Calcium in PDB 8slp: Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2 (pdb code 8slp). 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 Rat TRPM5 Channel in 2MM Calcium, High-2, PDB code: 8slp:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 8slp

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Calcium binding site 1 out of 8 in the Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2


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 Rat TRPM5 Channel in 2MM Calcium, High-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca1201

b:150.1
occ:1.00
 O D:ASP350 2.4 144.9 1.0
OE1 D:GLN225 2.5 157.4 1.0
OD1 D:ASP350 2.5 144.9 1.0
OD1 D:ASP353 2.9 139.2 1.0
C D:ASP350 3.3 144.9 1.0
OD2 D:ASP353 3.3 139.2 1.0
CG D:ASP353 3.5 139.2 1.0
CD D:GLN225 3.6 157.4 1.0
CG D:ASP350 3.6 144.9 1.0
SG D:CYS341 4.0 149.8 1.0
CA D:ASP350 4.1 144.9 1.0
N D:TYR351 4.2 141.6 1.0
CG D:GLU354 4.2 137.7 1.0
CA D:TYR351 4.3 141.6 1.0
NE2 D:GLN225 4.4 157.4 1.0
CB D:ASP350 4.4 144.9 1.0
OD2 D:ASP350 4.5 144.9 1.0
CB D:GLN225 4.5 157.4 1.0
CD D:GLU354 4.5 137.7 1.0
OE1 D:GLU354 4.6 137.7 1.0
CG D:GLN225 4.6 157.4 1.0
C D:TYR351 4.7 141.6 1.0
N D:LEU352 4.9 131.7 1.0
CB D:CYS341 4.9 149.8 1.0
CB D:ASP353 5.0 139.2 1.0

Calcium binding site 2 out of 8 in 8slp

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Calcium binding site 2 out of 8 in the Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2


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 Rat TRPM5 Channel in 2MM Calcium, High-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca1202

b:139.5
occ:1.00
 OD1 D:ASN807 2.7 173.9 1.0
OD2 D:ASP810 2.7 171.6 1.0
CG D:ASP810 3.8 171.6 1.0
CG D:ASN807 3.9 173.9 1.0
CB D:ASP810 4.4 171.6 1.0
CB D:GLU781 4.4 152.3 1.0
CA D:ASN807 4.5 173.9 1.0
CB D:ASN807 4.7 173.9 1.0
CA D:GLU781 4.7 152.3 1.0
ND2 D:ASN807 4.8 173.9 1.0
OD1 D:ASP810 4.8 171.6 1.0
N D:ASN807 4.9 173.9 1.0

Calcium binding site 3 out of 8 in 8slp

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Calcium binding site 3 out of 8 in the Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2


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 Rat TRPM5 Channel in 2MM Calcium, High-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1201

b:150.1
occ:1.00
 O A:ASP350 2.4 144.9 1.0
OE1 A:GLN225 2.5 157.4 1.0
OD1 A:ASP350 2.5 144.9 1.0
OD1 A:ASP353 2.9 139.2 1.0
C A:ASP350 3.3 144.9 1.0
OD2 A:ASP353 3.3 139.2 1.0
CG A:ASP353 3.5 139.2 1.0
CD A:GLN225 3.6 157.4 1.0
CG A:ASP350 3.6 144.9 1.0
SG A:CYS341 4.0 149.8 1.0
CA A:ASP350 4.1 144.9 1.0
N A:TYR351 4.2 141.6 1.0
CG A:GLU354 4.2 137.7 1.0
CA A:TYR351 4.3 141.6 1.0
NE2 A:GLN225 4.4 157.4 1.0
CB A:ASP350 4.4 144.9 1.0
OD2 A:ASP350 4.5 144.9 1.0
CB A:GLN225 4.5 157.4 1.0
CD A:GLU354 4.5 137.7 1.0
OE1 A:GLU354 4.6 137.7 1.0
CG A:GLN225 4.6 157.4 1.0
C A:TYR351 4.7 141.6 1.0
N A:LEU352 4.9 131.7 1.0
CB A:CYS341 4.9 149.8 1.0
CB A:ASP353 5.0 139.2 1.0

Calcium binding site 4 out of 8 in 8slp

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Calcium binding site 4 out of 8 in the Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2


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 Rat TRPM5 Channel in 2MM Calcium, High-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1202

b:139.5
occ:1.00
 OD1 A:ASN807 2.7 173.9 1.0
OD2 A:ASP810 2.7 171.6 1.0
CG A:ASP810 3.8 171.6 1.0
CG A:ASN807 3.9 173.9 1.0
CB A:ASP810 4.4 171.6 1.0
CB A:GLU781 4.4 152.3 1.0
CA A:ASN807 4.5 173.9 1.0
CB A:ASN807 4.7 173.9 1.0
CA A:GLU781 4.7 152.3 1.0
ND2 A:ASN807 4.8 173.9 1.0
OD1 A:ASP810 4.8 171.6 1.0
N A:ASN807 4.9 173.9 1.0

Calcium binding site 5 out of 8 in 8slp

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Calcium binding site 5 out of 8 in the Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2


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 Rat TRPM5 Channel in 2MM Calcium, High-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1201

b:150.1
occ:1.00
 O B:ASP350 2.4 144.9 1.0
OE1 B:GLN225 2.5 157.4 1.0
OD1 B:ASP350 2.5 144.9 1.0
OD1 B:ASP353 2.9 139.2 1.0
C B:ASP350 3.3 144.9 1.0
OD2 B:ASP353 3.3 139.2 1.0
CG B:ASP353 3.5 139.2 1.0
CD B:GLN225 3.6 157.4 1.0
CG B:ASP350 3.6 144.9 1.0
SG B:CYS341 4.0 149.8 1.0
CA B:ASP350 4.1 144.9 1.0
N B:TYR351 4.2 141.6 1.0
CG B:GLU354 4.2 137.7 1.0
CA B:TYR351 4.3 141.6 1.0
NE2 B:GLN225 4.4 157.4 1.0
CB B:ASP350 4.4 144.9 1.0
OD2 B:ASP350 4.5 144.9 1.0
CB B:GLN225 4.5 157.4 1.0
CD B:GLU354 4.5 137.7 1.0
OE1 B:GLU354 4.6 137.7 1.0
CG B:GLN225 4.6 157.4 1.0
C B:TYR351 4.7 141.6 1.0
N B:LEU352 4.9 131.7 1.0
CB B:CYS341 4.9 149.8 1.0
CB B:ASP353 5.0 139.2 1.0

Calcium binding site 6 out of 8 in 8slp

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Calcium binding site 6 out of 8 in the Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2


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 Rat TRPM5 Channel in 2MM Calcium, High-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1202

b:139.5
occ:1.00
 OD1 B:ASN807 2.7 173.9 1.0
OD2 B:ASP810 2.7 171.6 1.0
CG B:ASP810 3.8 171.6 1.0
CG B:ASN807 3.9 173.9 1.0
CB B:ASP810 4.4 171.6 1.0
CB B:GLU781 4.4 152.3 1.0
CA B:ASN807 4.5 173.9 1.0
CB B:ASN807 4.7 173.9 1.0
CA B:GLU781 4.7 152.3 1.0
ND2 B:ASN807 4.8 173.9 1.0
OD1 B:ASP810 4.8 171.6 1.0
N B:ASN807 4.9 173.9 1.0

Calcium binding site 7 out of 8 in 8slp

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Calcium binding site 7 out of 8 in the Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2


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 Rat TRPM5 Channel in 2MM Calcium, High-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1201

b:150.1
occ:1.00
 O C:ASP350 2.4 144.9 1.0
OE1 C:GLN225 2.5 157.4 1.0
OD1 C:ASP350 2.5 144.9 1.0
OD1 C:ASP353 2.9 139.2 1.0
C C:ASP350 3.3 144.9 1.0
OD2 C:ASP353 3.3 139.2 1.0
CG C:ASP353 3.5 139.2 1.0
CD C:GLN225 3.6 157.4 1.0
CG C:ASP350 3.6 144.9 1.0
SG C:CYS341 4.0 149.8 1.0
CA C:ASP350 4.1 144.9 1.0
N C:TYR351 4.2 141.6 1.0
CG C:GLU354 4.2 137.7 1.0
CA C:TYR351 4.3 141.6 1.0
NE2 C:GLN225 4.4 157.4 1.0
CB C:ASP350 4.4 144.9 1.0
OD2 C:ASP350 4.5 144.9 1.0
CB C:GLN225 4.5 157.4 1.0
CD C:GLU354 4.5 137.7 1.0
OE1 C:GLU354 4.6 137.7 1.0
CG C:GLN225 4.6 157.4 1.0
C C:TYR351 4.7 141.6 1.0
N C:LEU352 4.9 131.7 1.0
CB C:CYS341 4.9 149.8 1.0
CB C:ASP353 5.0 139.2 1.0

Calcium binding site 8 out of 8 in 8slp

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Calcium binding site 8 out of 8 in the Cryo-Em Structure of the Rat TRPM5 Channel in 2MM Calcium, High-2


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 Rat TRPM5 Channel in 2MM Calcium, High-2 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1202

b:139.5
occ:1.00
 OD1 C:ASN807 2.7 173.9 1.0
OD2 C:ASP810 2.7 171.6 1.0
CG C:ASP810 3.8 171.6 1.0
CG C:ASN807 3.9 173.9 1.0
CB C:ASP810 4.4 171.6 1.0
CB C:GLU781 4.4 152.3 1.0
CA C:ASN807 4.5 173.9 1.0
CB C:ASN807 4.7 173.9 1.0
CA C:GLU781 4.7 152.3 1.0
ND2 C:ASN807 4.8 173.9 1.0
OD1 C:ASP810 4.8 171.6 1.0
N C:ASN807 4.9 173.9 1.0

Reference:

S.Karuppan, L.G.Schrag, C.Pastrano, A.Jara-Oseguera, L.Zubcevic. Structural Dynamics at Cytosolic Inter-Protomer Interfaces Control Gating of A Mammalian TRPM5 Channel Proc.Natl.Acad.Sci.Usa V. 121 2024.
ISSN: ESSN 1091-6490
DOI: 10.1073/PNAS.2403333121
Page generated: Fri Jul 19 11:33:09 2024

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