Magnesium in PDB 8dbn: Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer

Enzymatic activity of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer

All present enzymatic activity of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer:
2.7.6.1;

Magnesium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Magnesium atom in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer (pdb code 8dbn). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 12 binding sites of Magnesium where determined in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer, PDB code: 8dbn:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 1 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg403

b:22.4
occ:1.00
 NE2 A:HIS130 2.2 20.7 1.0
O1B A:ATP401 2.3 33.6 1.0
O1A A:ATP401 2.3 29.8 1.0
O1G A:ATP401 2.7 33.3 1.0
CD2 A:HIS130 3.1 20.7 1.0
CE1 A:HIS130 3.2 20.7 1.0
PB A:ATP401 3.3 35.6 1.0
PA A:ATP401 3.5 31.5 1.0
O3A A:ATP401 3.6 26.3 1.0
PG A:ATP401 3.7 52.1 1.0
O3B A:ATP401 3.8 32.1 1.0
NZ A:LYS99 3.9 21.9 1.0
OD1 A:ASP98 4.1 20.6 1.0
OD2 A:ASP98 4.2 20.6 1.0
ND1 A:HIS130 4.3 20.7 1.0
CG A:HIS130 4.3 20.7 1.0
O3G A:ATP401 4.4 38.7 1.0
CE A:LYS99 4.4 21.9 1.0
O5' A:ATP401 4.5 35.2 1.0
CG A:ASP98 4.5 20.6 1.0
C5' A:ATP401 4.5 29.7 1.0
O2A A:ATP401 4.6 36.2 1.0
O A:ARG96 4.7 21.9 1.0
O2B A:ATP401 4.7 36.8 1.0

Magnesium binding site 2 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 2 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg404

b:30.0
occ:1.00
 OD2 A:ASP171 2.3 25.8 1.0
O3 A:HSX402 2.4 28.6 1.0
O1 A:HSX402 2.7 33.1 1.0
O2 A:HSX402 3.0 31.1 1.0
CG A:ASP171 3.0 25.8 1.0
OD1 A:ASP171 3.0 25.8 1.0
C3 A:HSX402 3.4 26.7 1.0
C2 A:HSX402 3.5 27.3 1.0
OD1 A:ASP220 3.6 25.8 1.0
C1 A:HSX402 3.6 25.1 1.0
OD1 A:ASP221 3.9 25.3 1.0
OD2 A:ASP220 3.9 25.8 1.0
CG A:ASP220 4.2 25.8 1.0
C4 A:HSX402 4.3 25.2 1.0
O4 A:HSX402 4.3 31.5 1.0
N A:GLY174 4.4 25.3 1.0
CB A:ASP171 4.4 25.8 1.0
O2A A:ATP401 4.5 36.2 1.0
O1G A:ATP401 4.6 33.3 1.0
C A:GLY173 4.6 26.0 1.0
O2G A:ATP401 4.7 42.0 1.0
CA A:GLY173 4.7 26.0 1.0
CE1 A:HIS130 5.0 20.7 1.0
N A:GLY173 5.0 26.0 1.0
CG A:ASP221 5.0 25.3 1.0
CA A:GLY174 5.0 25.3 1.0

Magnesium binding site 3 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 3 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg403

b:22.4
occ:1.00
 NE2 B:HIS130 2.2 20.7 1.0
O1B B:ATP401 2.3 33.6 1.0
O1A B:ATP401 2.3 29.8 1.0
O1G B:ATP401 2.7 33.3 1.0
CD2 B:HIS130 3.1 20.7 1.0
CE1 B:HIS130 3.1 20.7 1.0
PB B:ATP401 3.3 35.6 1.0
PA B:ATP401 3.5 31.5 1.0
O3A B:ATP401 3.6 26.3 1.0
PG B:ATP401 3.7 52.1 1.0
O3B B:ATP401 3.8 32.1 1.0
NZ B:LYS99 3.9 21.9 1.0
OD1 B:ASP98 4.1 20.6 1.0
OD2 B:ASP98 4.2 20.6 1.0
ND1 B:HIS130 4.3 20.7 1.0
CG B:HIS130 4.3 20.7 1.0
O3G B:ATP401 4.4 38.7 1.0
CE B:LYS99 4.4 21.9 1.0
O5' B:ATP401 4.5 35.2 1.0
CG B:ASP98 4.5 20.6 1.0
C5' B:ATP401 4.5 29.7 1.0
O2A B:ATP401 4.6 36.2 1.0
O B:ARG96 4.7 21.9 1.0
O2B B:ATP401 4.7 36.8 1.0

