Calcium in PDB 6cx0: Structure of ATTPC1 D376A

Protein crystallography data

The structure of Structure of ATTPC1 D376A, PDB code: 6cx0 was solved by A.F.Kintzer, R.M.Stroud, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.00 / 3.50
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 88.470, 154.420, 218.450, 90.00, 90.00, 90.00
R / Rfree (%) 31.8 / 35.2

Other elements in 6cx0:

The structure of Structure of ATTPC1 D376A also contains other interesting chemical elements:

Fluorine (F) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of ATTPC1 D376A (pdb code 6cx0). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 5 binding sites of Calcium where determined in the Structure of ATTPC1 D376A, PDB code: 6cx0:
Jump to Calcium binding site number: 1; 2; 3; 4; 5;

Calcium binding site 1 out of 5 in 6cx0

Go back to Calcium Binding Sites List in 6cx0
Calcium binding site 1 out of 5 in the Structure of ATTPC1 D376A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of ATTPC1 D376A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca801

b:0.2
occ:1.00
ND2 A:ASN612 2.5 88.6 1.0
O A:LEU609 3.2 0.9 1.0
ND2 A:ASN625 3.6 87.5 1.0
CG A:ASN612 3.7 97.4 1.0
OD1 A:ASN612 4.1 94.7 1.0
C A:LEU609 4.1 0.1 1.0
CA A:LEU609 4.2 0.2 1.0
CZ2 A:TRP635 4.3 0.1 1.0
O A:TYR608 4.5 0.6 1.0
CD1 A:PHE611 4.5 0.5 1.0
CG A:ASN625 4.8 91.3 1.0
CB A:ASN612 4.9 0.7 1.0
CB A:LEU609 5.0 0.3 1.0
CE1 A:PHE611 5.0 0.4 1.0

Calcium binding site 2 out of 5 in 6cx0

Go back to Calcium Binding Sites List in 6cx0
Calcium binding site 2 out of 5 in the Structure of ATTPC1 D376A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of ATTPC1 D376A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca802

b:0.3
occ:1.00
O A:ILE455 4.4 0.6 1.0
OE2 A:GLU457 4.4 0.8 1.0
CG A:GLU457 4.7 0.9 1.0

Calcium binding site 3 out of 5 in 6cx0

Go back to Calcium Binding Sites List in 6cx0
Calcium binding site 3 out of 5 in the Structure of ATTPC1 D376A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of ATTPC1 D376A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca803

b:0.9
occ:1.00
OE1 A:GLU528 2.5 0.1 1.0
OD2 A:ASP454 2.7 91.4 1.0
CD A:GLU528 3.4 1.0 1.0
OE2 A:GLU528 3.6 0.0 1.0
CG A:ASP454 3.6 92.6 1.0
OD1 A:ASP454 3.8 90.7 1.0
CG A:GLU528 4.7 0.9 1.0

Calcium binding site 4 out of 5 in 6cx0

Go back to Calcium Binding Sites List in 6cx0
Calcium binding site 4 out of 5 in the Structure of ATTPC1 D376A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of ATTPC1 D376A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca804

b:0.6
occ:1.00
OD1 A:ASP337 2.5 1.0 1.0
O A:GLU341 2.5 0.0 1.0
OD2 A:ASP337 2.6 0.2 1.0
CG A:ASP337 2.9 0.0 1.0
OD1 A:ASP335 2.9 0.7 1.0
OE1 A:GLN346 2.9 0.7 1.0
OD1 A:ASP343 3.3 0.9 1.0
C A:GLU341 3.6 0.8 1.0
CA A:ILE342 3.6 0.1 1.0
OD1 A:ASN339 3.6 0.9 1.0
CD A:GLN346 4.0 0.8 1.0
N A:ILE342 4.0 0.9 1.0
ND2 A:ASN339 4.1 0.6 1.0
CG A:ASP335 4.1 0.3 1.0
N A:ASP343 4.2 0.0 1.0
CG A:ASP343 4.2 0.2 1.0
CG A:ASN339 4.3 0.1 1.0
C A:ILE342 4.3 0.9 1.0
NE2 A:GLN346 4.4 0.2 1.0
CA A:ASP335 4.4 0.3 1.0
CB A:ASP337 4.4 0.2 1.0
OD2 A:ASP343 4.5 0.2 1.0
CB A:ILE342 4.5 0.3 1.0
CG1 A:ILE342 4.6 0.7 1.0
CB A:ASP335 4.6 0.1 1.0
N A:ASP337 4.7 0.8 1.0
CG2 A:ILE342 4.8 0.6 1.0
N A:SER336 4.8 0.9 1.0
CA A:GLU341 4.9 0.9 1.0
C A:ASP335 4.9 0.0 1.0
O A:ILE334 4.9 0.5 1.0
N A:GLU341 5.0 0.5 1.0

Calcium binding site 5 out of 5 in 6cx0

Go back to Calcium Binding Sites List in 6cx0
Calcium binding site 5 out of 5 in the Structure of ATTPC1 D376A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structure of ATTPC1 D376A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca805

b:0.8
occ:1.00
OE2 A:GLU124 2.5 0.9 1.0
CZ2 A:TRP92 2.7 0.5 1.0
OD2 A:ASP170 2.9 0.4 1.0
CE2 A:TRP92 3.4 0.1 1.0
CG A:ASP170 3.5 0.8 1.0
NE1 A:TRP92 3.5 0.0 1.0
CH2 A:TRP92 3.7 0.8 1.0
CD A:GLU124 3.7 0.1 1.0
OD1 A:ASP170 4.0 0.2 1.0
OD1 A:ASP166 4.2 0.8 1.0
OE1 A:GLU124 4.2 0.4 1.0
CB A:ASP170 4.2 0.3 1.0
OD2 A:ASP166 4.4 0.5 1.0
OG A:SER120 4.6 0.6 1.0
CD2 A:TRP92 4.6 0.3 1.0
CG A:ASP166 4.8 0.5 1.0
NH2 A:ARG191 4.8 0.5 1.0
CD1 A:TRP92 4.8 0.9 1.0
CZ3 A:TRP92 4.9 0.1 1.0
CG A:GLU124 4.9 0.0 1.0

Reference:

A.F.Kintzer, E.M.Green, P.K.Dominik, M.Bridges, J.P.Armache, D.Deneka, S.S.Kim, W.Hubbell, A.A.Kossiakoff, Y.Cheng, R.M.Stroud. Structural Basis For Activation of Voltage Sensor Domains in An Ion Channel TPC1. Proc. Natl. Acad. Sci. V. 115 E9095 2018U.S.A..
ISSN: ESSN 1091-6490
PubMed: 30190435
DOI: 10.1073/PNAS.1805651115
Page generated: Sat Dec 12 06:01:50 2020

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