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Calcium in PDB 6z7p: Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide

Calcium Binding Sites:

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 22;

Binding sites:

The binding sites of Calcium atom in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide (pdb code 6z7p). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 22 binding sites of Calcium where determined in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide, PDB code: 6z7p:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 22 in 6z7p

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Calcium binding site 1 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


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Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9001

b:0.0
occ:1.00
 OE2 A:GLU317 2.2 0.0 1.0
O A:GLY315 2.3 0.0 1.0
OD2 A:ASP294 2.6 0.0 1.0
O A:GLY290 2.6 0.0 1.0
O A:ALA291 2.8 0.0 1.0
CD A:GLU317 3.0 0.0 1.0
OE1 A:GLU317 3.0 0.0 1.0
C A:ALA291 3.3 0.0 1.0
C A:GLY290 3.4 0.0 1.0
C A:GLY315 3.4 0.0 1.0
CG A:ASP294 3.5 0.0 1.0
CB A:ASP294 3.8 0.0 1.0
N A:GLY292 3.9 0.0 1.0
N A:GLY290 4.0 0.0 1.0
CA A:GLY292 4.0 0.0 1.0
N A:ALA291 4.0 0.0 1.0
CA A:ALA291 4.1 0.0 1.0
C A:GLY289 4.1 0.0 1.0
CA A:GLY315 4.2 0.0 1.0
CA A:GLY289 4.3 0.0 1.0
CA A:GLY290 4.3 0.0 1.0
CG A:GLU317 4.5 0.0 1.0
N A:ILE316 4.5 0.0 1.0
OD1 A:ASP294 4.5 0.0 1.0
CA A:ILE316 4.7 0.0 1.0
O A:GLY289 4.7 0.0 1.0
N A:ASP294 4.8 0.0 1.0
N A:THR293 4.9 0.0 1.0
C A:GLY292 4.9 0.0 1.0
CA A:ASP294 5.0 0.0 1.0
CA A:CA9002 5.0 0.0 1.0

Calcium binding site 2 out of 22 in 6z7p

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Calcium binding site 2 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9002

b:0.0
occ:1.00
 O A:GLY289 2.4 0.0 1.0
O A:ASN266 2.7 0.0 1.0
OD2 A:ASP268 2.7 0.0 1.0
OD1 A:ASP294 2.7 0.0 1.0
N A:ASN266 2.8 0.0 1.0
OD1 A:ASP268 2.9 0.0 1.0
OD2 A:ASP294 3.0 0.0 1.0
N A:ALA265 3.0 0.0 1.0
CG A:ASP268 3.1 0.0 1.0
CG A:ASP294 3.3 0.0 1.0
CA A:ALA265 3.3 0.0 1.0
C A:GLY289 3.5 0.0 1.0
O A:ALA291 3.5 0.0 1.0
C A:ALA265 3.5 0.0 1.0
C A:ASN266 3.6 0.0 1.0
N A:ALA291 3.6 0.0 1.0
N A:THR264 3.7 0.0 1.0
CA A:ASN266 3.8 0.0 1.0
C A:GLY290 4.0 0.0 1.0
CA A:GLY290 4.0 0.0 1.0
C A:THR264 4.1 0.0 1.0
N A:GLY290 4.2 0.0 1.0
C A:GLY263 4.2 0.0 1.0
C A:ALA291 4.3 0.0 1.0
N A:ASP268 4.3 0.0 1.0
CA A:GLY263 4.3 0.0 1.0
CA A:ALA291 4.4 0.0 1.0
CA A:THR264 4.4 0.0 1.0
OG1 A:THR264 4.4 0.0 1.0
CB A:ASP268 4.5 0.0 1.0
CA A:GLY289 4.5 0.0 1.0
CB A:ASN266 4.7 0.0 1.0
O A:ALA265 4.7 0.0 1.0
CB A:ALA265 4.8 0.0 1.0
CB A:ASP294 4.8 0.0 1.0
O A:GLY290 4.8 0.0 1.0
N A:ASN267 4.8 0.0 1.0
CB A:ALA291 4.9 0.0 1.0
CA A:ASP268 4.9 0.0 1.0
CA A:CA9001 5.0 0.0 1.0

Calcium binding site 3 out of 22 in 6z7p

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Calcium binding site 3 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9003

b:0.0
occ:1.00
 OD2 A:ASP259 2.1 0.0 1.0
O A:THR255 2.5 0.0 1.0
OD1 A:ASP285 2.5 0.0 1.0
O A:GLY257 2.5 0.0 1.0
OG1 A:THR282 2.6 0.0 1.0
O A:THR280 2.6 0.0 1.0
OD2 A:ASP285 2.7 0.0 1.0
CG A:ASP285 2.9 0.0 1.0
CG A:ASP259 3.3 0.0 1.0
C A:GLY257 3.5 0.0 1.0
C A:THR255 3.6 0.0 1.0
C A:THR280 3.7 0.0 1.0
N A:GLY257 3.9 0.0 1.0
N A:THR255 4.0 0.0 1.0
CB A:THR282 4.0 0.0 1.0
OD1 A:ASP259 4.0 0.0 1.0
N A:THR282 4.1 0.0 1.0
N A:ASP259 4.1 0.0 1.0
CA A:GLY257 4.2 0.0 1.0
CB A:ASP259 4.2 0.0 1.0
C A:THR256 4.3 0.0 1.0
N A:THR258 4.4 0.0 1.0
OG1 A:THR255 4.4 0.0 1.0
CA A:THR255 4.4 0.0 1.0
CD2 A:LEU254 4.4 0.0 1.0
CB A:ASP285 4.4 0.0 1.0
CA A:THR258 4.5 0.0 1.0
CB A:LEU254 4.5 0.0 1.0
CA A:THR280 4.5 0.0 1.0
CG2 A:THR282 4.6 0.0 1.0
CA A:THR282 4.6 0.0 1.0
N A:THR256 4.6 0.0 1.0
CG A:LEU254 4.6 0.0 1.0
CA A:THR256 4.6 0.0 1.0
N A:LEU281 4.6 0.0 1.0
CA A:LEU281 4.7 0.0 1.0
C A:THR258 4.7 0.0 1.0
C A:LEU281 4.8 0.0 1.0
C A:LEU254 4.8 0.0 1.0
O A:THR282 4.8 0.0 1.0
CB A:THR280 4.8 0.0 1.0
O A:THR256 4.8 0.0 1.0
CA A:ASP259 4.8 0.0 1.0
CA A:LEU254 5.0 0.0 1.0
C A:THR282 5.0 0.0 1.0

Calcium binding site 4 out of 22 in 6z7p

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Calcium binding site 4 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9004

b:0.0
occ:1.00
 O A:LEU532 2.3 0.0 1.0
OD1 A:ASP562 2.4 0.0 1.0
OD2 A:ASP562 2.8 0.0 1.0
CG A:ASP562 3.0 0.0 1.0
C A:LEU532 3.5 0.0 1.0
CA A:THR533 4.2 0.0 1.0
N A:THR533 4.3 0.0 1.0
C A:ALA531 4.4 0.0 1.0
O A:ALA531 4.4 0.0 1.0
OE2 A:GLU558 4.4 0.0 1.0
O A:THR533 4.5 0.0 1.0
CB A:ASP562 4.5 0.0 1.0
N A:LEU532 4.5 0.0 1.0
CA A:LEU532 4.5 0.0 1.0
C A:THR533 4.6 0.0 1.0
O A:GLY530 4.6 0.0 1.0
O A:ALA534 4.7 0.0 1.0
CA A:ALA531 4.8 0.0 1.0
CB A:LEU532 5.0 0.0 1.0

Calcium binding site 5 out of 22 in 6z7p

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Calcium binding site 5 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9005

b:0.0
occ:1.00
 O A:ALA559 2.3 0.0 1.0
OD1 A:ASP586 2.7 0.0 1.0
O A:ASP562 2.9 0.0 1.0
OD2 A:ASP586 2.9 0.0 1.0
CG A:ASP586 3.2 0.0 1.0
C A:ALA559 3.6 0.0 1.0
O A:ALA560 3.6 0.0 1.0
C A:ASP562 4.0 0.0 1.0
C A:ALA560 4.2 0.0 1.0
N A:ASP562 4.3 0.0 1.0
CA A:ALA559 4.5 0.0 1.0
N A:ALA560 4.6 0.0 1.0
CA A:ASP562 4.8 0.0 1.0
C A:ALA561 4.8 0.0 1.0
CB A:ASP586 4.8 0.0 1.0
CA A:ALA560 4.8 0.0 1.0
N A:ALA561 4.8 0.0 1.0

Calcium binding site 6 out of 22 in 6z7p

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Calcium binding site 6 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9006

