Magnesium in PDB 3j1f: Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State

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>>> Page 1 <<< Page 2, Binding sites: 11 - 18;

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State (pdb code 3j1f). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 18 binding sites of Magnesium where determined in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State, PDB code: 3j1f:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


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 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg801 b:0.0 occ:1.00 O2B A:ATP800 1.8 0.0 1.0 O3G A:ATP800 1.9 0.0 1.0 O2A A:ATP800 1.9 0.0 1.0 OD2 A:ASP102 1.9 0.0 1.0 PB A:ATP800 3.0 0.0 1.0 CG A:ASP102 3.0 0.0 1.0 PG A:ATP800 3.1 0.0 1.0 PA A:ATP800 3.1 0.0 1.0 O3B A:ATP800 3.3 0.0 1.0 OD1 A:ASP102 3.5 0.0 1.0 O3A A:ATP800 3.6 0.0 1.0 O2G A:ATP800 3.7 0.0 1.0 O5' A:ATP800 4.0 0.0 1.0 N A:GLY103 4.2 0.0 1.0 O1A A:ATP800 4.3 0.0 1.0 O1G A:ATP800 4.3 0.0 1.0 O1B A:ATP800 4.3 0.0 1.0 CB A:ASP102 4.3 0.0 1.0 CA A:ASP102 4.5 0.0 1.0 C A:ASP102 4.8 0.0 1.0 NZ A:LYS105 5.0 0.0 1.0

Magnesium binding site 2 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


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 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg801 b:0.0 occ:1.00 OD2 B:ASP102 1.8 0.0 1.0 O2B B:ATP800 1.8 0.0 1.0 O3G B:ATP800 1.9 0.0 1.0 O2A B:ATP800 2.0 0.0 1.0 CG B:ASP102 3.0 0.0 1.0 PB B:ATP800 3.0 0.0 1.0 PG B:ATP800 3.1 0.0 1.0 PA B:ATP800 3.2 0.0 1.0 OD1 B:ASP102 3.4 0.0 1.0 O3B B:ATP800 3.5 0.0 1.0 O3A B:ATP800 3.5 0.0 1.0 N B:GLY103 3.9 0.0 1.0 O2G B:ATP800 4.0 0.0 1.0 O1A B:ATP800 4.1 0.0 1.0 O5' B:ATP800 4.2 0.0 1.0 CB B:ASP102 4.2 0.0 1.0 O1G B:ATP800 4.3 0.0 1.0 O1B B:ATP800 4.5 0.0 1.0 CA B:ASP102 4.6 0.0 1.0 CA B:GLY103 4.6 0.0 1.0 C B:ASP102 4.7 0.0 1.0

Magnesium binding site 3 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


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 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg801 b:0.0 occ:1.00 OD2 C:ASP102 1.8 0.0 1.0 O2B C:ATP800 1.8 0.0 1.0 O3G C:ATP800 1.8 0.0 1.0 O2A C:ATP800 2.0 0.0 1.0 CG C:ASP102 2.9 0.0 1.0 PB C:ATP800 3.0 0.0 1.0 PG C:ATP800 3.1 0.0 1.0 PA C:ATP800 3.2 0.0 1.0 O3B C:ATP800 3.3 0.0 1.0 OD1 C:ASP102 3.5 0.0 1.0 O3A C:ATP800 3.6 0.0 1.0 N C:GLY103 3.6 0.0 1.0 O2G C:ATP800 3.9 0.0 1.0 O5' C:ATP800 4.1 0.0 1.0 O1A C:ATP800 4.2 0.0 1.0 CB C:ASP102 4.2 0.0 1.0 O1G C:ATP800 4.3 0.0 1.0 CA C:ASP102 4.3 0.0 1.0 O1B C:ATP800 4.3 0.0 1.0 C C:ASP102 4.4 0.0 1.0 CA C:GLY103 4.6 0.0 1.0 C5' C:ATP800 4.9 0.0 1.0

