Atomistry » Magnesium » PDB 5wu3-5x86 » 5wve
Atomistry »
  Magnesium »
    PDB 5wu3-5x86 »
      5wve »

Magnesium in PDB 5wve: Apaf-1-Caspase-9 Holoenzyme

Other elements in 5wve:

The structure of Apaf-1-Caspase-9 Holoenzyme also contains other interesting chemical elements:

Iron (Fe) 7 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Apaf-1-Caspase-9 Holoenzyme (pdb code 5wve). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Apaf-1-Caspase-9 Holoenzyme, PDB code: 5wve:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 5wve

Go back to Magnesium Binding Sites List in 5wve
Magnesium binding site 1 out of 7 in the Apaf-1-Caspase-9 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Apaf-1-Caspase-9 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1302

b:30.0
occ:1.00
O2B A:DTP1301 2.2 20.0 1.0
OG A:SER161 2.4 0.0 1.0
O3G A:DTP1301 2.4 20.0 1.0
PB A:DTP1301 3.5 20.0 1.0
OD2 A:ASP243 3.6 0.0 1.0
CB A:SER161 3.7 0.0 1.0
CG A:ASP243 3.8 0.0 1.0
OD1 A:ASP243 3.8 0.0 1.0
PG A:DTP1301 3.8 20.0 1.0
O3B A:DTP1301 4.0 20.0 1.0
OD2 A:ASP244 4.1 0.0 1.0
O1B A:DTP1301 4.1 20.0 1.0
O2A A:DTP1301 4.3 20.0 1.0
N A:ASP244 4.6 0.0 1.0
CB A:ASP243 4.7 0.0 1.0
O2G A:DTP1301 4.7 20.0 1.0
O3A A:DTP1301 4.7 20.0 1.0
CA A:SER161 4.7 0.0 1.0
N A:SER161 4.8 0.0 1.0
O1G A:DTP1301 4.8 20.0 1.0
CG A:ASP244 4.8 0.0 1.0

Magnesium binding site 2 out of 7 in 5wve

Go back to Magnesium Binding Sites List in 5wve
Magnesium binding site 2 out of 7 in the Apaf-1-Caspase-9 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Apaf-1-Caspase-9 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1302

b:30.0
occ:1.00
O2B C:DTP1301 2.2 20.0 1.0
OG C:SER161 2.4 0.0 1.0
O3G C:DTP1301 2.4 20.0 1.0
PB C:DTP1301 3.5 20.0 1.0
OD2 C:ASP243 3.6 0.0 1.0
CB C:SER161 3.7 0.0 1.0
CG C:ASP243 3.8 0.0 1.0
OD1 C:ASP243 3.8 0.0 1.0
PG C:DTP1301 3.8 20.0 1.0
O3B C:DTP1301 4.0 20.0 1.0
OD2 C:ASP244 4.1 0.0 1.0
O1B C:DTP1301 4.1 20.0 1.0
O2A C:DTP1301 4.3 20.0 1.0
N C:ASP244 4.6 0.0 1.0
CB C:ASP243 4.7 0.0 1.0
O2G C:DTP1301 4.7 20.0 1.0
O3A C:DTP1301 4.7 20.0 1.0
CA C:SER161 4.7 0.0 1.0
N C:SER161 4.8 0.0 1.0
O1G C:DTP1301 4.8 20.0 1.0
CG C:ASP244 4.8 0.0 1.0

Magnesium binding site 3 out of 7 in 5wve

Go back to Magnesium Binding Sites List in 5wve
Magnesium binding site 3 out of 7 in the Apaf-1-Caspase-9 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Apaf-1-Caspase-9 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg1302

b:30.0
occ:1.00
O2B E:DTP1301 2.2 20.0 1.0
OG E:SER161 2.4 0.0 1.0
O3G E:DTP1301 2.4 20.0 1.0
PB E:DTP1301 3.5 20.0 1.0
OD2 E:ASP243 3.6 0.0 1.0
CB E:SER161 3.7 0.0 1.0
CG E:ASP243 3.8 0.0 1.0
OD1 E:ASP243 3.8 0.0 1.0
PG E:DTP1301 3.8 20.0 1.0
O3B E:DTP1301 4.0 20.0 1.0
OD2 E:ASP244 4.1 0.0 1.0
O1B E:DTP1301 4.1 20.0 1.0
O2A E:DTP1301 4.3 20.0 1.0
N E:ASP244 4.6 0.0 1.0
CB E:ASP243 4.7 0.0 1.0
O2G E:DTP1301 4.7 20.0 1.0
O3A E:DTP1301 4.7 20.0 1.0
CA E:SER161 4.7 0.0 1.0
N E:SER161 4.8 0.0 1.0
O1G E:DTP1301 4.8 20.0 1.0
CG E:ASP244 4.8 0.0 1.0