Magnesium binding site 4 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 4 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg404

b:30.0
occ:1.00
 OD2 B:ASP171 2.3 25.8 1.0
O3 B:HSX402 2.4 28.6 1.0
O1 B:HSX402 2.7 33.1 1.0
O2 B:HSX402 3.0 31.1 1.0
CG B:ASP171 3.0 25.8 1.0
OD1 B:ASP171 3.0 25.8 1.0
C3 B:HSX402 3.4 26.7 1.0
C2 B:HSX402 3.5 27.3 1.0
OD1 B:ASP220 3.6 25.8 1.0
C1 B:HSX402 3.6 25.1 1.0
OD1 B:ASP221 3.9 25.3 1.0
OD2 B:ASP220 3.9 25.8 1.0
CG B:ASP220 4.2 25.8 1.0
C4 B:HSX402 4.3 25.2 1.0
O4 B:HSX402 4.3 31.5 1.0
N B:GLY174 4.4 25.3 1.0
CB B:ASP171 4.4 25.8 1.0
O2A B:ATP401 4.5 36.2 1.0
O1G B:ATP401 4.6 33.3 1.0
C B:GLY173 4.6 26.0 1.0
O2G B:ATP401 4.7 42.0 1.0
CA B:GLY173 4.7 26.0 1.0
CE1 B:HIS130 5.0 20.7 1.0
N B:GLY173 5.0 26.0 1.0
CG B:ASP221 5.0 25.3 1.0
CA B:GLY174 5.0 25.3 1.0

Magnesium binding site 5 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 5 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg403

b:22.4
occ:1.00
 NE2 C:HIS130 2.2 20.7 1.0
O1B C:ATP401 2.3 33.6 1.0
O1A C:ATP401 2.3 29.8 1.0
O1G C:ATP401 2.7 33.3 1.0
CD2 C:HIS130 3.1 20.7 1.0
CE1 C:HIS130 3.2 20.7 1.0
PB C:ATP401 3.3 35.6 1.0
PA C:ATP401 3.5 31.5 1.0
O3A C:ATP401 3.6 26.3 1.0
PG C:ATP401 3.7 52.1 1.0
O3B C:ATP401 3.8 32.1 1.0
NZ C:LYS99 3.9 21.9 1.0
OD1 C:ASP98 4.1 20.6 1.0
OD2 C:ASP98 4.2 20.6 1.0
ND1 C:HIS130 4.3 20.7 1.0
CG C:HIS130 4.3 20.7 1.0
O3G C:ATP401 4.4 38.7 1.0
CE C:LYS99 4.4 21.9 1.0
O5' C:ATP401 4.5 35.2 1.0
CG C:ASP98 4.5 20.6 1.0
C5' C:ATP401 4.5 29.7 1.0
O2A C:ATP401 4.6 36.2 1.0
O C:ARG96 4.7 21.9 1.0
O2B C:ATP401 4.7 36.8 1.0

Magnesium binding site 6 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 6 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg404

b:30.0
occ:1.00
 OD2 C:ASP171 2.3 25.8 1.0
O3 C:HSX402 2.4 28.6 1.0
O1 C:HSX402 2.7 33.1 1.0
O2 C:HSX402 3.0 31.1 1.0
CG C:ASP171 3.0 25.8 1.0
OD1 C:ASP171 3.0 25.8 1.0
C3 C:HSX402 3.4 26.7 1.0
C2 C:HSX402 3.5 27.3 1.0
OD1 C:ASP220 3.6 25.8 1.0
C1 C:HSX402 3.6 25.1 1.0
OD1 C:ASP221 3.9 25.3 1.0
OD2 C:ASP220 3.9 25.8 1.0
CG C:ASP220 4.2 25.8 1.0
C4 C:HSX402 4.3 25.2 1.0
O4 C:HSX402 4.3 31.5 1.0
N C:GLY174 4.4 25.3 1.0
CB C:ASP171 4.4 25.8 1.0
O2A C:ATP401 4.5 36.2 1.0
O1G C:ATP401 4.6 33.3 1.0
C C:GLY173 4.6 26.0 1.0
O2G C:ATP401 4.7 42.0 1.0
CA C:GLY173 4.7 26.0 1.0
CE1 C:HIS130 5.0 20.7 1.0
N C:GLY173 5.0 26.0 1.0
CG C:ASP221 5.0 25.3 1.0
CA C:GLY174 5.0 25.3 1.0

Magnesium binding site 7 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 7 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg403

b:22.4
occ:1.00
 NE2 D:HIS130 2.2 20.7 1.0
O1B D:ATP401 2.3 33.6 1.0
O1A D:ATP401 2.3 29.8 1.0
O1G D:ATP401 2.7 33.3 1.0
CD2 D:HIS130 3.1 20.7 1.0
CE1 D:HIS130 3.2 20.7 1.0
PB D:ATP401 3.3 35.6 1.0
PA D:ATP401 3.5 31.5 1.0
O3A D:ATP401 3.6 26.3 1.0
PG D:ATP401 3.7 52.1 1.0
O3B D:ATP401 3.8 32.1 1.0
NZ D:LYS99 3.9 21.9 1.0
OD1 D:ASP98 4.1 20.6 1.0
OD2 D:ASP98 4.2 20.6 1.0
ND1 D:HIS130 4.3 20.7 1.0
CG D:HIS130 4.3 20.7 1.0
O3G D:ATP401 4.4 38.7 1.0
CE D:LYS99 4.4 21.9 1.0
O5' D:ATP401 4.5 35.2 1.0
CG D:ASP98 4.5 20.6 1.0
C5' D:ATP401 4.5 29.7 1.0
O2A D:ATP401 4.6 36.2 1.0
O D:ARG96 4.7 21.9 1.0
O2B D:ATP401 4.7 36.8 1.0

Magnesium binding site 8 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 8 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg404

b:30.0
occ:1.00
 OD2 D:ASP171 2.3 25.8 1.0
O3 D:HSX402 2.4 28.6 1.0
O1 D:HSX402 2.7 33.1 1.0
O2 D:HSX402 3.0 31.1 1.0
CG D:ASP171 3.0 25.8 1.0
OD1 D:ASP171 3.0 25.8 1.0
C3 D:HSX402 3.4 26.7 1.0
C2 D:HSX402 3.5 27.3 1.0
OD1 D:ASP220 3.6 25.8 1.0
C1 D:HSX402 3.6 25.1 1.0
OD1 D:ASP221 3.9 25.3 1.0
OD2 D:ASP220 3.9 25.8 1.0
CG D:ASP220 4.2 25.8 1.0
C4 D:HSX402 4.3 25.2 1.0
O4 D:HSX402 4.3 31.5 1.0
N D:GLY174 4.4 25.3 1.0
CB D:ASP171 4.4 25.8 1.0
O2A D:ATP401 4.5 36.2 1.0
O1G D:ATP401 4.6 33.3 1.0
C D:GLY173 4.6 26.0 1.0
O2G D:ATP401 4.7 42.0 1.0
CA D:GLY173 4.7 26.0 1.0
CE1 D:HIS130 5.0 20.7 1.0
N D:GLY173 5.0 26.0 1.0
CG D:ASP221 5.0 25.3 1.0
CA D:GLY174 5.0 25.3 1.0

Magnesium binding site 9 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 9 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg403

b:22.4
occ:1.00
 NE2 E:HIS130 2.2 20.7 1.0
O1B E:ATP401 2.3 33.6 1.0
O1A E:ATP401 2.3 29.8 1.0
O1G E:ATP401 2.7 33.3 1.0
CD2 E:HIS130 3.1 20.7 1.0
CE1 E:HIS130 3.2 20.7 1.0
PB E:ATP401 3.3 35.6 1.0
PA E:ATP401 3.5 31.5 1.0
O3A E:ATP401 3.6 26.3 1.0
PG E:ATP401 3.7 52.1 1.0
O3B E:ATP401 3.8 32.1 1.0
NZ E:LYS99 3.9 21.9 1.0
OD1 E:ASP98 4.1 20.6 1.0
OD2 E:ASP98 4.2 20.6 1.0
ND1 E:HIS130 4.3 20.7 1.0
CG E:HIS130 4.3 20.7 1.0
O3G E:ATP401 4.4 38.7 1.0
CE E:LYS99 4.4 21.9 1.0
O5' E:ATP401 4.5 35.2 1.0
CG E:ASP98 4.5 20.6 1.0
C5' E:ATP401 4.5 29.7 1.0
O2A E:ATP401 4.6 36.2 1.0
O E:ARG96 4.7 21.9 1.0
O2B E:ATP401 4.7 36.8 1.0

Magnesium binding site 10 out of 12 in 8dbn

Go back to Magnesium Binding Sites List in 8dbn
Magnesium binding site 10 out of 12 in the Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Human PRPS1-E307A Engineered Mutation with Phosphate, Atp, and R5P; Hexamer within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg404

b:30.0
occ:1.00
 OD2 E:ASP171 2.3 25.8 1.0
O3 E:HSX402 2.4 28.6 1.0
O1 E:HSX402 2.7 33.1 1.0
O2 E:HSX402 3.0 31.1 1.0
CG E:ASP171 3.0 25.8 1.0
OD1 E:ASP171 3.0 25.8 1.0
C3 E:HSX402 3.4 26.7 1.0
C2 E:HSX402 3.5 27.3 1.0
OD1 E:ASP220 3.6 25.8 1.0
C1 E:HSX402 3.6 25.1 1.0
OD1 E:ASP221 3.9 25.3 1.0
OD2 E:ASP220 3.9 25.8 1.0
CG E:ASP220 4.2 25.8 1.0
C4 E:HSX402 4.3 25.2 1.0
O4 E:HSX402 4.3 31.5 1.0
N E:GLY174 4.4 25.3 1.0
CB E:ASP171 4.4 25.8 1.0
O2A E:ATP401 4.5 36.2 1.0
O1G E:ATP401 4.6 33.3 1.0
C E:GLY173 4.6 26.0 1.0
O2G E:ATP401 4.7 42.0 1.0
CA E:GLY173 4.7 26.0 1.0
CE1 E:HIS130 5.0 20.7 1.0
N E:GLY173 5.0 26.0 1.0
CG E:ASP221 5.0 25.3 1.0
CA E:GLY174 5.0 25.3 1.0

Reference:

K.L.Hvorecny, J.M.Kollman. Human PRPS1 Filaments Stabilize Allosteric Sites to Regulate Activity Nat.Struct.Mol.Biol. 2023.
ISSN: ESSN 1545-9985
DOI: 10.1038/S41594-023-00921-Z
Page generated: Fri Apr 7 07:35:58 2023

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy