Calcium in PDB 9b8y: Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius

Other elements in 9b8y:

The structure of Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius also contains other interesting chemical elements:

Vanadium (V) 40 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius (pdb code 9b8y). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius, PDB code: 9b8y:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 9b8y

Go back to Calcium Binding Sites List in 9b8y
Calcium binding site 1 out of 8 in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2001

b:86.1
occ:1.00
 OE2 A:GLU828 2.1 88.6 1.0
NE2 A:GLN831 2.5 89.5 1.0
OD1 A:ASN865 2.6 89.4 1.0
OD2 A:ASP868 2.6 88.9 1.0
CD A:GLU828 3.0 88.6 1.0
OE1 A:GLU828 3.1 88.6 1.0
CD A:GLN831 3.5 89.5 1.0
OE1 A:GLN831 3.7 89.5 1.0
CG A:ASN865 3.8 89.4 1.0
CG A:ASP868 3.8 88.9 1.0
NH2 A:ARG905 3.9 80.6 1.0
OE2 A:GLU1068 4.1 81.8 1.0
CG A:GLU828 4.4 88.6 1.0
CA A:ASN865 4.4 89.4 1.0
CB A:ASP868 4.6 88.9 1.0
CB A:ASN865 4.6 89.4 1.0
ND2 A:ASN865 4.7 89.4 1.0
N A:ASN865 4.7 89.4 1.0
OD1 A:ASP868 4.7 88.9 1.0
CG A:GLN831 4.8 89.5 1.0
O A:TRP864 4.9 84.9 1.0
CE1 A:TYR859 5.0 93.1 1.0
C A:TRP864 5.0 84.9 1.0

Calcium binding site 2 out of 8 in 9b8y

Go back to Calcium Binding Sites List in 9b8y
Calcium binding site 2 out of 8 in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2002

b:146.6
occ:1.00
 OE2 A:GLU396 2.2 140.8 1.0
OD2 A:ASP270 2.4 150.3 1.0
O A:ALA392 2.7 145.2 1.0
OD2 A:ASP395 2.7 143.4 1.0
CD A:GLU396 3.1 140.8 1.0
OE1 A:GLU396 3.2 140.8 1.0
CG A:ASP270 3.5 150.3 1.0
CG A:ASP395 3.6 143.4 1.0
OD1 A:ASP395 3.6 143.4 1.0
SG A:CYS385 3.7 148.6 1.0
C A:ALA392 3.9 145.2 1.0
OD1 A:ASP270 4.0 150.3 1.0
CG A:GLU396 4.5 140.8 1.0
CB A:ALA392 4.5 145.2 1.0
CA A:ALA392 4.7 145.2 1.0
CB A:ASP270 4.8 150.3 1.0
N A:TYR393 4.8 142.9 1.0
CA A:TYR393 4.8 142.9 1.0

Calcium binding site 3 out of 8 in 9b8y

Go back to Calcium Binding Sites List in 9b8y
Calcium binding site 3 out of 8 in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca2001

b:86.1
occ:1.00
 OE2 B:GLU828 2.1 88.6 1.0
NE2 B:GLN831 2.5 89.5 1.0
OD1 B:ASN865 2.6 89.4 1.0
OD2 B:ASP868 2.6 88.9 1.0
CD B:GLU828 3.0 88.6 1.0
OE1 B:GLU828 3.1 88.6 1.0
CD B:GLN831 3.5 89.5 1.0
OE1 B:GLN831 3.7 89.5 1.0
CG B:ASN865 3.8 89.4 1.0
CG B:ASP868 3.8 88.9 1.0
NH2 B:ARG905 3.9 80.6 1.0
OE2 B:GLU1068 4.1 81.8 1.0
CG B:GLU828 4.4 88.6 1.0
CA B:ASN865 4.4 89.4 1.0
CB B:ASP868 4.6 88.9 1.0
CB B:ASN865 4.6 89.4 1.0
ND2 B:ASN865 4.7 89.4 1.0
N B:ASN865 4.7 89.4 1.0
OD1 B:ASP868 4.7 88.9 1.0
CG B:GLN831 4.8 89.5 1.0
O B:TRP864 4.9 84.9 1.0
CE1 B:TYR859 5.0 93.1 1.0
C B:TRP864 5.0 84.9 1.0

Calcium binding site 4 out of 8 in 9b8y

Go back to Calcium Binding Sites List in 9b8y
Calcium binding site 4 out of 8 in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca2002

b:146.6
occ:1.00
 OE2 B:GLU396 2.2 140.8 1.0
OD2 B:ASP270 2.4 150.3 1.0
O B:ALA392 2.7 145.2 1.0
OD2 B:ASP395 2.7 143.4 1.0
CD B:GLU396 3.1 140.8 1.0
OE1 B:GLU396 3.2 140.8 1.0
CG B:ASP270 3.5 150.3 1.0
CG B:ASP395 3.6 143.4 1.0
OD1 B:ASP395 3.6 143.4 1.0
SG B:CYS385 3.7 148.6 1.0
C B:ALA392 3.9 145.2 1.0
OD1 B:ASP270 4.0 150.3 1.0
CG B:GLU396 4.5 140.8 1.0
CB B:ALA392 4.5 145.2 1.0
CA B:ALA392 4.7 145.2 1.0
CB B:ASP270 4.8 150.3 1.0
N B:TYR393 4.8 142.9 1.0
CA B:TYR393 4.8 142.9 1.0

Calcium binding site 5 out of 8 in 9b8y

Go back to Calcium Binding Sites List in 9b8y
Calcium binding site 5 out of 8 in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca2001

b:86.1
occ:1.00
 OE2 C:GLU828 2.1 88.6 1.0
NE2 C:GLN831 2.5 89.5 1.0
OD1 C:ASN865 2.6 89.4 1.0
OD2 C:ASP868 2.6 88.9 1.0
CD C:GLU828 3.0 88.6 1.0
OE1 C:GLU828 3.1 88.6 1.0
CD C:GLN831 3.5 89.5 1.0
OE1 C:GLN831 3.7 89.5 1.0
CG C:ASN865 3.8 89.4 1.0
CG C:ASP868 3.8 88.9 1.0
NH2 C:ARG905 3.9 80.6 1.0
OE2 C:GLU1068 4.1 81.8 1.0
CG C:GLU828 4.4 88.6 1.0
CA C:ASN865 4.4 89.4 1.0
CB C:ASP868 4.6 88.9 1.0
CB C:ASN865 4.6 89.4 1.0
ND2 C:ASN865 4.7 89.4 1.0
N C:ASN865 4.7 89.4 1.0
OD1 C:ASP868 4.7 88.9 1.0
CG C:GLN831 4.8 89.5 1.0
O C:TRP864 4.9 84.9 1.0
CE1 C:TYR859 5.0 93.1 1.0
C C:TRP864 5.0 84.9 1.0

Calcium binding site 6 out of 8 in 9b8y

Go back to Calcium Binding Sites List in 9b8y
Calcium binding site 6 out of 8 in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca2002

b:146.6
occ:1.00
 OE2 C:GLU396 2.2 140.8 1.0
OD2 C:ASP270 2.4 150.3 1.0
O C:ALA392 2.7 145.2 1.0
OD2 C:ASP395 2.7 143.4 1.0
CD C:GLU396 3.1 140.8 1.0
OE1 C:GLU396 3.2 140.8 1.0
CG C:ASP270 3.5 150.3 1.0
CG C:ASP395 3.6 143.4 1.0
OD1 C:ASP395 3.6 143.4 1.0
SG C:CYS385 3.7 148.6 1.0
C C:ALA392 3.9 145.2 1.0
OD1 C:ASP270 4.0 150.3 1.0
CG C:GLU396 4.5 140.8 1.0
CB C:ALA392 4.5 145.2 1.0
CA C:ALA392 4.7 145.2 1.0
CB C:ASP270 4.8 150.3 1.0
N C:TYR393 4.8 142.9 1.0
CA C:TYR393 4.8 142.9 1.0

Calcium binding site 7 out of 8 in 9b8y

Go back to Calcium Binding Sites List in 9b8y
Calcium binding site 7 out of 8 in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca2001

b:86.1
occ:1.00
 OE2 D:GLU828 2.1 88.6 1.0
NE2 D:GLN831 2.5 89.5 1.0
OD1 D:ASN865 2.6 89.4 1.0
OD2 D:ASP868 2.6 88.9 1.0
CD D:GLU828 3.0 88.6 1.0
OE1 D:GLU828 3.1 88.6 1.0
CD D:GLN831 3.5 89.5 1.0
OE1 D:GLN831 3.7 89.5 1.0
CG D:ASN865 3.8 89.4 1.0
CG D:ASP868 3.8 88.9 1.0
NH2 D:ARG905 3.9 80.6 1.0
OE2 D:GLU1068 4.1 81.8 1.0
CG D:GLU828 4.4 88.6 1.0
CA D:ASN865 4.4 89.4 1.0
CB D:ASP868 4.6 88.9 1.0
CB D:ASN865 4.6 89.4 1.0
ND2 D:ASN865 4.7 89.4 1.0
N D:ASN865 4.7 89.4 1.0
OD1 D:ASP868 4.7 88.9 1.0
CG D:GLN831 4.8 89.5 1.0
O D:TRP864 4.9 84.9 1.0
CE1 D:TYR859 5.0 93.1 1.0
C D:TRP864 5.0 84.9 1.0

Calcium binding site 8 out of 8 in 9b8y

Go back to Calcium Binding Sites List in 9b8y
Calcium binding site 8 out of 8 in the Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Cryo-Em Structure of the Human TRPM4 Channel in Complex with Calcium and Decavanadate at 37 Degrees Celsius within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca2002

b:146.6
occ:1.00
 OE2 D:GLU396 2.2 140.8 1.0
OD2 D:ASP270 2.4 150.3 1.0
O D:ALA392 2.7 145.2 1.0
OD2 D:ASP395 2.7 143.4 1.0
CD D:GLU396 3.1 140.8 1.0
OE1 D:GLU396 3.2 140.8 1.0
CG D:ASP270 3.5 150.3 1.0
CG D:ASP395 3.6 143.4 1.0
OD1 D:ASP395 3.6 143.4 1.0
SG D:CYS385 3.7 148.6 1.0
C D:ALA392 3.9 145.2 1.0
OD1 D:ASP270 4.0 150.3 1.0
CG D:GLU396 4.5 140.8 1.0
CB D:ALA392 4.5 145.2 1.0
CA D:ALA392 4.7 145.2 1.0
CB D:ASP270 4.8 150.3 1.0
N D:TYR393 4.8 142.9 1.0
CA D:TYR393 4.8 142.9 1.0

Reference:

J.Hu, S.J.Park, T.Walter, I.J.Orozco, G.O'dea, X.Ye, J.Du, W.Lu. Physiological Temperature Drives TRPM4 Ligand Recognition and Gating Nature 2024.
ISSN: ESSN 1476-4687
DOI: 10.1038/S41586-024-07436-7
Page generated: Fri Jul 19 12:58:33 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy