Atomistry » Magnesium » PDB 7tf9-7tlk » 7tic
Atomistry »
  Magnesium »
    PDB 7tf9-7tlk »
      7tic »

Magnesium in PDB 7tic: Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation (pdb code 7tic). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation, PDB code: 7tic:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 7tic

Go back to Magnesium Binding Sites List in 7tic
Magnesium binding site 1 out of 4 in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg902

b:48.9
occ:1.00
O1B A:AGS901 2.1 47.6 1.0
OG1 A:THR360 2.2 37.8 1.0
O3G A:AGS901 2.3 47.6 1.0
CB A:THR360 3.2 37.8 1.0
PB A:AGS901 3.5 47.6 1.0
OD2 A:ASP424 3.5 41.5 1.0
PG A:AGS901 3.7 47.6 1.0
OD1 A:ASP424 3.8 41.5 1.0
CG2 A:THR360 3.9 37.8 1.0
O1A A:AGS901 4.0 47.6 1.0
CG A:ASP424 4.0 41.5 1.0
O3B A:AGS901 4.1 47.6 1.0
O3A A:AGS901 4.2 47.6 1.0
O2G A:AGS901 4.2 47.6 1.0
CA A:THR360 4.4 37.8 1.0
N A:THR360 4.6 37.8 1.0
O2B A:AGS901 4.6 47.6 1.0
PA A:AGS901 4.6 47.6 1.0
NH2 B:ARG157 4.6 52.5 1.0
NH1 B:ARG129 4.7 42.4 1.0

Magnesium binding site 2 out of 4 in 7tic

Go back to Magnesium Binding Sites List in 7tic
Magnesium binding site 2 out of 4 in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg402

b:55.6
occ:1.00
OG1 B:THR56 2.1 45.8 1.0
O3G B:AGS401 2.3 60.3 1.0
O1B B:AGS401 2.4 60.3 1.0
OE2 B:GLU115 3.4 55.6 1.0
CB B:THR56 3.4 45.8 1.0
PG B:AGS401 3.6 60.3 1.0
PB B:AGS401 3.7 60.3 1.0
O3B B:AGS401 4.0 60.3 1.0
S1G B:AGS401 4.1 60.3 1.0
CG2 B:THR56 4.2 45.8 1.0
N B:THR56 4.5 45.8 1.0
CA B:THR56 4.5 45.8 1.0
NH1 C:ARG131 4.5 93.2 1.0
CD B:GLU115 4.6 55.6 1.0
O3A B:AGS401 4.6 60.3 1.0
O1A B:AGS401 4.7 60.3 1.0
O2B B:AGS401 4.8 60.3 1.0
OD2 B:ASP114 4.8 50.7 1.0
O2G B:AGS401 4.8 60.3 1.0
NH1 C:ARG132 4.8 90.2 1.0
CG B:ASP114 4.9 50.7 1.0
NZ B:LYS55 5.0 48.2 1.0
CB B:ASP114 5.0 50.7 1.0

Magnesium binding site 3 out of 4 in 7tic

Go back to Magnesium Binding Sites List in 7tic
Magnesium binding site 3 out of 4 in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg402

b:88.9
occ:1.00
O1B C:AGS401 2.0 98.1 1.0
O1A C:AGS401 2.0 98.1 1.0
O3G C:AGS401 2.0 98.1 1.0
OG1 C:THR60 2.2 81.9 1.0
PA C:AGS401 2.5 98.1 1.0
O3A C:AGS401 2.6 98.1 1.0
PB C:AGS401 2.6 98.1 1.0
CB C:THR60 2.7 81.9 1.0
O2A C:AGS401 2.8 98.1 1.0
PG C:AGS401 3.1 98.1 1.0
O3B C:AGS401 3.2 98.1 1.0
N C:THR60 3.6 81.9 1.0
CA C:THR60 3.8 81.9 1.0
CG2 C:THR60 3.8 81.9 1.0
NH2 C:ARG206 4.0 111.7 1.0
O5' C:AGS401 4.0 98.1 1.0
S1G C:AGS401 4.0 98.1 1.0
O2B C:AGS401 4.1 98.1 1.0
O2G C:AGS401 4.4 98.1 1.0
C5' C:AGS401 4.7 98.1 1.0
N C:SER61 4.7 81.9 1.0
C C:THR60 4.7 81.9 1.0
C C:LYS59 4.9 79.9 1.0

Magnesium binding site 4 out of 4 in 7tic

Go back to Magnesium Binding Sites List in 7tic
Magnesium binding site 4 out of 4 in the Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of the Yeast Clamp Loader (Replication Factor C Rfc) Bound to the Sliding Clamp (Proliferating Cell Nuclear Antigen Pcna) in An Autoinhibited Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg402

b:165.8
occ:1.00
O2B D:AGS401 2.1 162.9 1.0
OG1 D:THR72 2.2 179.9 1.0
O3G D:AGS401 2.3 162.9 1.0
O2A D:AGS401 2.3 162.9 1.0
CB D:THR72 3.3 179.9 1.0
PB D:AGS401 3.4 162.9 1.0
PG D:AGS401 3.6 162.9 1.0
PA D:AGS401 3.6 162.9 1.0
O3B D:AGS401 3.8 162.9 1.0
OD1 D:ASP140 3.8 193.4 1.0
O3A D:AGS401 4.0 162.9 1.0
CG2 D:THR72 4.1 179.9 1.0
O1A D:AGS401 4.2 162.9 1.0
CG D:LYS71 4.4 175.0 1.0
N D:THR72 4.4 179.9 1.0
S1G D:AGS401 4.5 162.9 1.0
CA D:THR72 4.5 179.9 1.0
CG D:ASP140 4.6 193.4 1.0
OD2 D:ASP140 4.6 193.4 1.0
O1B D:AGS401 4.6 162.9 1.0
CD D:LYS71 4.7 175.0 1.0
O2G D:AGS401 4.8 162.9 1.0
O5' D:AGS401 4.9 162.9 1.0

Reference:

C.Gaubitz, X.Liu, J.Pajak, N.P.Stone, J.A.Hayes, G.Demo, B.A.Kelch Phd. Cryo-Em Structures Reveal High-Resolution Mechanism of A Dna Polymerase Sliding Clamp Loader. Elife V. 11 2022.
ISSN: ESSN 2050-084X
PubMed: 35179493
DOI: 10.7554/ELIFE.74175
Page generated: Thu Oct 3 09:16:46 2024

Last articles

Cl in 2QD8
Cl in 2QD6
Cl in 2QD4
Cl in 2QC8
Cl in 2QCI
Cl in 2QCE
Cl in 2QCB
Cl in 2QA9
Cl in 2Q9O
Cl in 2Q8N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy