Calcium in PDB 5cbg: Calcium Activated Non-Selective Cation Channel

Protein crystallography data

The structure of Calcium Activated Non-Selective Cation Channel, PDB code: 5cbg was solved by B.Dhakshnamoorthy, A.Rohaim, H.Rui, L.Blachowicz, B.Roux, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.90 / 3.14
Space group I 4
Cell size a, b, c (Å), α, β, γ (°) 115.573, 115.573, 127.487, 90.00, 90.00, 90.00
R / Rfree (%) 23.3 / 29.9

Calcium Binding Sites:

The binding sites of Calcium atom in the Calcium Activated Non-Selective Cation Channel (pdb code 5cbg). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the Calcium Activated Non-Selective Cation Channel, PDB code: 5cbg:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 5cbg

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Calcium binding site 1 out of 8 in the Calcium Activated Non-Selective Cation Channel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Calcium Activated Non-Selective Cation Channel within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca201

b:74.8
occ:1.00
 O A:LEU62 2.3 68.1 1.0
O A:SER59 2.5 65.7 1.0
O E:PRO63 2.6 55.6 1.0
N A:GLY65 3.2 55.5 1.0
C A:LEU62 3.5 65.8 1.0
C A:SER59 3.6 66.3 1.0
CA A:GLY65 3.6 47.0 1.0
N A:MET64 3.7 56.9 1.0
C E:PRO63 3.7 51.9 1.0
C A:PRO63 4.0 60.8 1.0
CA A:SER59 4.0 78.3 1.0
CA A:PRO63 4.0 58.9 1.0
CB A:SER59 4.1 82.0 1.0
C A:MET64 4.1 49.4 1.0
O E:MET64 4.2 62.1 1.0
N A:PRO63 4.3 63.2 1.0
CB E:PRO63 4.3 45.1 1.0
N A:ASN66 4.3 46.5 1.0
CA A:MET64 4.3 52.6 1.0
C A:GLY65 4.4 42.8 1.0
CA E:PRO63 4.4 50.4 1.0
C E:MET64 4.6 57.4 1.0
CB A:MET64 4.7 56.5 1.0
CA A:LEU62 4.7 62.7 1.0
O A:PRO63 4.7 67.9 1.0
N E:MET64 4.7 59.3 1.0
N A:VAL60 4.7 63.9 1.0
N A:LEU62 4.7 62.1 1.0
OG A:SER59 4.7 76.2 1.0
CA E:MET64 5.0 52.6 1.0

Calcium binding site 2 out of 8 in 5cbg

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Calcium binding site 2 out of 8 in the Calcium Activated Non-Selective Cation Channel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Calcium Activated Non-Selective Cation Channel within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca201

b:56.2
occ:1.00
 O D:SER59 2.4 45.9 1.0
O D:LEU62 2.5 51.1 1.0
N D:GLY65 3.0 68.8 1.0
O B:PRO63 3.1 56.4 1.0
N D:MET64 3.4 49.3 1.0
C D:SER59 3.6 53.1 1.0
CA D:GLY65 3.7 67.2 1.0
C D:LEU62 3.7 43.9 1.0
C D:PRO63 3.7 46.8 1.0
C B:PRO63 3.8 61.2 1.0
C D:MET64 3.8 55.9 1.0
CA D:PRO63 3.9 41.1 1.0
CB B:PRO63 3.9 53.7 1.0
CA D:MET64 4.0 50.2 1.0
N D:PRO63 4.2 41.5 1.0
O D:PRO63 4.3 57.6 1.0
CB D:MET64 4.3 51.4 1.0
CA D:SER59 4.4 54.5 1.0
CA B:PRO63 4.4 58.9 1.0
O B:MET64 4.4 72.5 1.0
C B:MET64 4.6 66.8 1.0
C D:GLY65 4.6 62.5 1.0
N D:VAL60 4.6 56.9 1.0
N B:MET64 4.6 68.5 1.0
CB D:SER59 4.7 50.0 1.0
O D:MET64 4.8 50.7 1.0
N D:ASN66 4.8 67.9 1.0
CA B:MET64 4.8 67.0 1.0
CA D:LEU62 4.9 44.5 1.0
CA D:VAL60 4.9 59.6 1.0
N D:LEU62 5.0 54.0 1.0