Magnesium binding site 4 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


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 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg801 b:0.0 occ:1.00 O3G D:ATP800 1.8 0.0 1.0 OD2 D:ASP102 1.9 0.0 1.0 O2A D:ATP800 1.9 0.0 1.0 O2B D:ATP800 1.9 0.0 1.0 CG D:ASP102 2.9 0.0 1.0 PB D:ATP800 3.1 0.0 1.0 PG D:ATP800 3.1 0.0 1.0 PA D:ATP800 3.1 0.0 1.0 OD1 D:ASP102 3.3 0.0 1.0 O3B D:ATP800 3.4 0.0 1.0 O3A D:ATP800 3.5 0.0 1.0 O2G D:ATP800 3.9 0.0 1.0 O5' D:ATP800 3.9 0.0 1.0 NZ D:LYS172 3.9 0.0 1.0 N D:GLY103 3.9 0.0 1.0 CB D:ASP102 4.1 0.0 1.0 O1G D:ATP800 4.2 0.0 1.0 O1A D:ATP800 4.3 0.0 1.0 O1B D:ATP800 4.5 0.0 1.0 CA D:ASP102 4.5 0.0 1.0 CE D:LYS172 4.6 0.0 1.0 C D:ASP102 4.6 0.0 1.0 CA D:GLY103 4.7 0.0 1.0

Magnesium binding site 5 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


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 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg801 b:0.0 occ:1.00 O3G E:ATP800 1.8 0.0 1.0 OD2 E:ASP102 1.9 0.0 1.0 O2A E:ATP800 1.9 0.0 1.0 O2B E:ATP800 2.0 0.0 1.0 CG E:ASP102 2.9 0.0 1.0 PB E:ATP800 3.0 0.0 1.0 PG E:ATP800 3.1 0.0 1.0 OD1 E:ASP102 3.2 0.0 1.0 PA E:ATP800 3.2 0.0 1.0 O3B E:ATP800 3.5 0.0 1.0 O3A E:ATP800 3.6 0.0 1.0 O2G E:ATP800 3.9 0.0 1.0 N E:GLY103 3.9 0.0 1.0 O5' E:ATP800 4.2 0.0 1.0 CB E:ASP102 4.2 0.0 1.0 O1A E:ATP800 4.2 0.0 1.0 O1G E:ATP800 4.2 0.0 1.0 O1B E:ATP800 4.3 0.0 1.0 CA E:ASP102 4.6 0.0 1.0 OE1 E:GLU504 4.6 0.0 1.0 CA E:GLY103 4.6 0.0 1.0 C E:ASP102 4.7 0.0 1.0 O3' E:ATP800 4.8 0.0 1.0 C3' E:ATP800 5.0 0.0 1.0

Magnesium binding site 6 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


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 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg801 b:0.0 occ:1.00 O1G F:ATP800 1.9 0.0 1.0 O2B F:ATP800 1.9 0.0 1.0 O2A F:ATP800 1.9 0.0 1.0 OD2 F:ASP102 1.9 0.0 1.0 PB F:ATP800 3.0 0.0 1.0 CG F:ASP102 3.0 0.0 1.0 PG F:ATP800 3.1 0.0 1.0 PA F:ATP800 3.1 0.0 1.0 O3B F:ATP800 3.5 0.0 1.0 OD1 F:ASP102 3.5 0.0 1.0 O3A F:ATP800 3.6 0.0 1.0 O2G F:ATP800 3.9 0.0 1.0 N F:GLY103 3.9 0.0 1.0 O1A F:ATP800 4.0 0.0 1.0 CB F:ASP102 4.2 0.0 1.0 O5' F:ATP800 4.3 0.0 1.0 O3G F:ATP800 4.3 0.0 1.0 O1B F:ATP800 4.3 0.0 1.0 CA F:ASP102 4.5 0.0 1.0 C F:ASP102 4.7 0.0 1.0 CA F:GLY103 4.8 0.0 1.0 O3' F:ATP800 4.8 0.0 1.0 OE1 F:GLU504 4.8 0.0 1.0

Magnesium binding site 7 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


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 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg801 b:0.0 occ:1.00 O3G G:ATP800 1.8 0.0 1.0 O2B G:ATP800 1.8 0.0 1.0 OD2 G:ASP102 1.9 0.0 1.0 O2A G:ATP800 1.9 0.0 1.0 PB G:ATP800 2.9 0.0 1.0 CG G:ASP102 3.0 0.0 1.0 PG G:ATP800 3.0 0.0 1.0 PA G:ATP800 3.2 0.0 1.0 O3B G:ATP800 3.4 0.0 1.0 O3A G:ATP800 3.4 0.0 1.0 OD1 G:ASP102 3.4 0.0 1.0 O2G G:ATP800 3.9 0.0 1.0 N G:GLY103 4.0 0.0 1.0 O5' G:ATP800 4.0 0.0 1.0 O1G G:ATP800 4.1 0.0 1.0 O1B G:ATP800 4.2 0.0 1.0 CB G:ASP102 4.2 0.0 1.0 O1A G:ATP800 4.3 0.0 1.0 CA G:ASP102 4.4 0.0 1.0 C G:ASP102 4.7 0.0 1.0 CA G:GLY103 4.9 0.0 1.0

Magnesium binding site 8 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


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 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg801 b:0.0 occ:1.00 O1G H:ATP800 1.8 0.0 1.0 O2B H:ATP800 1.8 0.0 1.0 O2A H:ATP800 1.9 0.0 1.0 OD2 H:ASP102 1.9 0.0 1.0 CG H:ASP102 3.0 0.0 1.0 PB H:ATP800 3.0 0.0 1.0 PG H:ATP800 3.1 0.0 1.0 PA H:ATP800 3.2 0.0 1.0 OD1 H:ASP102 3.4 0.0 1.0 O3B H:ATP800 3.5 0.0 1.0 O3A H:ATP800 3.5 0.0 1.0 N H:GLY103 3.8 0.0 1.0 O2G H:ATP800 3.9 0.0 1.0 O5' H:ATP800 4.1 0.0 1.0 O1A H:ATP800 4.2 0.0 1.0 O3G H:ATP800 4.2 0.0 1.0 CB H:ASP102 4.2 0.0 1.0 O1B H:ATP800 4.3 0.0 1.0 CA H:ASP102 4.5 0.0 1.0 CA H:GLY103 4.6 0.0 1.0 C H:ASP102 4.7 0.0 1.0 C5' H:ATP800 4.8 0.0 1.0

Magnesium binding site 9 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg801 b:0.0 occ:1.00 O1G I:ATP800 1.8 0.0 1.0 OD1 I:ASP102 1.9 0.0 1.0 O2B I:ATP800 1.9 0.0 1.0 O2A I:ATP800 1.9 0.0 1.0 CG I:ASP102 2.9 0.0 1.0 PB I:ATP800 3.0 0.0 1.0 PG I:ATP800 3.0 0.0 1.0 PA I:ATP800 3.2 0.0 1.0 O3B I:ATP800 3.3 0.0 1.0 OD2 I:ASP102 3.4 0.0 1.0 O3A I:ATP800 3.5 0.0 1.0 O2G I:ATP800 3.6 0.0 1.0 N I:GLY103 4.0 0.0 1.0 O1A I:ATP800 4.1 0.0 1.0 CB I:ASP102 4.2 0.0 1.0 O1B I:ATP800 4.3 0.0 1.0 O3G I:ATP800 4.3 0.0 1.0 O5' I:ATP800 4.3 0.0 1.0 CA I:ASP102 4.4 0.0 1.0 C I:ASP102 4.6 0.0 1.0 CA I:GLY103 4.8 0.0 1.0

Magnesium binding site 10 out of 18 in the Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryo-Em Structure of 9-Fold Symmetric Ratcpn-Beta in Atp-Binding State within 5.0Å range: probe atom residue distance (Å) B Occ K:Mg801 b:0.0 occ:1.00 OD2 K:ASP102 1.8 0.0 1.0 O1A K:ATP800 1.8 0.0 1.0 O2G K:ATP800 1.9 0.0 1.0 O1B K:ATP800 1.9 0.0 1.0 CG K:ASP102 3.0 0.0 1.0 PB K:ATP800 3.0 0.0 1.0 PG K:ATP800 3.1 0.0 1.0 PA K:ATP800 3.1 0.0 1.0 O3B K:ATP800 3.4 0.0 1.0 OD1 K:ASP102 3.5 0.0 1.0 O3A K:ATP800 3.6 0.0 1.0 N K:GLY103 3.9 0.0 1.0 O5' K:ATP800 4.0 0.0 1.0 O1G K:ATP800 4.1 0.0 1.0 O3G K:ATP800 4.1 0.0 1.0 CB K:ASP102 4.1 0.0 1.0 O2A K:ATP800 4.2 0.0 1.0 CA K:ASP102 4.3 0.0 1.0 O2B K:ATP800 4.3 0.0 1.0 C K:ASP102 4.6 0.0 1.0 CA K:GLY103 4.9 0.0 1.0

K.Zhang, L.Wang, Y.Liu, K.Y.Chan, X.Pang, K.Schulten, Z.Dong, F.Sun. Flexible Interwoven Termini Determine the Thermal Stability of Thermosomes. Protein Cell V. 4 432 2013.
ISSN: ISSN 1674-800X
PubMed: 23709365
DOI: 10.1007/S13238-013-3026-9