 1.0
N e:VAL230 4.8 94.5 1.0
O e:VAL230 4.9 94.5 1.0
CB c:ASP301 5.0 94.8 1.0

Calcium binding site 6 out of 26 in 8olc

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Calcium binding site 6 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
e:Ca403

b:30.0
occ:1.00
 O e:THR214 2.8 105.4 1.0
O e:GLY206 3.0 102.5 1.0
OE2 e:GLU216 3.4 101.5 1.0
OD2 c:ASP95 3.6 99.4 1.0
C e:THR214 3.8 105.4 1.0
CD e:GLU216 4.0 101.5 1.0
CG c:ASP95 4.0 99.4 1.0
C e:GLY206 4.2 102.5 1.0
CA e:THR214 4.3 105.4 1.0
CG e:GLU216 4.3 101.5 1.0
OD1 c:ASP95 4.3 99.4 1.0
CB e:THR214 4.4 105.4 1.0
O e:PHE215 4.7 103.5 1.0
CA e:CYS207 4.8 103.7 1.0
CB e:CYS207 4.8 103.7 1.0
OE1 e:GLU216 4.8 101.5 1.0
C e:PHE215 4.8 103.5 1.0
CB c:ASP95 4.8 99.4 1.0
N e:CYS207 4.9 103.7 1.0
N e:PHE215 4.9 103.5 1.0

Calcium binding site 7 out of 26 in 8olc

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Calcium binding site 7 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
f:Ca402

b:30.0
occ:1.00
 O f:THR214 2.1 113.4 1.0
OE2 f:GLU216 2.6 108.2 1.0
O f:GLY206 3.0 112.2 1.0
CG f:GLU216 3.2 108.2 1.0
C f:THR214 3.3 113.4 1.0
CD f:GLU216 3.3 108.2 1.0
CA f:THR214 4.0 113.4 1.0
CB f:CYS207 4.1 114.6 1.0
C f:GLY206 4.1 112.2 1.0
CA f:CYS207 4.2 114.6 1.0
CB f:THR214 4.3 113.4 1.0
N f:PHE215 4.4 109.2 1.0
C f:PHE215 4.4 109.2 1.0
N f:GLU216 4.5 108.2 1.0
CB f:GLU216 4.5 108.2 1.0
OE1 f:GLU216 4.5 108.2 1.0
CA f:PHE215 4.6 109.2 1.0
N f:CYS207 4.7 114.6 1.0
O f:PHE215 4.7 109.2 1.0
OD2 g:ASP95 4.8 109.3 1.0
CA f:GLU216 4.9 108.2 1.0

Calcium binding site 8 out of 26 in 8olc

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Calcium binding site 8 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
f:Ca403

b:30.0
occ:1.00
 OD2 g:ASP301 2.1 97.1 1.0
OD1 f:ASP231 2.1 100.3 1.0
OD2 f:ASP231 2.5 100.3 1.0
CG f:ASP231 2.5 100.3 1.0
OD1 f:ASP228 2.8 97.2 1.0
CG g:ASP301 3.1 97.1 1.0
O f:VAL229 3.3 97.9 1.0
OE1 f:GLN177 3.4 97.7 1.0
OD1 g:ASP301 3.4 97.1 1.0
CB f:ASP231 3.9 100.3 1.0
CG f:ASP228 3.9 97.2 1.0
O f:ASP179 4.0 102.5 1.0
N f:ASP231 4.1 100.3 1.0
OD2 f:ASP228 4.3 97.2 1.0
CB g:ASP301 4.4 97.1 1.0
CA f:ASP231 4.4 100.3 1.0
C f:VAL229 4.5 97.9 1.0
CD f:GLN177 4.6 97.7 1.0
CA f:GLU180 4.6 102.2 1.0
C f:VAL230 4.6 98.0 1.0
OH g:TYR302 4.8 96.4 1.0
O f:GLU180 4.8 102.2 1.0
CA f:VAL230 4.8 98.0 1.0
C f:ASP179 4.9 102.5 1.0
CB f:GLN177 5.0 97.7 1.0

Calcium binding site 9 out of 26 in 8olc

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Calcium binding site 9 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
g:Ca401

b:30.0
occ:1.00
 OE2 g:GLU216 2.2 104.5 1.0
O g:THR214 2.7 104.8 1.0
O g:GLY206 2.7 103.5 1.0
CD g:GLU216 3.2 104.5 1.0
CG g:GLU216 3.7 104.5 1.0
C g:THR214 3.8 104.8 1.0
C g:GLY206 3.9 103.5 1.0
OD2 h:ASP95 4.0 107.0 1.0
OE1 g:GLU216 4.2 104.5 1.0
CA g:THR214 4.4 104.8 1.0
CG h:ASP95 4.5 107.0 1.0
CA g:CYS207 4.5 104.3 1.0
CB g:CYS207 4.6 104.3 1.0
CB g:THR214 4.7 104.8 1.0
N g:CYS207 4.7 104.3 1.0
O g:PHE215 4.8 102.7 1.0
C g:PHE215 4.9 102.7 1.0
CA g:GLY206 4.9 103.5 1.0
N g:PHE215 4.9 102.7 1.0
CB h:ASP95 5.0 107.0 1.0

Calcium binding site 10 out of 26 in 8olc

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Calcium binding site 10 out of 26 in the SA11 Rotavirus Trypsinized Triple Layered Particle


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of SA11 Rotavirus Trypsinized Triple Layered Particle within 5.0Å range:
probe atom residue distance (Å) B Occ
g:Ca402

b:30.0
occ:1.00
 OE1 g:GLN177 2.5 93.0 1.0
OD1 g:ASP231 2.6 96.6 1.0
OD1 g:ASP228 2.7 92.1 1.0
O g:VAL229 3.1 91.4 1.0
OD2 h:ASP301 3.1 94.0 1.0
CG g:ASP231 3.5 96.6 1.0
O g:ASP179 3.6 96.3 1.0
OD2 g:ASP231 3.6 96.6 1.0
CD g:GLN177 3.7 93.0 1.0
O g:ASN182 3.8 92.5 1.0
CG g:ASP228 3.8 92.1 1.0
CG h:ASP301 4.2 94.0 1.0
C g:VAL229 4.2 91.4 1.0
CB g:GLN177 4.2 93.0 1.0
OD2 g:ASP228 4.4 92.1 1.0
N g:VAL229 4.4 91.4 1.0
OD1 h:ASP301 4.5 94.0 1.0
NE2 g:GLN177 4.6 93.0 1.0
CG g:GLN177 4.6 93.0 1.0
OH h:TYR302 4.6 94.5 1.0
O g:GLU180 4.6 95.0 1.0
C g:ASP179 4.7 96.3 1.0
NZ g:LYS183 4.8 91.4 1.0
CB g:ASP231 4.9 96.6 1.0
CA g:GLU180 4.9 95.0 1.0
CA g:ASP228 4.9 92.1 1.0
C g:ASN182 4.9 92.5 1.0
CB g:ASP228 4.9 92.1 1.0
N g:ASP231 4.9 96.6 1.0

Reference:

D.Asensio-Cob, C.Perez-Mata, J.Gomez-Blanco, J.Vargas, J.M.Rodriguez, D.Luque. Structural Basis of Rotavirus Spike Proteolytic Activation To Be Published.
Page generated: Thu Oct 31 17:07:38 2024

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