Calcium binding site 3 out of 8 in 5cbg

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Calcium binding site 3 out of 8 in the Calcium Activated Non-Selective Cation Channel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Calcium Activated Non-Selective Cation Channel within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca201

b:68.0
occ:0.25
 CG1 C:VAL92 4.8 61.6 1.0

Calcium binding site 4 out of 8 in 5cbg

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Calcium binding site 4 out of 8 in the Calcium Activated Non-Selective Cation Channel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Calcium Activated Non-Selective Cation Channel within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca201

b:45.2
occ:1.00
 OD1 E:ASN66 3.1 45.7 1.0
CA E:GLY65 3.8 57.2 1.0
N E:ASN66 3.9 41.2 1.0
CG E:ASN66 4.0 41.3 1.0
O E:ASN66 4.1 60.9 1.0
C E:GLY65 4.2 48.5 1.0
OD1 A:ASN66 4.3 44.4 1.0
CA D:GLY65 4.4 67.2 1.0
ND2 E:ASN66 4.7 42.7 1.0
CA E:ASN66 4.8 43.6 1.0
C E:ASN66 4.9 48.2 1.0
N E:GLY65 5.0 60.7 1.0

Calcium binding site 5 out of 8 in 5cbg

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Calcium binding site 5 out of 8 in the Calcium Activated Non-Selective Cation Channel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Calcium Activated Non-Selective Cation Channel within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca201

b:73.7
occ:0.25
 CA F:CA203 3.0 0.5 0.3
CA F:CA202 4.7 90.7 1.0
CA F:GLY65 4.7 60.5 1.0
O F:PRO63 4.9 0.1 1.0

Calcium binding site 6 out of 8 in 5cbg

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Calcium binding site 6 out of 8 in the Calcium Activated Non-Selective Cation Channel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Calcium Activated Non-Selective Cation Channel within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca202

b:90.7
occ:1.00
 O F:SER59 2.2 53.2 1.0
O F:LEU62 2.7 71.2 1.0
N F:GLY65 2.8 63.0 1.0
C F:SER59 3.4 59.7 1.0
N F:MET64 3.5 69.5 1.0
CA F:GLY65 3.5 60.5 1.0
C F:PRO63 3.6 80.3 1.0
C F:MET64 3.8 64.4 1.0
C F:LEU62 3.9 63.4 1.0
O F:PRO63 3.9 0.1 1.0
CA F:MET64 4.0 62.9 1.0
CA F:PRO63 4.1 76.7 1.0
CA F:SER59 4.2 58.5 1.0
C F:GLY65 4.3 53.4 1.0
CB F:MET64 4.4 64.3 1.0
N F:ASN66 4.4 56.5 1.0
N F:VAL60 4.4 64.0 1.0
N F:PRO63 4.5 70.5 1.0
CB F:SER59 4.6 54.4 1.0
CA F:CA203 4.6 0.5 0.3
CA F:VAL60 4.6 68.8 1.0
CA F:CA201 4.7 73.7 0.2
OG F:SER59 4.9 56.1 1.0
O F:MET64 4.9 60.5 1.0
N F:LEU62 4.9 75.7 1.0
CA F:LEU62 5.0 65.2 1.0
C F:VAL60 5.0 75.2 1.0

Calcium binding site 7 out of 8 in 5cbg

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Calcium binding site 7 out of 8 in the Calcium Activated Non-Selective Cation Channel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Calcium Activated Non-Selective Cation Channel within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca203

b:0.5
occ:0.25
 CA F:CA201 3.0 73.7 0.2
O F:PRO63 4.1 0.1 1.0
CA F:PRO63 4.3 76.7 1.0
C F:PRO63 4.6 80.3 1.0
CA F:CA202 4.6 90.7 1.0
CB F:PRO63 4.8 73.1 1.0

Calcium binding site 8 out of 8 in 5cbg

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Calcium binding site 8 out of 8 in the Calcium Activated Non-Selective Cation Channel


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Calcium Activated Non-Selective Cation Channel within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca204

b:61.5
occ:1.00
 CE F:LYS77 3.7 43.7 1.0
O F:PRO71 3.7 61.5 1.0
CG F:LYS77 4.1 41.6 1.0
CD F:LYS77 4.2 41.5 1.0
NZ F:LYS77 4.6 39.9 1.0
OG F:SER70 4.7 60.1 1.0
C F:PRO71 4.9 52.3 1.0

Reference:

B.Dhakshnamoorthy, A.Rohaim, H.Rui, L.Blachowicz, B.Roux. Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola. Nat Commun V. 7 12753 2016.
ISSN: ESSN 2041-1723
PubMed: 27678077
DOI: 10.1038/NCOMMS12753
Page generated: Sat Dec 12 05:19:34 2020

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