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Magnesium in PDB 6c3p: Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form (pdb code 6c3p). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form, PDB code: 6c3p:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 6c3p

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Magnesium binding site 1 out of 8 in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg2002

b:0.2
occ:1.00
 O2B E:ATP2004 2.0 0.3 1.0
OG E:SER720 2.0 0.9 1.0
OE1 E:GLN774 2.1 0.3 1.0
O3B E:ATP2004 2.2 0.3 1.0
PB E:ATP2004 2.3 0.3 1.0
CB E:SER720 2.4 0.9 1.0
O3A E:ATP2004 2.5 0.3 1.0
CD E:GLN774 2.8 0.3 1.0
NE2 E:GLN774 2.9 0.3 1.0
PA E:ATP2004 3.5 0.3 1.0
CA E:SER720 3.5 0.9 1.0
N E:SER720 3.5 0.9 1.0
O2A E:ATP2004 3.6 0.3 1.0
PG E:ATP2004 3.7 0.3 1.0
O1B E:ATP2004 3.8 0.3 1.0
O1A E:ATP2004 3.8 0.3 1.0
O1G E:ATP2004 4.0 0.3 1.0
OG E:SER1482 4.1 0.6 1.0
O2G E:ATP2004 4.1 0.3 1.0
CG E:GLN774 4.2 0.3 1.0
OD2 E:ASP853 4.5 0.8 1.0
CB E:SER1482 4.5 0.6 1.0
C E:SER720 4.5 0.9 1.0
CG E:LYS719 4.6 0.7 1.0
O3G E:ATP2004 4.7 0.3 1.0
CB E:GLN774 4.7 0.3 1.0
N E:SER721 4.8 0.4 1.0
OD1 E:ASP853 4.8 0.8 1.0
O5' E:ATP2004 4.8 0.3 1.0
C E:LYS719 4.8 0.7 1.0
OD2 E:ASP854 4.9 0.4 1.0

Magnesium binding site 2 out of 8 in 6c3p

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Magnesium binding site 2 out of 8 in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg2003

b:0.4
occ:1.00
 O3B E:ADP2001 2.1 0.8 1.0
CB E:SER1385 2.5 0.6 1.0
O3A E:ADP2001 3.0 0.8 1.0
PB E:ADP2001 3.2 0.8 1.0
O2A E:ADP2001 3.2 0.8 1.0
OG E:SER1385 3.3 0.6 1.0
PA E:ADP2001 3.4 0.8 1.0
O1A E:ADP2001 3.7 0.8 1.0
CA E:SER1385 3.7 0.6 1.0
N E:SER1385 3.8 0.6 1.0
O1B E:ADP2001 3.8 0.8 1.0
OD2 E:ASP1505 4.0 0.5 1.0
OD1 E:ASP1505 4.2 0.5 1.0
O2B E:ADP2001 4.4 0.8 1.0
CG E:ASP1505 4.6 0.5 1.0
CG E:LYS1384 4.7 0.1 1.0
C E:SER1385 4.8 0.6 1.0
O5' E:ADP2001 4.9 0.8 1.0

Magnesium binding site 3 out of 8 in 6c3p

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Magnesium binding site 3 out of 8 in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg2002

b:0.2
occ:1.00
 O2B H:ATP2004 2.0 0.3 1.0
OG H:SER720 2.0 0.9 1.0
OE1 H:GLN774 2.1 0.3 1.0
O3B H:ATP2004 2.2 0.3 1.0
PB H:ATP2004 2.3 0.3 1.0
CB H:SER720 2.4 0.9 1.0
O3A H:ATP2004 2.5 0.3 1.0
CD H:GLN774 2.8 0.3 1.0
NE2 H:GLN774 2.9 0.3 1.0
PA H:ATP2004 3.5 0.3 1.0
CA H:SER720 3.5 0.9 1.0
N H:SER720 3.5 0.9 1.0
O2A H:ATP2004 3.6 0.3 1.0
PG H:ATP2004 3.7 0.3 1.0
O1B H:ATP2004 3.8 0.3 1.0
O1A H:ATP2004 3.8 0.3 1.0
O1G H:ATP2004 4.0 0.3 1.0
OG H:SER1482 4.1 0.6 1.0
O2G H:ATP2004 4.1 0.3 1.0
CG H:GLN774 4.2 0.3 1.0
OD2 H:ASP853 4.5 0.8 1.0
CB H:SER1482 4.5 0.6 1.0
C H:SER720 4.5 0.9 1.0
CG H:LYS719 4.6 0.7 1.0
O3G H:ATP2004 4.7 0.3 1.0
CB H:GLN774 4.7 0.3 1.0
N H:SER721 4.8 0.4 1.0
OD1 H:ASP853 4.8 0.8 1.0
O5' H:ATP2004 4.8 0.3 1.0
C H:LYS719 4.8 0.7 1.0
OD2 H:ASP854 4.9 0.4 1.0

Magnesium binding site 4 out of 8 in 6c3p

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Magnesium binding site 4 out of 8 in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg2003

b:0.4
occ:1.00
 O3B H:ADP2001 2.1 0.8 1.0
CB H:SER1385 2.5 0.6 1.0
O3A H:ADP2001 3.0 0.8 1.0
PB H:ADP2001 3.2 0.8 1.0
O2A H:ADP2001 3.2 0.8 1.0
OG H:SER1385 3.3 0.6 1.0
PA H:ADP2001 3.4 0.8 1.0
O1A H:ADP2001 3.7 0.8 1.0
CA H:SER1385 3.7 0.6 1.0
N H:SER1385 3.8 0.6 1.0
O1B H:ADP2001 3.8 0.8 1.0
OD2 H:ASP1505 4.0 0.5 1.0
OD1 H:ASP1505 4.2 0.5 1.0
O2B H:ADP2001 4.4 0.8 1.0
CG H:ASP1505 4.6 0.5 1.0
CG H:LYS1384 4.7 0.1 1.0
C H:SER1385 4.8 0.6 1.0
O5' H:ADP2001 4.9 0.8 1.0

Magnesium binding site 5 out of 8 in 6c3p

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Magnesium binding site 5 out of 8 in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg2002

b:0.2
occ:1.00
 O2B G:ATP2004 2.0 0.3 1.0
OG G:SER720 2.0 0.9 1.0
OE1 G:GLN774 2.1 0.3 1.0
O3B G:ATP2004 2.2 0.3 1.0
PB G:ATP2004 2.3 0.3 1.0
CB G:SER720 2.4 0.9 1.0
O3A G:ATP2004 2.5 0.3 1.0
CD G:GLN774 2.8 0.3 1.0
NE2 G:GLN774 2.9 0.3 1.0
PA G:ATP2004 3.5 0.3 1.0
CA G:SER720 3.5 0.9 1.0
N G:SER720 3.5 0.9 1.0
O2A G:ATP2004 3.6 0.3 1.0
PG G:ATP2004 3.7 0.3 1.0
O1B G:ATP2004 3.8 0.3 1.0
O1A G:ATP2004 3.8 0.3 1.0
O1G G:ATP2004 4.0 0.3 1.0
OG G:SER1482 4.1 0.6 1.0
O2G G:ATP2004 4.1 0.3 1.0
CG G:GLN774 4.2 0.3 1.0
OD2 G:ASP853 4.5 0.8 1.0
CB G:SER1482 4.5 0.6 1.0
C G:SER720 4.5 0.9 1.0
CG G:LYS719 4.6 0.7 1.0
O3G G:ATP2004 4.7 0.3 1.0
CB G:GLN774 4.7 0.3 1.0
N G:SER721 4.8 0.4 1.0
OD1 G:ASP853 4.8 0.8 1.0
O5' G:ATP2004 4.8 0.3 1.0
C G:LYS719 4.8 0.7 1.0
OD2 G:ASP854 4.9 0.4 1.0

Magnesium binding site 6 out of 8 in 6c3p

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Magnesium binding site 6 out of 8 in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg2003

b:0.4
occ:1.00
 O3B G:ADP2001 2.1 0.8 1.0
CB G:SER1385 2.5 0.6 1.0
O3A G:ADP2001 3.0 0.8 1.0
PB G:ADP2001 3.2 0.8 1.0
O2A G:ADP2001 3.2 0.8 1.0
OG G:SER1385 3.3 0.6 1.0
PA G:ADP2001 3.4 0.8 1.0
O1A G:ADP2001 3.7 0.8 1.0
CA G:SER1385 3.7 0.6 1.0
N G:SER1385 3.8 0.6 1.0
O1B G:ADP2001 3.8 0.8 1.0
OD2 G:ASP1505 4.0 0.5 1.0
OD1 G:ASP1505 4.2 0.5 1.0
O2B G:ADP2001 4.4 0.8 1.0
CG G:ASP1505 4.6 0.5 1.0
CG G:LYS1384 4.7 0.1 1.0
C G:SER1385 4.8 0.6 1.0
O5' G:ADP2001 4.9 0.8 1.0

Magnesium binding site 7 out of 8 in 6c3p

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Magnesium binding site 7 out of 8 in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg2002

b:0.2
occ:1.00
 O2B F:ATP2004 2.0 0.3 1.0
OG F:SER720 2.0 0.9 1.0
OE1 F:GLN774 2.1 0.3 1.0
O3B F:ATP2004 2.2 0.3 1.0
PB F:ATP2004 2.3 0.3 1.0
CB F:SER720 2.4 0.9 1.0
O3A F:ATP2004 2.5 0.3 1.0
CD F:GLN774 2.8 0.3 1.0
NE2 F:GLN774 2.9 0.3 1.0
PA F:ATP2004 3.5 0.3 1.0
CA F:SER720 3.5 0.9 1.0
N F:SER720 3.5 0.9 1.0
O2A F:ATP2004 3.6 0.3 1.0
PG F:ATP2004 3.7 0.3 1.0
O1B F:ATP2004 3.8 0.3 1.0
O1A F:ATP2004 3.8 0.3 1.0
O1G F:ATP2004 4.0 0.3 1.0
OG F:SER1482 4.1 0.6 1.0
O2G F:ATP2004 4.1 0.3 1.0
CG F:GLN774 4.2 0.3 1.0
OD2 F:ASP853 4.5 0.8 1.0
CB F:SER1482 4.5 0.6 1.0
C F:SER720 4.5 0.9 1.0
CG F:LYS719 4.6 0.7 1.0
O3G F:ATP2004 4.7 0.3 1.0
CB F:GLN774 4.7 0.3 1.0
N F:SER721 4.8 0.4 1.0
OD1 F:ASP853 4.8 0.8 1.0
O5' F:ATP2004 4.8 0.3 1.0
C F:LYS719 4.8 0.7 1.0
OD2 F:ASP854 4.9 0.4 1.0

Magnesium binding site 8 out of 8 in 6c3p

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Magnesium binding site 8 out of 8 in the Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryo-Em Structure of Human Katp Bound to Atp and Adp in Propeller Form within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg2003

b:0.4
occ:1.00
 O3B F:ADP2001 2.1 0.8 1.0
CB F:SER1385 2.5 0.6 1.0
O3A F:ADP2001 3.0 0.8 1.0
PB F:ADP2001 3.2 0.8 1.0
O2A F:ADP2001 3.2 0.8 1.0
OG F:SER1385 3.3 0.6 1.0
PA F:ADP2001 3.4 0.8 1.0
O1A F:ADP2001 3.7 0.8 1.0
CA F:SER1385 3.7 0.6 1.0
N F:SER1385 3.8 0.6 1.0
O1B F:ADP2001 3.8 0.8 1.0
OD2 F:ASP1505 4.0 0.5 1.0
OD1 F:ASP1505 4.2 0.5 1.0
O2B F:ADP2001 4.4 0.8 1.0
CG F:ASP1505 4.6 0.5 1.0
CG F:LYS1384 4.7 0.1 1.0
C F:SER1385 4.8 0.6 1.0
O5' F:ADP2001 4.9 0.8 1.0

Reference:

K.P.K.Lee, J.Chen, R.Mackinnon. Molecular Structure of Human Katp in Complex with Atp and Adp. Elife V. 6 2017.
ISSN: ESSN 2050-084X
PubMed: 29286281
DOI: 10.7554/ELIFE.32481
Page generated: Mon Sep 30 20:08:00 2024

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