Magnesium in PDB 8fwj: Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em

Magnesium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Magnesium atom in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em (pdb code 8fwj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 24 binding sites of Magnesium where determined in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em, PDB code: 8fwj:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 24 in 8fwj

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Magnesium binding site 1 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg603

b:71.7
occ:1.00
 OG A:SER279 2.0 86.8 1.0
O2G A:ATP601 2.0 78.0 1.0
O A:HOH704 2.1 75.8 1.0
O A:HOH701 2.5 77.4 1.0
O2B A:ATP601 2.6 78.0 1.0
CB A:SER279 3.2 86.8 1.0
PG A:ATP601 3.3 78.0 1.0
O3B A:ATP601 3.4 78.0 1.0
PB A:ATP601 3.6 78.0 1.0
OE2 A:GLU303 3.7 86.8 1.0
O3G A:ATP601 4.0 78.0 1.0
OD2 A:ASP362 4.0 86.8 1.0
OD1 A:ASP362 4.2 86.8 1.0
O1A A:ATP601 4.3 78.0 1.0
CA A:SER279 4.4 86.8 1.0
O1G A:ATP601 4.4 78.0 1.0
N A:SER279 4.5 86.8 1.0
CG A:ASP362 4.5 86.8 1.0
O3A A:ATP601 4.6 78.0 1.0
CD A:GLU303 4.6 86.8 1.0
O1B A:ATP601 4.7 78.0 1.0
PA A:ATP601 4.9 78.0 1.0
NH1 B:ARG441 5.0 77.1 1.0

Magnesium binding site 2 out of 24 in 8fwj

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Magnesium binding site 2 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg604

b:73.5
occ:1.00
 O A:HOH703 2.0 73.6 1.0
O A:HOH702 2.0 72.5 1.0
O1B A:ADP602 2.0 71.2 1.0
OG1 A:THR38 2.6 86.8 1.0
PB A:ADP602 2.8 71.2 1.0
O3A A:ADP602 3.0 71.2 1.0
O3B A:ADP602 3.0 71.2 1.0
NZ B:LYS207 3.4 86.8 1.0
CB A:THR38 3.7 86.8 1.0
PA A:ADP602 3.8 71.2 1.0
O2A A:ADP602 4.0 71.2 1.0
O1A A:ADP602 4.0 71.2 1.0
O2B A:ADP602 4.2 71.2 1.0
N A:THR38 4.3 86.8 1.0
CE B:LYS207 4.5 86.8 1.0
OE2 A:GLU63 4.5 92.7 1.0
CA A:THR38 4.6 86.8 1.0
CG2 A:THR38 4.7 86.8 1.0
OD2 A:ASP130 5.0 86.8 1.0
NZ A:LYS37 5.0 68.9 1.0

Magnesium binding site 3 out of 24 in 8fwj

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Magnesium binding site 3 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg605

b:70.0
occ:1.00
 O F:HOH703 2.0 72.0 1.0
O F:HOH702 2.0 69.2 1.0
O1B F:ADP602 2.0 70.5 1.0
OG1 F:THR38 2.6 86.8 1.0
PB F:ADP602 2.8 70.5 1.0
O3A F:ADP602 3.0 70.5 1.0
O3B F:ADP602 3.0 70.5 1.0
NZ A:LYS207 3.4 86.8 1.0
CB F:THR38 3.7 86.8 1.0
PA F:ADP602 3.8 70.5 1.0
O2A F:ADP602 4.0 70.5 1.0
O1A F:ADP602 4.0 70.5 1.0
O2B F:ADP602 4.2 70.5 1.0
N F:THR38 4.3 86.8 1.0
OE2 F:GLU63 4.5 92.6 1.0
CE A:LYS207 4.5 86.8 1.0
CA F:THR38 4.6 86.8 1.0
CG2 F:THR38 4.7 86.8 1.0
OD2 F:ASP130 5.0 86.8 1.0
NZ F:LYS37 5.0 68.5 1.0

