Calcium in PDB 8srk: Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose (pdb code 8srk). 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 TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose, PDB code: 8srk:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 8srk

Go back to Calcium Binding Sites List in 8srk
Calcium binding site 1 out of 8 in the Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose


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 TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1702

b:73.9
occ:1.00
 OD1 A:ASN869 2.6 127.0 1.0
OD2 A:ASP872 3.5 130.4 1.0
CG A:ASN869 3.8 127.0 1.0
NH2 A:ARG913 4.1 114.0 1.0
CG A:ASP872 4.5 130.4 1.0
ND2 A:ASN869 4.5 127.0 1.0
CB A:GLN853 4.5 129.7 1.0
CB A:ASN869 4.9 127.0 1.0

Calcium binding site 2 out of 8 in 8srk

Go back to Calcium Binding Sites List in 8srk
Calcium binding site 2 out of 8 in the Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose


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 TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1703

b:115.8
occ:1.00
 O A:GLY623 2.6 124.2 1.0
O A:LEU621 2.6 126.9 1.0
C A:GLY623 3.7 124.2 1.0
C A:LEU621 3.8 126.9 1.0
C A:ILE622 4.1 122.7 1.0
O A:ILE622 4.3 122.7 1.0
N A:GLY623 4.3 124.2 1.0
CA A:ILE622 4.4 122.7 1.0
N A:ASP624 4.5 133.0 1.0
CA A:GLY623 4.6 124.2 1.0
CA A:ASP624 4.6 133.0 1.0
N A:ILE622 4.6 122.7 1.0
CB A:GLU1114 4.6 116.5 1.0
CA A:LEU621 4.8 126.9 1.0
O A:TRP620 4.8 117.4 1.0
CG2 A:THR1117 4.9 120.0 1.0
CA A:GLU1114 4.9 116.5 1.0

Calcium binding site 3 out of 8 in 8srk

Go back to Calcium Binding Sites List in 8srk
Calcium binding site 3 out of 8 in the Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose


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 TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1702

b:73.9
occ:1.00
 OD1 B:ASN869 2.6 127.0 1.0
OD2 B:ASP872 3.5 130.4 1.0
CG B:ASN869 3.8 127.0 1.0
NH2 B:ARG913 4.1 114.0 1.0
CG B:ASP872 4.5 130.4 1.0
ND2 B:ASN869 4.5 127.0 1.0
CB B:GLN853 4.5 129.7 1.0
CB B:ASN869 4.9 127.0 1.0

Calcium binding site 4 out of 8 in 8srk

Go back to Calcium Binding Sites List in 8srk
Calcium binding site 4 out of 8 in the Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose


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 TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1703

b:115.8
occ:1.00
 O B:GLY623 2.6 124.2 1.0
O B:LEU621 2.6 126.9 1.0
C B:GLY623 3.7 124.2 1.0
C B:LEU621 3.8 126.9 1.0
C B:ILE622 4.1 122.7 1.0
O B:ILE622 4.3 122.7 1.0
N B:GLY623 4.3 124.2 1.0
CA B:ILE622 4.4 122.7 1.0
N B:ASP624 4.5 133.0 1.0
CA B:GLY623 4.6 124.2 1.0
CA B:ASP624 4.6 133.0 1.0
N B:ILE622 4.6 122.7 1.0
CB B:GLU1114 4.6 116.5 1.0
CA B:LEU621 4.8 126.9 1.0
O B:TRP620 4.8 117.4 1.0
CG2 B:THR1117 4.9 120.0 1.0
CA B:GLU1114 4.9 116.5 1.0

Calcium binding site 5 out of 8 in 8srk

Go back to Calcium Binding Sites List in 8srk
Calcium binding site 5 out of 8 in the Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose


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 TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1702

b:73.9
occ:1.00
 OD1 C:ASN869 2.6 127.0 1.0
OD2 C:ASP872 3.5 130.4 1.0
CG C:ASN869 3.8 127.0 1.0
NH2 C:ARG913 4.1 114.0 1.0
CG C:ASP872 4.5 130.4 1.0
ND2 C:ASN869 4.5 127.0 1.0
CB C:GLN853 4.5 129.7 1.0
CB C:ASN869 4.9 127.0 1.0

Calcium binding site 6 out of 8 in 8srk

Go back to Calcium Binding Sites List in 8srk
Calcium binding site 6 out of 8 in the Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose


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 TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1703

b:115.8
occ:1.00
 O C:GLY623 2.6 124.2 1.0
O C:LEU621 2.6 126.9 1.0
C C:GLY623 3.7 124.2 1.0
C C:LEU621 3.8 126.9 1.0
C C:ILE622 4.1 122.7 1.0
O C:ILE622 4.3 122.7 1.0
N C:GLY623 4.3 124.2 1.0
CA C:ILE622 4.4 122.7 1.0
N C:ASP624 4.5 133.0 1.0
CA C:GLY623 4.6 124.2 1.0
CA C:ASP624 4.6 133.0 1.0
N C:ILE622 4.6 122.7 1.0
CB C:GLU1114 4.6 116.5 1.0
CA C:LEU621 4.8 126.9 1.0
O C:TRP620 4.8 117.4 1.0
CG2 C:THR1117 4.9 120.0 1.0
CA C:GLU1114 4.9 116.5 1.0

Calcium binding site 7 out of 8 in 8srk

Go back to Calcium Binding Sites List in 8srk
Calcium binding site 7 out of 8 in the Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose


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 TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca6004

b:73.9
occ:1.00
 OD1 D:ASN869 2.6 127.0 1.0
OD2 D:ASP872 3.5 130.4 1.0
CG D:ASN869 3.8 127.0 1.0
NH2 D:ARG913 4.1 114.0 1.0
CG D:ASP872 4.5 130.4 1.0
ND2 D:ASN869 4.5 127.0 1.0
CB D:GLN853 4.5 129.7 1.0
CB D:ASN869 4.9 127.0 1.0

Calcium binding site 8 out of 8 in 8srk

Go back to Calcium Binding Sites List in 8srk
Calcium binding site 8 out of 8 in the Cryo-Em Structure of TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose


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 TRPM2 Chanzyme (Without NUDT9-H Domain) in the Presence of Ca and Adp-Ribose within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca6005

b:115.8
occ:1.00
 O D:GLY623 2.6 124.2 1.0
O D:LEU621 2.6 126.9 1.0
C D:GLY623 3.7 124.2 1.0
C D:LEU621 3.8 126.9 1.0
C D:ILE622 4.1 122.7 1.0
O D:ILE622 4.3 122.7 1.0
N D:GLY623 4.3 124.2 1.0
CA D:ILE622 4.4 122.7 1.0
N D:ASP624 4.5 133.0 1.0
CA D:GLY623 4.6 124.2 1.0
CA D:ASP624 4.6 133.0 1.0
N D:ILE622 4.6 122.7 1.0
CB D:GLU1114 4.6 116.5 1.0
CA D:LEU621 4.8 126.9 1.0
O D:TRP620 4.8 117.4 1.0
CG2 D:THR1117 4.9 120.0 1.0
CA D:GLU1114 4.9 116.5 1.0

Reference:

Y.Huang, W.Lu, J.Du. Coupling Enzymatic Activity and Gating in An Ancient Trpm Chanzyme and Its Molecular Evolution To Be Published.
Page generated: Fri Jul 19 11:50:25 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