b:0.0
occ:1.00
 OD1 A:ASP656 2.3 0.0 1.0
O A:ALA653 2.4 0.0 1.0
OD2 A:ASP638 2.4 0.0 1.0
O A:GLY634 2.4 0.0 1.0
O A:MET651 2.5 0.0 1.0
OD2 A:ASP656 2.6 0.0 1.0
O A:GLY636 2.8 0.0 1.0
CG A:ASP656 2.8 0.0 1.0
CG A:ASP638 3.4 0.0 1.0
C A:ALA653 3.6 0.0 1.0
C A:GLY634 3.6 0.0 1.0
C A:MET651 3.6 0.0 1.0
C A:GLY652 3.8 0.0 1.0
C A:GLY636 3.9 0.0 1.0
O A:ALA635 3.9 0.0 1.0
N A:ALA653 4.0 0.0 1.0
C A:ALA635 4.0 0.0 1.0
N A:GLY634 4.0 0.0 1.0
O A:GLY652 4.0 0.0 1.0
N A:ASP638 4.1 0.0 1.0
CB A:ASP638 4.1 0.0 1.0
CA A:GLY652 4.1 0.0 1.0
N A:GLY636 4.2 0.0 1.0
OD1 A:ASP638 4.3 0.0 1.0
N A:GLY652 4.3 0.0 1.0
CB A:ASP656 4.3 0.0 1.0
O A:GLY654 4.4 0.0 1.0
CA A:CA9007 4.4 0.0 1.0
CA A:ALA653 4.4 0.0 1.0
CA A:ALA635 4.4 0.0 1.0
N A:ALA635 4.5 0.0 1.0
CA A:GLY634 4.5 0.0 1.0
N A:GLY654 4.6 0.0 1.0
C A:GLY633 4.6 0.0 1.0
CA A:GLY633 4.6 0.0 1.0
CA A:GLY636 4.6 0.0 1.0
C A:GLY654 4.7 0.0 1.0
CA A:GLY654 4.7 0.0 1.0
CA A:ASP638 4.7 0.0 1.0
CA A:MET651 4.8 0.0 1.0
N A:ALA637 4.9 0.0 1.0

Calcium binding site 7 out of 22 in 6z7p

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Calcium binding site 7 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9007

b:0.0
occ:1.00
 O A:ASP675 2.2 0.0 1.0
O A:GLY652 2.4 0.0 1.0
OD2 A:ASP656 2.4 0.0 1.0
OD1 A:ASP678 2.5 0.0 1.0
O A:GLY654 2.6 0.0 1.0
O A:GLY673 2.6 0.0 1.0
O A:ALA653 3.2 0.0 1.0
C A:ALA653 3.3 0.0 1.0
CG A:ASP678 3.3 0.0 1.0
C A:ASP675 3.4 0.0 1.0
OD2 A:ASP678 3.5 0.0 1.0
C A:GLY652 3.5 0.0 1.0
CG A:ASP656 3.6 0.0 1.0
CA A:ALA653 3.7 0.0 1.0
C A:GLY654 3.7 0.0 1.0
N A:GLY654 3.7 0.0 1.0
C A:GLY674 3.8 0.0 1.0
C A:GLY673 3.8 0.0 1.0
N A:ASP675 3.9 0.0 1.0
O A:GLY674 4.0 0.0 1.0
N A:ALA653 4.0 0.0 1.0
CB A:ASP656 4.2 0.0 1.0
CA A:GLY674 4.2 0.0 1.0
CA A:ASP675 4.2 0.0 1.0
CA A:GLY654 4.3 0.0 1.0
O A:MET651 4.4 0.0 1.0
CA A:CA9006 4.4 0.0 1.0
N A:GLY676 4.4 0.0 1.0
N A:ASP656 4.4 0.0 1.0
N A:GLY674 4.5 0.0 1.0
OD1 A:ASP656 4.6 0.0 1.0
C A:MET651 4.6 0.0 1.0
CA A:GLY676 4.7 0.0 1.0
CB A:ASP678 4.7 0.0 1.0
CA A:GLY652 4.7 0.0 1.0
N A:GLY652 4.7 0.0 1.0
CB A:MET651 4.8 0.0 1.0
N A:ASP655 4.8 0.0 1.0
C A:GLY676 4.9 0.0 1.0
O A:GLY676 4.9 0.0 1.0
CA A:GLY673 5.0 0.0 1.0

Calcium binding site 8 out of 22 in 6z7p

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Calcium binding site 8 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9008

b:0.0
occ:1.00
 O A:GLY674 2.4 0.0 1.0
O A:GLY676 2.4 0.0 1.0
OE2 A:GLU699 2.5 0.0 1.0
O A:GLY697 2.7 0.0 1.0
OD2 A:ASP678 2.8 0.0 1.0
OE1 A:GLU699 3.0 0.0 1.0
CD A:GLU699 3.1 0.0 1.0
N A:GLY676 3.6 0.0 1.0
C A:GLY674 3.6 0.0 1.0
C A:ASP675 3.6 0.0 1.0
C A:GLY676 3.6 0.0 1.0
C A:GLY697 3.7 0.0 1.0
CA A:ASP675 3.8 0.0 1.0
CG A:ASP678 4.0 0.0 1.0
O A:ASP675 4.1 0.0 1.0
CA A:GLY697 4.2 0.0 1.0
N A:ASP675 4.2 0.0 1.0
CA A:GLY676 4.2 0.0 1.0
CG A:GLU699 4.6 0.0 1.0
O A:GLY673 4.7 0.0 1.0
N A:THR677 4.7 0.0 1.0
CA A:GLY674 4.8 0.0 1.0
C A:GLY673 4.8 0.0 1.0
N A:ASP678 4.8 0.0 1.0
N A:PHE698 4.8 0.0 1.0
N A:GLY674 4.8 0.0 1.0
OD1 A:ASP678 4.8 0.0 1.0
CB A:ASP678 4.9 0.0 1.0
CA A:THR677 5.0 0.0 1.0

Calcium binding site 9 out of 22 in 6z7p

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Calcium binding site 9 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9009

b:0.0
occ:1.00
 O A:ALA757 2.2 0.0 1.0
O A:GLY759 2.5 0.0 1.0
OD2 A:ASP762 2.6 0.0 1.0
O A:GLY783 2.6 0.0 1.0
OE1 A:GLU785 2.7 0.0 1.0
OE2 A:GLU785 3.2 0.0 1.0
CD A:GLU785 3.3 0.0 1.0
C A:ALA757 3.4 0.0 1.0
C A:GLY783 3.5 0.0 1.0
C A:GLY759 3.7 0.0 1.0
CG A:ASP762 3.7 0.0 1.0
CA A:GLY783 3.9 0.0 1.0
C A:THR758 3.9 0.0 1.0
O A:THR758 4.0 0.0 1.0
N A:GLY759 4.2 0.0 1.0
N A:THR758 4.3 0.0 1.0
CA A:THR758 4.3 0.0 1.0
CB A:ASP762 4.4 0.0 1.0
CA A:ALA757 4.4 0.0 1.0
CA A:GLY759 4.5 0.0 1.0
CB A:ALA757 4.6 0.0 1.0
N A:THR760 4.6 0.0 1.0
OD1 A:ASP762 4.6 0.0 1.0
N A:VAL784 4.7 0.0 1.0
CA A:THR760 4.7 0.0 1.0
CG A:GLU785 4.9 0.0 1.0

Calcium binding site 10 out of 22 in 6z7p

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Calcium binding site 10 out of 22 in the Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Composite Model of the Caulobacter Crescentus S-Layer Bound to the O- Antigen of Lipopolysaccharide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca9010

b:0.0
occ:1.00
 O A:SER771 2.2 0.0 1.0
O A:THR797 2.4 0.0 1.0
OD1 A:ASP793 2.5 0.0 1.0
CD2 A:HIS799 2.6 0.0 1.0
OD2 A:ASP793 2.7 0.0 1.0
OD1 A:ASN795 2.7 0.0 1.0
CG A:ASP793 2.9 0.0 1.0
C A:SER771 3.4 0.0 1.0
CG A:ASN795 3.5 0.0 1.0
NE2 A:HIS799 3.5 0.0 1.0
CG A:HIS799 3.6 0.0 1.0
C A:THR797 3.7 0.0 1.0
ND2 A:ASN795 3.7 0.0 1.0
CB A:HIS799 4.2 0.0 1.0
O A:ASN795 4.3 0.0 1.0
N A:ALA772 4.3 0.0 1.0
CB A:ASP793 4.4 0.0 1.0
C A:ALA798 4.4 0.0 1.0
N A:HIS799 4.4 0.0 1.0
CA A:ALA772 4.4 0.0 1.0
CA A:SER771 4.4 0.0 1.0
OG1 A:THR797 4.4 0.0 1.0
CA A:THR797 4.6 0.0 1.0
N A:ALA798 4.6 0.0 1.0
CE1 A:HIS799 4.6 0.0 1.0
N A:THR797 4.6 0.0 1.0
O A:ALA798 4.6 0.0 1.0
ND1 A:HIS799 4.7 0.0 1.0
CA A:ALA798 4.7 0.0 1.0
CB A:ASN795 4.7 0.0 1.0
C A:ASN795 4.8 0.0 1.0
N A:ASN795 4.8 0.0 1.0
CA A:HIS799 4.9 0.0 1.0
CB A:THR797 5.0 0.0 1.0
CA A:ASN795 5.0 0.0 1.0

Reference:

A.Von Kuegelgen, H.Tang, G.G.Hardy, D.Kureisaite-Ciziene, Y.V.Brun, P.J.Stansfeld, C.V.Robinson, T.A.M.Bharat. In Situ Structure of An Intact Lipopolysaccharide-Bound Bacterial Surface Layer. Cell V. 180 348 2020.
ISSN: ISSN 1097-4172
PubMed: 31883796
DOI: 10.1016/J.CELL.2019.12.006
Page generated: Thu Jul 18 22:37:10 2024

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