Magnesium binding site 4 out of 24 in 8fwj

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Magnesium binding site 4 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg603

b:72.8
occ:1.00
 OG B:SER279 2.0 86.8 1.0
O2G B:ATP601 2.0 79.2 1.0
O B:HOH704 2.1 73.8 1.0
O B:HOH701 2.5 78.0 1.0
O2B B:ATP601 2.6 79.2 1.0
CB B:SER279 3.2 86.8 1.0
PG B:ATP601 3.3 79.2 1.0
O3B B:ATP601 3.4 79.2 1.0
PB B:ATP601 3.6 79.2 1.0
OE2 B:GLU303 3.7 86.8 1.0
O3G B:ATP601 4.0 79.2 1.0
OD2 B:ASP362 4.0 86.8 1.0
OD1 B:ASP362 4.2 86.8 1.0
O1A B:ATP601 4.3 79.2 1.0
CA B:SER279 4.4 86.8 1.0
O1G B:ATP601 4.4 79.2 1.0
N B:SER279 4.5 86.8 1.0
CG B:ASP362 4.5 86.8 1.0
O3A B:ATP601 4.6 79.2 1.0
CD B:GLU303 4.6 86.8 1.0
O1B B:ATP601 4.7 79.2 1.0
PA B:ATP601 4.9 79.2 1.0

Magnesium binding site 5 out of 24 in 8fwj

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Magnesium binding site 5 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg604

b:70.5
occ:1.00
 O B:HOH703 2.0 75.0 1.0
O B:HOH702 2.0 69.7 1.0
O1B B:ADP602 2.0 71.0 1.0
OG1 B:THR38 2.6 86.8 1.0
PB B:ADP602 2.8 71.0 1.0
O3A B:ADP602 3.0 71.0 1.0
O3B B:ADP602 3.0 71.0 1.0
NZ C:LYS207 3.5 86.8 1.0
CB B:THR38 3.7 86.8 1.0
PA B:ADP602 3.8 71.0 1.0
O2A B:ADP602 4.0 71.0 1.0
O1A B:ADP602 4.0 71.0 1.0
O2B B:ADP602 4.2 71.0 1.0
N B:THR38 4.3 86.8 1.0
OE2 B:GLU63 4.5 91.7 1.0
CE C:LYS207 4.5 86.8 1.0
CA B:THR38 4.6 86.8 1.0
CG2 B:THR38 4.7 86.8 1.0
OD2 B:ASP130 5.0 86.8 1.0
NZ B:LYS37 5.0 69.5 1.0

Magnesium binding site 6 out of 24 in 8fwj

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Magnesium binding site 6 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg603

b:69.7
occ:1.00
 OG C:SER279 2.0 86.8 1.0
O2G C:ATP601 2.0 78.1 1.0
O C:HOH704 2.1 74.0 1.0
O C:HOH701 2.5 77.0 1.0
O2B C:ATP601 2.6 78.1 1.0
CB C:SER279 3.2 86.8 1.0
PG C:ATP601 3.3 78.1 1.0
O3B C:ATP601 3.4 78.1 1.0
PB C:ATP601 3.6 78.1 1.0
OE2 C:GLU303 3.7 86.8 1.0
O3G C:ATP601 4.0 78.1 1.0
OD2 C:ASP362 4.0 86.8 1.0
OD1 C:ASP362 4.2 86.8 1.0
O1A C:ATP601 4.3 78.1 1.0
CA C:SER279 4.4 86.8 1.0
O1G C:ATP601 4.4 78.1 1.0
N C:SER279 4.5 86.8 1.0
CG C:ASP362 4.5 86.8 1.0
O3A C:ATP601 4.6 78.1 1.0
CD C:GLU303 4.6 86.8 1.0
O1B C:ATP601 4.7 78.1 1.0
PA C:ATP601 4.9 78.1 1.0

Magnesium binding site 7 out of 24 in 8fwj

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Magnesium binding site 7 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg604

b:70.2
occ:1.00
 O C:HOH703 2.0 73.6 1.0
O C:HOH702 2.0 71.5 1.0
O1B C:ADP602 2.0 71.3 1.0
OG1 C:THR38 2.6 86.8 1.0
PB C:ADP602 2.8 71.3 1.0
O3A C:ADP602 3.0 71.3 1.0
O3B C:ADP602 3.0 71.3 1.0
NZ D:LYS207 3.5 86.8 1.0
CB C:THR38 3.7 86.8 1.0
PA C:ADP602 3.8 71.3 1.0
O2A C:ADP602 4.0 71.3 1.0
O1A C:ADP602 4.0 71.3 1.0
O2B C:ADP602 4.2 71.3 1.0
N C:THR38 4.3 86.8 1.0
OE2 C:GLU63 4.5 94.0 1.0
CE D:LYS207 4.6 86.8 1.0
CA C:THR38 4.6 86.8 1.0
CG2 C:THR38 4.7 86.8 1.0
OD2 C:ASP130 5.0 86.8 1.0
NZ C:LYS37 5.0 69.3 1.0

Magnesium binding site 8 out of 24 in 8fwj

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Magnesium binding site 8 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg603

b:72.7
occ:1.00
 OG D:SER279 2.0 86.8 1.0
O2G D:ATP601 2.0 78.3 1.0
O D:HOH704 2.1 75.5 1.0
O D:HOH701 2.5 76.7 1.0
O2B D:ATP601 2.6 78.3 1.0
CB D:SER279 3.2 86.8 1.0
PG D:ATP601 3.3 78.3 1.0
O3B D:ATP601 3.4 78.3 1.0
PB D:ATP601 3.6 78.3 1.0
OE2 D:GLU303 3.7 86.8 1.0
O3G D:ATP601 4.0 78.3 1.0
OD2 D:ASP362 4.0 86.8 1.0
OD1 D:ASP362 4.2 86.8 1.0
O1A D:ATP601 4.3 78.3 1.0
CA D:SER279 4.4 86.8 1.0
O1G D:ATP601 4.4 78.3 1.0
N D:SER279 4.5 86.8 1.0
CG D:ASP362 4.5 86.8 1.0
O3A D:ATP601 4.6 78.3 1.0
CD D:GLU303 4.6 86.8 1.0
O1B D:ATP601 4.7 78.3 1.0
PA D:ATP601 4.9 78.3 1.0

Magnesium binding site 9 out of 24 in 8fwj

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Magnesium binding site 9 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg604

b:72.6
occ:1.00
 O D:HOH703 2.0 73.8 1.0
O D:HOH702 2.0 70.7 1.0
O1B D:ADP602 2.0 70.8 1.0
OG1 D:THR38 2.6 86.8 1.0
PB D:ADP602 2.8 70.8 1.0
O3A D:ADP602 3.0 70.8 1.0
O3B D:ADP602 3.0 70.8 1.0
NZ E:LYS207 3.4 86.8 1.0
CB D:THR38 3.7 86.8 1.0
PA D:ADP602 3.8 70.8 1.0
O2A D:ADP602 4.0 70.8 1.0
O1A D:ADP602 4.0 70.8 1.0
O2B D:ADP602 4.2 70.8 1.0
N D:THR38 4.3 86.8 1.0
CE E:LYS207 4.5 86.8 1.0
OE2 D:GLU63 4.5 93.4 1.0
CA D:THR38 4.6 86.8 1.0
CG2 D:THR38 4.7 86.8 1.0
OD2 D:ASP130 5.0 86.8 1.0
NZ D:LYS37 5.0 68.3 1.0

Magnesium binding site 10 out of 24 in 8fwj

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Magnesium binding site 10 out of 24 in the Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of Dodecameric Kaic-Rs-S413E/S414E Complexed with Kaib-Rs Solved By Cryo-Em within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg603

b:71.5
occ:1.00
 OG E:SER279 2.0 86.8 1.0
O2G E:ATP601 2.0 78.9 1.0
O E:HOH704 2.1 73.8 1.0
O E:HOH701 2.5 78.2 1.0
O2B E:ATP601 2.6 78.9 1.0
CB E:SER279 3.2 86.8 1.0
PG E:ATP601 3.3 78.9 1.0
O3B E:ATP601 3.4 78.9 1.0
PB E:ATP601 3.6 78.9 1.0
OE2 E:GLU303 3.7 86.8 1.0
O3G E:ATP601 4.0 78.9 1.0
OD2 E:ASP362 4.0 86.8 1.0
OD1 E:ASP362 4.2 86.8 1.0
O1A E:ATP601 4.3 78.9 1.0
CA E:SER279 4.4 86.8 1.0
O1G E:ATP601 4.4 78.9 1.0
N E:SER279 4.5 86.8 1.0
CG E:ASP362 4.5 86.8 1.0
O3A E:ATP601 4.6 78.9 1.0
CD E:GLU303 4.6 86.8 1.0
O1B E:ATP601 4.7 78.9 1.0
PA E:ATP601 4.9 78.9 1.0

Reference:

W.Pitsawong, R.A.P.Padua, T.Grant, M.S.Hoemberger, R.Otten, N.Bradshaw, N.Grigorieff, D.Kern. From Primordial Clocks to Circadian Oscillators Nature 2023.
ISSN: ESSN 1476-4687
DOI: 10.1038/S41586-023-05836-9
Page generated: Tue Apr 11 16:14:31 2023

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