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Calcium in PDB 5e1j: Structure of Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana

Protein crystallography data

The structure of Structure of Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana, PDB code: 5e1j was solved by J.Guo, W.Zeng, Q.Chen, C.Lee, L.Chen, Y.Yang, Y.Jiang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.71 / 3.31
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 88.430, 158.850, 217.240, 90.00, 90.00, 90.00
R / Rfree (%) 32.5 / 33.2

Other elements in 5e1j:

The structure of Structure of Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana also contains other interesting chemical elements:

Barium (Ba) 9 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana (pdb code 5e1j). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Structure of Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana, PDB code: 5e1j:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 5e1j

Go back to Calcium Binding Sites List in 5e1j
Calcium binding site 1 out of 2 in the Structure of Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca809

b:0.3
occ:0.97
ND2 A:ASN339 2.3 0.6 1.0
OD1 A:ASP337 2.4 0.1 1.0
OD2 A:ASP337 2.4 0.1 1.0
O A:GLU341 2.4 0.2 1.0
OD1 A:ASP335 2.4 0.9 1.0
OD1 A:ASN339 2.4 0.8 1.0
CG A:ASN339 2.6 0.3 1.0
CG A:ASP337 2.7 0.1 1.0
C A:GLU341 3.5 0.8 1.0
CG A:ASP335 3.6 0.8 1.0
CB A:ASN339 4.1 0.3 1.0
OE1 A:GLN346 4.1 0.6 1.0
CB A:ASP337 4.2 0.1 1.0
OD2 A:ASP335 4.2 0.0 1.0
CA A:ILE342 4.4 0.3 1.0
N A:GLU341 4.4 0.8 1.0
N A:ILE342 4.4 1.0 1.0
CA A:GLU341 4.5 0.5 1.0
N A:ASN339 4.6 0.9 1.0
CB A:ASP335 4.6 0.5 1.0
CA A:ASP335 4.8 0.2 1.0
N A:ASP337 4.8 0.3 1.0
CA A:ASN339 4.9 0.6 1.0
CD A:GLN346 4.9 0.8 1.0
CA A:ASP337 5.0 0.8 1.0

Calcium binding site 2 out of 2 in 5e1j

Go back to Calcium Binding Sites List in 5e1j
Calcium binding site 2 out of 2 in the Structure of Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca810

b:0.6
occ:1.00
OE1 A:GLU124 2.4 0.3 1.0
OD2 A:ASP170 2.4 0.6 1.0
OE2 A:GLU124 2.4 0.7 1.0
OG A:SER120 2.4 0.2 1.0
CD A:GLU124 2.6 0.7 1.0
CG A:ASP170 3.5 1.0 1.0
CB A:SER120 3.7 0.3 1.0
CG A:GLU124 4.0 0.3 1.0
CB A:ASP170 4.3 0.3 1.0
C A:SER120 4.4 0.5 1.0
O A:SER120 4.4 0.0 1.0
OD1 A:ASP170 4.4 0.6 1.0
NH2 A:ARG191 4.5 0.8 1.0
CA A:SER120 4.6 0.9 1.0
N A:ILE121 4.8 0.5 1.0
CB A:GLU124 4.9 0.1 1.0

Reference:

J.Guo, W.Zeng, Q.Chen, C.Lee, L.Chen, Y.Yang, C.Cang, D.Ren, Y.Jiang. Structure of the Voltage-Gated Two-Pore Channel TPC1 From Arabidopsis Thaliana. Nature V. 531 196 2016.
ISSN: ESSN 1476-4687
PubMed: 26689363
DOI: 10.1038/NATURE16446
Page generated: Sat Dec 12 05:22:31 2020

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