Magnesium binding site 4 out of 7 in 5wve

Go back to Magnesium Binding Sites List in 5wve
Magnesium binding site 4 out of 7 in the Apaf-1-Caspase-9 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Apaf-1-Caspase-9 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg1302

b:30.0
occ:1.00
O2B G:DTP1301 2.2 20.0 1.0
OG G:SER161 2.4 0.0 1.0
O3G G:DTP1301 2.4 20.0 1.0
PB G:DTP1301 3.5 20.0 1.0
OD2 G:ASP243 3.6 0.0 1.0
CB G:SER161 3.7 0.0 1.0
CG G:ASP243 3.8 0.0 1.0
OD1 G:ASP243 3.8 0.0 1.0
PG G:DTP1301 3.8 20.0 1.0
O3B G:DTP1301 4.0 20.0 1.0
OD2 G:ASP244 4.1 0.0 1.0
O1B G:DTP1301 4.1 20.0 1.0
O2A G:DTP1301 4.3 20.0 1.0
N G:ASP244 4.6 0.0 1.0
CB G:ASP243 4.7 0.0 1.0
O2G G:DTP1301 4.7 20.0 1.0
O3A G:DTP1301 4.7 20.0 1.0
CA G:SER161 4.7 0.0 1.0
N G:SER161 4.8 0.0 1.0
O1G G:DTP1301 4.8 20.0 1.0
CG G:ASP244 4.8 0.0 1.0

Magnesium binding site 5 out of 7 in 5wve

Go back to Magnesium Binding Sites List in 5wve
Magnesium binding site 5 out of 7 in the Apaf-1-Caspase-9 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Apaf-1-Caspase-9 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg1302

b:30.0
occ:1.00
O2B I:DTP1301 2.2 20.0 1.0
OG I:SER161 2.4 0.0 1.0
O3G I:DTP1301 2.4 20.0 1.0
PB I:DTP1301 3.5 20.0 1.0
OD2 I:ASP243 3.6 0.0 1.0
CB I:SER161 3.7 0.0 1.0
CG I:ASP243 3.8 0.0 1.0
OD1 I:ASP243 3.8 0.0 1.0
PG I:DTP1301 3.8 20.0 1.0
O3B I:DTP1301 4.0 20.0 1.0
OD2 I:ASP244 4.1 0.0 1.0
O1B I:DTP1301 4.1 20.0 1.0
O2A I:DTP1301 4.3 20.0 1.0
N I:ASP244 4.6 0.0 1.0
CB I:ASP243 4.7 0.0 1.0
O2G I:DTP1301 4.7 20.0 1.0
O3A I:DTP1301 4.7 20.0 1.0
CA I:SER161 4.7 0.0 1.0
N I:SER161 4.8 0.0 1.0
O1G I:DTP1301 4.8 20.0 1.0
CG I:ASP244 4.8 0.0 1.0

Magnesium binding site 6 out of 7 in 5wve

Go back to Magnesium Binding Sites List in 5wve
Magnesium binding site 6 out of 7 in the Apaf-1-Caspase-9 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Apaf-1-Caspase-9 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Mg1302

b:30.0
occ:1.00
O2B K:DTP1301 2.2 20.0 1.0
O3G K:DTP1301 2.4 20.0 1.0
OG K:SER161 2.4 0.0 1.0
PB K:DTP1301 3.5 20.0 1.0
OD2 K:ASP243 3.6 0.0 1.0
CB K:SER161 3.7 0.0 1.0
CG K:ASP243 3.8 0.0 1.0
OD1 K:ASP243 3.8 0.0 1.0
PG K:DTP1301 3.8 20.0 1.0
O3B K:DTP1301 4.0 20.0 1.0
OD2 K:ASP244 4.1 0.0 1.0
O1B K:DTP1301 4.1 20.0 1.0
O2A K:DTP1301 4.3 20.0 1.0
N K:ASP244 4.6 0.0 1.0
CB K:ASP243 4.7 0.0 1.0
O2G K:DTP1301 4.7 20.0 1.0
O3A K:DTP1301 4.7 20.0 1.0
CA K:SER161 4.7 0.0 1.0
N K:SER161 4.8 0.0 1.0
O1G K:DTP1301 4.8 20.0 1.0
CG K:ASP244 4.8 0.0 1.0

Magnesium binding site 7 out of 7 in 5wve

Go back to Magnesium Binding Sites List in 5wve
Magnesium binding site 7 out of 7 in the Apaf-1-Caspase-9 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Apaf-1-Caspase-9 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Mg1302

b:30.0
occ:1.00
O2B M:DTP1301 2.2 20.0 1.0
OG M:SER161 2.4 0.0 1.0
O3G M:DTP1301 2.4 20.0 1.0
PB M:DTP1301 3.5 20.0 1.0
OD2 M:ASP243 3.6 0.0 1.0
CB M:SER161 3.7 0.0 1.0
CG M:ASP243 3.8 0.0 1.0
OD1 M:ASP243 3.8 0.0 1.0
PG M:DTP1301 3.8 20.0 1.0
O3B M:DTP1301 4.0 20.0 1.0
OD2 M:ASP244 4.1 0.0 1.0
O1B M:DTP1301 4.1 20.0 1.0
O2A M:DTP1301 4.3 20.0 1.0
N M:ASP244 4.6 0.0 1.0
CB M:ASP243 4.7 0.0 1.0
O2G M:DTP1301 4.7 20.0 1.0
O3A M:DTP1301 4.7 20.0 1.0
CA M:SER161 4.7 0.0 1.0
N M:SER161 4.8 0.0 1.0
O1G M:DTP1301 4.8 20.0 1.0
CG M:ASP244 4.8 0.0 1.0

Reference:

Y.Li, M.Zhou, Q.Hu, X.-C.Bai, W.Huang, S.H.W.Scheres, Y.Shi. Mechanistic Insights Into Caspase-9 Activation By the Structure of the Apoptosome Holoenzyme Proc. Natl. Acad. Sci. V. 114 1542 2017U.S.A..
ISSN: ESSN 1091-6490
PubMed: 28143931
DOI: 10.1073/PNAS.1620626114
Page generated: Mon Sep 30 08:56:36 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy