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Calcium in PDB 5cbh: Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola

Protein crystallography data

The structure of Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola, PDB code: 5cbh 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) 48.25 / 3.37
Space group I 4
Cell size a, b, c (Å), α, β, γ (°) 116.475, 116.475, 128.130, 90.00, 90.00, 90.00
R / Rfree (%) 23.2 / 26.4

Calcium Binding Sites:

The binding sites of Calcium atom in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola (pdb code 5cbh). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola, PDB code: 5cbh:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 5cbh

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Calcium binding site 1 out of 8 in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca201

b:58.9
occ:1.00
 O A:LEU62 2.7 78.4 1.0
N A:GLY65 2.9 75.5 1.0
O E:PRO63 3.0 53.5 1.0
CA A:GLY65 3.2 69.8 1.0
O A:SER59 3.2 57.7 1.0
C A:PRO63 3.7 62.3 1.0
N A:MET64 3.8 72.4 1.0
C A:LEU62 3.9 68.3 1.0
C A:MET64 3.9 81.4 1.0
CA A:PRO63 3.9 57.1 1.0
N A:ASN66 4.0 62.1 1.0
C E:PRO63 4.0 61.1 1.0
C A:GLY65 4.1 58.3 1.0
O A:PRO63 4.1 62.3 1.0
C A:SER59 4.2 59.9 1.0
CA A:MET64 4.3 83.5 1.0
N A:PRO63 4.4 60.1 1.0
O E:MET64 4.4 99.1 1.0
CA E:CA202 4.5 0.3 1.0
CB A:SER59 4.5 74.0 1.0
CB E:PRO63 4.5 78.4 1.0
CA A:SER59 4.5 68.0 1.0
CA E:PRO63 4.7 77.2 1.0
CB A:MET64 4.8 90.0 1.0
O A:MET64 4.8 78.5 1.0
C E:MET64 4.9 96.7 1.0
OD1 A:ASN66 5.0 71.0 1.0

Calcium binding site 2 out of 8 in 5cbh

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Calcium binding site 2 out of 8 in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca202

b:84.7
occ:1.00
 O B:SER59 2.5 42.5 1.0
O A:PRO63 2.6 62.3 1.0
O B:LEU62 2.9 59.2 1.0
N B:GLY65 3.3 77.4 1.0
O B:PRO63 3.4 0.4 1.0
C B:PRO63 3.5 0.2 1.0
CA B:GLY65 3.6 74.5 1.0
C B:SER59 3.6 46.8 1.0
C A:PRO63 3.6 62.3 1.0
CA B:PRO63 3.8 83.8 1.0
C B:LEU62 4.0 60.0 1.0
N B:MET64 4.1 98.5 1.0
CB A:PRO63 4.1 53.7 1.0
CA A:PRO63 4.1 57.1 1.0
C B:MET64 4.3 95.5 1.0
CA B:SER59 4.3 55.7 1.0
N B:PRO63 4.5 66.2 1.0
O A:MET64 4.5 78.5 1.0
C B:GLY65 4.5 76.7 1.0
N B:VAL60 4.6 48.7 1.0
N B:ASN66 4.7 90.2 1.0
CB B:SER59 4.7 57.3 1.0
C A:MET64 4.7 81.4 1.0
CA B:MET64 4.7 88.4 1.0
CA E:CA202 4.7 0.3 1.0
N A:MET64 4.8 72.4 1.0
CA B:VAL60 4.8 51.8 1.0
OD1 B:ASN66 5.0 97.1 1.0
C B:VAL60 5.0 52.5 1.0

Calcium binding site 3 out of 8 in 5cbh

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Calcium binding site 3 out of 8 in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca201

b:67.0
occ:1.00
 O D:SER59 2.2 53.7 1.0
O D:LEU62 2.3 62.4 1.0
O B:PRO63 2.7 0.4 1.0
N D:GLY65 3.5 75.1 1.0
C B:PRO63 3.5 0.2 1.0
C D:SER59 3.5 59.3 1.0
N D:MET64 3.5 57.9 1.0
C D:LEU62 3.5 71.2 1.0
C D:PRO63 3.6 64.3 1.0
CB B:PRO63 3.8 87.5 1.0
CA D:PRO63 3.8 72.4 1.0
O B:MET64 4.0 0.8 1.0
O D:PRO63 4.1 62.6 1.0
N D:PRO63 4.1 75.1 1.0
CA D:GLY65 4.2 73.6 1.0
CA B:PRO63 4.2 83.8 1.0
CA E:CA202 4.2 0.3 1.0
C D:MET64 4.2 70.2 1.0
N B:MET64 4.3 98.5 1.0
CA D:MET64 4.3 57.5 1.0
C B:MET64 4.3 95.5 1.0
CA D:SER59 4.4 53.9 1.0
N D:VAL60 4.4 66.2 1.0
CA B:MET64 4.4 88.4 1.0
CA D:VAL60 4.5 74.9 1.0
CB D:MET64 4.6 63.7 1.0
CG B:PRO63 4.6 77.2 1.0
CA D:LEU62 4.7 75.9 1.0
N D:LEU62 4.8 87.1 1.0
CB D:SER59 4.8 61.4 1.0
C D:VAL60 5.0 81.3 1.0

Calcium binding site 4 out of 8 in 5cbh

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Calcium binding site 4 out of 8 in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca201

b:75.6
occ:1.00
 O E:SER59 2.3 82.8 1.0
O D:PRO63 2.7 62.6 1.0
O E:LEU62 3.0 95.7 1.0
N E:GLY65 3.1 92.1 1.0
CA E:GLY65 3.4 79.9 1.0
C E:SER59 3.4 67.1 1.0
O D:MET64 3.5 65.5 1.0
C E:PRO63 3.9 61.1 1.0
C D:PRO63 4.0 64.3 1.0
N E:MET64 4.0 60.1 1.0
CA E:SER59 4.0 64.7 1.0
O E:PRO63 4.0 53.5 1.0
C E:MET64 4.1 96.7 1.0
C E:LEU62 4.1 95.3 1.0
C D:MET64 4.2 70.2 1.0
CA E:CA202 4.2 0.3 1.0
CB E:SER59 4.2 59.5 1.0
N E:ASN66 4.2 76.6 1.0
C E:GLY65 4.3 83.7 1.0
CA E:PRO63 4.4 77.2 1.0
CA E:MET64 4.4 75.5 1.0
N E:VAL60 4.5 58.9 1.0
OG E:SER59 4.5 50.3 1.0
OD1 E:ASN66 4.5 58.7 1.0
CB E:MET64 4.7 78.3 1.0
N E:PRO63 4.8 88.2 1.0
N D:GLY65 4.8 75.1 1.0
CA E:VAL60 4.8 72.8 1.0
N D:MET64 4.8 57.9 1.0
CA D:MET64 4.8 57.5 1.0
CA D:PRO63 4.9 72.4 1.0
CB D:PRO63 4.9 72.4 1.0

Calcium binding site 5 out of 8 in 5cbh

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Calcium binding site 5 out of 8 in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca202

b:0.3
occ:1.00
 CA E:PRO63 3.6 77.2 1.0
O D:PRO63 3.6 62.6 1.0
O E:PRO63 3.7 53.5 1.0
O B:PRO63 3.9 0.4 1.0
C E:PRO63 4.0 61.1 1.0
CA D:PRO63 4.0 72.4 1.0
C D:PRO63 4.1 64.3 1.0
CA E:CA201 4.2 75.6 1.0
CA D:CA201 4.2 67.0 1.0
CB E:PRO63 4.3 78.4 1.0
CB B:PRO63 4.3 87.5 1.0
CA B:PRO63 4.3 83.8 1.0
O E:LEU62 4.5 95.7 1.0
CA A:CA201 4.5 58.9 1.0
C B:PRO63 4.6 0.2 1.0
N E:PRO63 4.6 88.2 1.0
CB D:PRO63 4.6 72.4 1.0
CA A:PRO63 4.6 57.1 1.0
CA A:CA202 4.7 84.7 1.0
C E:LEU62 5.0 95.3 1.0

Calcium binding site 6 out of 8 in 5cbh

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Calcium binding site 6 out of 8 in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca203

b:59.1
occ:1.00
 OD1 E:ASN66 3.7 58.7 1.0
OD1 A:ASN66 4.1 71.0 1.0
CA E:GLY65 4.2 79.9 1.0
O E:ASN66 4.7 0.0 1.0
CG E:ASN66 4.7 63.7 1.0
N E:ASN66 4.7 76.6 1.0
CA D:GLY65 4.8 73.6 1.0
C E:GLY65 4.8 83.7 1.0

Calcium binding site 7 out of 8 in 5cbh

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Calcium binding site 7 out of 8 in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca201

b:55.4
occ:0.25
 CA F:CA202 4.1 60.3 0.2
O F:HOH301 4.6 8.8 0.2
O F:GLY67 4.9 71.1 1.0

Calcium binding site 8 out of 8 in 5cbh

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Calcium binding site 8 out of 8 in the Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Structural and Functional Characterization of A Calcium-Activated Cation Channel From Tsukamurella Paurometabola within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca202

b:60.3
occ:0.25
 O F:HOH301 3.4 8.8 0.2
CA F:CA201 4.1 55.4 0.2

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: Wed Jul 9 04:33:04 2025

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