Calcium in PDB 6d7t: Cryo-Em Structure of Human TRPV6-Y467A in Complex with 2- Aminoethoxydiphenyl Borate (2-Apb)

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Structure of Human TRPV6-Y467A in Complex with 2- Aminoethoxydiphenyl Borate (2-Apb) (pdb code 6d7t). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Cryo-Em Structure of Human TRPV6-Y467A in Complex with 2- Aminoethoxydiphenyl Borate (2-Apb), PDB code: 6d7t:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 6d7t

Go back to Calcium Binding Sites List in 6d7t
Calcium binding site 1 out of 2 in the Cryo-Em Structure of Human TRPV6-Y467A in Complex with 2- Aminoethoxydiphenyl Borate (2-Apb)


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 Human TRPV6-Y467A in Complex with 2- Aminoethoxydiphenyl Borate (2-Apb) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca802

b:30.0
occ:0.25
ND1 A:HIS582 4.4 0.4 1.0
ND1 C:HIS582 4.4 0.4 1.0
ND1 D:HIS582 4.4 0.4 1.0
ND1 B:HIS582 4.5 0.4 1.0
CE1 A:HIS582 4.5 0.4 1.0
CE1 C:HIS582 4.5 0.4 1.0
CE1 D:HIS582 4.5 0.4 1.0
CE1 B:HIS582 4.5 0.4 1.0

Calcium binding site 2 out of 2 in 6d7t

Go back to Calcium Binding Sites List in 6d7t
Calcium binding site 2 out of 2 in the Cryo-Em Structure of Human TRPV6-Y467A in Complex with 2- Aminoethoxydiphenyl Borate (2-Apb)


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 Human TRPV6-Y467A in Complex with 2- Aminoethoxydiphenyl Borate (2-Apb) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca803

b:30.0
occ:0.25
OD1 D:ASP542 2.0 89.4 1.0
OD1 C:ASP542 2.0 80.8 1.0
OD1 B:ASP542 2.3 89.4 1.0
OD1 A:ASP542 2.3 89.1 1.0
CG C:ASP542 3.1 80.8 1.0
CG D:ASP542 3.2 89.4 1.0
CG B:ASP542 3.4 89.4 1.0
CG A:ASP542 3.5 89.1 1.0
CB C:ASP542 3.6 80.8 1.0
CB D:ASP542 3.9 89.4 1.0
CA C:ASP542 4.0 80.8 1.0
CB B:ASP542 4.0 89.4 1.0
CB A:ASP542 4.0 89.1 1.0
OD2 D:ASP542 4.1 89.4 1.0
OD2 C:ASP542 4.2 80.8 1.0
CA B:ASP542 4.3 89.4 1.0
CA A:ASP542 4.3 89.1 1.0
N C:ASP542 4.4 80.8 1.0
CA D:ASP542 4.4 89.4 1.0
OD2 B:ASP542 4.4 89.4 1.0
OD2 A:ASP542 4.5 89.1 1.0
N B:ASP542 4.7 89.4 1.0
N A:ASP542 4.7 89.1 1.0
N D:ASP542 5.0 89.4 1.0

Reference:

A.K.Singh, K.Saotome, L.L.Mcgoldrick, A.I.Sobolevsky. Structural Bases of Trp Channel TRPV6 Allosteric Modulation By 2-Apb. Nat Commun V. 9 2465 2018.
ISSN: ESSN 2041-1723
PubMed: 29941865
DOI: 10.1038/S41467-018-04828-Y
Page generated: Sat Dec 12 06:02:37 2020

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