Magnesium in PDB 8unj: Atomic Model of the Human CTF18-Rfc Alone in the Apo State (State 1)

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Atomic Model of the Human CTF18-Rfc Alone in the Apo State (State 1) (pdb code 8unj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Atomic Model of the Human CTF18-Rfc Alone in the Apo State (State 1), PDB code: 8unj:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 8unj

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Magnesium binding site 1 out of 3 in the Atomic Model of the Human CTF18-Rfc Alone in the Apo State (State 1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Atomic Model of the Human CTF18-Rfc Alone in the Apo State (State 1) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg401

b:110.1
occ:1.00
O2G B:AGS402 2.1 123.3 1.0
OG1 B:THR83 2.1 124.8 1.0
OD2 B:ASP141 2.7 138.0 1.0
OD1 B:ASP141 3.1 138.0 1.0
CG B:ASP141 3.2 138.0 1.0
CB B:THR83 3.3 124.8 1.0
O1B B:AGS402 3.5 123.3 1.0
PG B:AGS402 3.6 123.3 1.0
CG2 B:THR83 3.9 124.8 1.0
O3G B:AGS402 4.2 123.3 1.0
OE2 B:GLU142 4.2 136.3 1.0
O1A B:AGS402 4.4 123.3 1.0
CA B:THR83 4.5 124.8 1.0
PB B:AGS402 4.6 123.3 1.0
O3B B:AGS402 4.6 123.3 1.0
CD B:GLU142 4.6 136.3 1.0
S1G B:AGS402 4.6 123.3 1.0
CG B:GLU142 4.7 136.3 1.0
CB B:ASP141 4.7 138.0 1.0
N B:THR83 4.7 124.8 1.0

Magnesium binding site 2 out of 3 in 8unj

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Magnesium binding site 2 out of 3 in the Atomic Model of the Human CTF18-Rfc Alone in the Apo State (State 1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Atomic Model of the Human CTF18-Rfc Alone in the Apo State (State 1) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg401

b:65.8
occ:1.00
O3G C:AGS402 2.1 75.9 1.0
O1B C:AGS402 3.0 75.9 1.0
OG1 C:THR67 3.0 66.7 1.0
O1A C:AGS402 3.6 75.9 1.0
PG C:AGS402 3.6 75.9 1.0
CB C:THR67 3.8 66.7 1.0
NH1 D:ARG165 3.9 79.2 1.0
OD2 C:ASP125 3.9 94.7 1.0
PB C:AGS402 4.0 75.9 1.0
CG2 C:THR67 4.1 66.7 1.0
CZ D:ARG165 4.3 79.2 1.0
OD1 C:ASP125 4.3 94.7 1.0
O3B C:AGS402 4.4 75.9 1.0
O3A C:AGS402 4.4 75.9 1.0
OE2 C:GLU126 4.4 98.2 1.0
PA C:AGS402 4.5 75.9 1.0
S1G C:AGS402 4.5 75.9 1.0
O2G C:AGS402 4.5 75.9 1.0
CG C:ASP125 4.5 94.7 1.0
NH2 D:ARG165 4.5 79.2 1.0
NE D:ARG165 5.0 79.2 1.0

Magnesium binding site 3 out of 3 in 8unj

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Magnesium binding site 3 out of 3 in the Atomic Model of the Human CTF18-Rfc Alone in the Apo State (State 1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Atomic Model of the Human CTF18-Rfc Alone in the Apo State (State 1) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg401

b:60.2
occ:1.00
O2B D:AGS402 2.1 55.2 1.0
O2G D:AGS402 2.2 55.2 1.0
NH1 D:ARG239 2.5 40.9 1.0
NH2 D:ARG239 2.9 40.9 1.0
CZ D:ARG239 2.9 40.9 1.0
PG D:AGS402 2.9 55.2 1.0
O3B D:AGS402 3.1 55.2 1.0
PB D:AGS402 3.2 55.2 1.0
S1G D:AGS402 3.2 55.2 1.0
OG1 D:THR85 3.5 54.3 1.0
NE D:ARG239 4.0 40.9 1.0
O3A D:AGS402 4.1 55.2 1.0
O2A D:AGS402 4.1 55.2 1.0
O1B D:AGS402 4.3 55.2 1.0
O3G D:AGS402 4.4 55.2 1.0
CB D:THR85 4.5 54.3 1.0
PA D:AGS402 4.6 55.2 1.0
CD D:ARG239 4.7 40.9 1.0
O1A D:AGS402 4.8 55.2 1.0
OE2 D:GLU151 4.9 51.0 1.0
OD1 D:ASP150 4.9 56.5 1.0

Reference:

F.Wang, Q.He, H.Li. Cryo-Em Reveals A Nearly Complete Pcna Loading Process and Unique Features of the Human Alternative Clamp Loader CTF18-Rfc Proc.Natl.Acad.Sci.Usa 2024.
ISSN: ESSN 1091-6490
DOI: 10.1073/PNAS.2319727121
Page generated: Fri Oct 4 21:24:10 2024

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