Atomistry » Magnesium » PDB 6rdi-6rev » 6ree
Atomistry »
  Magnesium »
    PDB 6rdi-6rev »
      6ree »

Magnesium in PDB 6ree: Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map

Enzymatic activity of Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map

All present enzymatic activity of Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map:
7.1.2.2;

Other elements in 6ree:

The structure of Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map (pdb code 6ree). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map, PDB code: 6ree:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 6ree

Go back to Magnesium Binding Sites List in 6ree
Magnesium binding site 1 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map


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 Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map within 5.0Å range:
probe atom residue distance (Å) B Occ
T:Mg1002

b:35.2
occ:1.00
 OG1 T:THR232 2.2 32.8 1.0
O3G T:ATP1001 2.3 36.8 1.0
O2B T:ATP1001 2.6 36.8 1.0
OD2 T:ASP325 3.1 34.3 1.0
CB T:THR232 3.5 32.8 1.0
PG T:ATP1001 3.6 36.8 1.0
PB T:ATP1001 3.9 36.8 1.0
O3B T:ATP1001 4.0 36.8 1.0
CG2 T:THR232 4.1 32.8 1.0
CG T:ASP325 4.1 34.3 1.0
O1G T:ATP1001 4.2 36.8 1.0
NE2 T:GLN264 4.3 32.4 1.0
O2A T:ATP1001 4.4 36.8 1.0
OD1 T:ASP325 4.4 34.3 1.0
CA T:THR232 4.6 32.8 1.0
N T:THR232 4.6 32.8 1.0
O1B T:ATP1001 4.8 36.8 1.0
O2G T:ATP1001 4.8 36.8 1.0
OD2 T:ASP326 4.8 36.6 1.0
CD T:GLN264 5.0 32.4 1.0
O3A T:ATP1001 5.0 36.8 1.0

Magnesium binding site 2 out of 5 in 6ree

Go back to Magnesium Binding Sites List in 6ree
Magnesium binding site 2 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map


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 Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map within 5.0Å range:
probe atom residue distance (Å) B Occ
U:Mg1002

b:37.9
occ:1.00
 O3G U:ATP1001 2.2 40.5 1.0
OG1 U:THR232 2.2 33.4 1.0
O1B U:ATP1001 2.5 40.5 1.0
OD1 U:ASP325 3.5 29.5 1.0
PG U:ATP1001 3.6 40.5 1.0
CB U:THR232 3.6 33.4 1.0
PB U:ATP1001 3.7 40.5 1.0
O3B U:ATP1001 3.9 40.5 1.0
OD2 U:ASP325 4.1 29.5 1.0
CG U:ASP325 4.2 29.5 1.0
O1G U:ATP1001 4.2 40.5 1.0
OD1 U:ASP326 4.3 33.1 1.0
CG2 U:THR232 4.3 33.4 1.0
OD2 U:ASP326 4.4 33.1 1.0
O2B U:ATP1001 4.4 40.5 1.0
N U:THR232 4.5 33.4 1.0
CA U:THR232 4.6 33.4 1.0
O2A U:ATP1001 4.6 40.5 1.0
CG U:ASP326 4.7 33.1 1.0
O2G U:ATP1001 4.7 40.5 1.0
NE2 U:GLN264 4.8 29.7 1.0
O3A U:ATP1001 4.9 40.5 1.0

Magnesium binding site 3 out of 5 in 6ree

Go back to Magnesium Binding Sites List in 6ree
Magnesium binding site 3 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map


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 Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map within 5.0Å range:
probe atom residue distance (Å) B Occ
V:Mg1002

b:31.4
occ:1.00
 OG1 V:THR232 2.2 31.3 1.0
O1B V:ATP1001 2.5 37.9 1.0
O3G V:ATP1001 2.7 37.9 1.0
O1G V:ATP1001 3.1 37.9 1.0
PG V:ATP1001 3.4 37.9 1.0
OD2 V:ASP325 3.5 28.7 1.0
CB V:THR232 3.5 31.3 1.0
PB V:ATP1001 3.8 37.9 1.0
OD1 V:ASP325 4.0 28.7 1.0
CG2 V:THR232 4.0 31.3 1.0
O3B V:ATP1001 4.1 37.9 1.0
O1A V:ATP1001 4.1 37.9 1.0
CG V:ASP325 4.1 28.7 1.0
OD2 V:ASP326 4.2 30.1 1.0
NE2 V:GLN264 4.5 27.3 1.0
CA V:THR232 4.6 31.3 1.0
N V:THR232 4.6 31.3 1.0
O2B V:ATP1001 4.8 37.9 1.0
O2G V:ATP1001 4.8 37.9 1.0
CG V:ASP326 4.9 30.1 1.0
CD V:GLN264 4.9 27.3 1.0
O3A V:ATP1001 4.9 37.9 1.0

Magnesium binding site 4 out of 5 in 6ree

Go back to Magnesium Binding Sites List in 6ree
Magnesium binding site 4 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map


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 Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Mg602

b:37.0
occ:1.00
 OG1 X:THR190 2.3 38.8 1.0
O2B X:ADP601 2.3 43.8 1.0
OE2 X:GLU215 3.1 31.9 1.0
PB X:ADP601 3.5 43.8 1.0
OE2 X:GLU219 3.6 35.0 1.0
CB X:THR190 3.7 38.8 1.0
NH1 X:ARG216 3.7 31.4 1.0
CD X:GLU215 3.9 31.9 1.0
O1B X:ADP601 4.0 43.8 1.0
OE1 X:GLU219 4.1 35.0 1.0
O3B X:ADP601 4.3 43.8 1.0
CD X:GLU219 4.3 35.0 1.0
OD1 X:ASP285 4.3 33.0 1.0
ND2 X:ASN286 4.3 31.1 1.0
CG2 X:THR190 4.4 38.8 1.0
N X:THR190 4.4 38.8 1.0
OD2 X:ASP285 4.4 33.0 1.0
OE1 X:GLU215 4.4 31.9 1.0
O1A X:ADP601 4.5 43.8 1.0
CA X:THR190 4.6 38.8 1.0
CG X:GLU215 4.6 31.9 1.0
O3A X:ADP601 4.7 43.8 1.0
CG X:ASP285 4.8 33.0 1.0
CE X:LYS189 4.9 36.5 1.0

Magnesium binding site 5 out of 5 in 6ree

Go back to Magnesium Binding Sites List in 6ree
Magnesium binding site 5 out of 5 in the Cryo-Em Structure of Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map


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 Polytomella F-Atp Synthase, Rotary Substate 3B, Composite Map within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Mg602

b:29.1
occ:1.00
 OG1 Z:THR190 2.3 33.6 1.0
OE1 Z:GLU215 2.3 31.9 1.0
O3B Z:ADP601 2.3 36.6 1.0
NH1 Z:ARG216 3.0 28.6 1.0
CD Z:GLU215 3.1 31.9 1.0
OE2 Z:GLU215 3.6 31.9 1.0
CB Z:THR190 3.6 33.6 1.0
OE1 Z:GLU219 3.6 32.2 1.0
O2A Z:ADP601 3.7 36.6 1.0
PB Z:ADP601 3.7 36.6 1.0
OE2 Z:GLU219 3.8 32.2 1.0
CG2 Z:THR190 4.1 33.6 1.0
CD Z:GLU219 4.1 32.2 1.0
O2B Z:ADP601 4.2 36.6 1.0
CG Z:GLU215 4.2 31.9 1.0
CZ Z:ARG216 4.2 28.6 1.0
OD2 Z:ASP285 4.5 33.9 1.0
O3A Z:ADP601 4.6 36.6 1.0
NH2 Z:ARG216 4.6 28.6 1.0
PA Z:ADP601 4.6 36.6 1.0
ND2 Z:ASN286 4.7 30.8 1.0
OD1 Z:ASP285 4.7 33.9 1.0
CA Z:THR190 4.7 33.6 1.0
O1B Z:ADP601 4.8 36.6 1.0
N Z:THR190 4.8 33.6 1.0
CG Z:ASP285 5.0 33.9 1.0

Reference:

B.J.Murphy, N.Klusch, J.Langer, D.J.Mills, O.Yildiz, W.Kuhlbrandt. Rotary Substates of Mitochondrial Atp Synthase Reveal the Basis of Flexible F1-Focoupling. Science V. 364 2019.
ISSN: ESSN 1095-9203
PubMed: 31221832
DOI: 10.1126/SCIENCE.AAW9128
Page generated: Tue Oct 1 16:55:31 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy