Magnesium in PDB 7xmu: E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P

Enzymatic activity of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P

All present enzymatic activity of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P:
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 E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P (pdb code 7xmu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 12 binding sites of Magnesium where determined in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P, PDB code: 7xmu:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 1 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg402

b:62.8
occ:1.00
 O1 A:HSX401 2.0 63.7 1.0
O A:HOH538 2.0 58.8 1.0
O3 A:HSX401 2.0 63.7 1.0
O A:HOH519 2.1 57.5 1.0
OD2 A:ASP170 2.1 60.1 1.0
O2 A:HSX401 2.5 63.7 1.0
C2 A:HSX401 3.0 63.7 1.0
C3 A:HSX401 3.0 63.7 1.0
C1 A:HSX401 3.0 63.7 1.0
CG A:ASP170 3.1 60.1 1.0
OD1 A:ASP170 3.4 60.1 1.0
C4 A:HSX401 3.7 63.7 1.0
O4 A:HSX401 3.9 63.7 1.0
O2A A:ADP405 4.1 46.9 1.0
O A:HOH579 4.2 61.2 1.0
OD1 A:ASP220 4.2 56.4 1.0
O A:HOH610 4.2 55.4 1.0
OD2 A:ASP220 4.3 56.4 1.0
CB A:ASP170 4.5 60.1 1.0
CG A:ASP220 4.7 56.4 1.0
OD1 A:ASP221 4.8 52.6 1.0

Magnesium binding site 2 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 2 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg404

b:45.4
occ:1.00
 O A:HOH501 1.9 43.0 1.0
O A:HOH515 1.9 42.0 1.0
O1A A:ADP405 1.9 46.9 1.0
O3B A:ADP405 2.0 46.9 1.0
NE2 A:HIS131 2.0 40.8 1.0
O A:HOH503 2.1 47.9 1.0
CE1 A:HIS131 2.7 40.8 1.0
PA A:ADP405 3.0 46.9 1.0
PB A:ADP405 3.2 46.9 1.0
CD2 A:HIS131 3.2 40.8 1.0
O3A A:ADP405 3.3 46.9 1.0
O A:HOH556 3.9 45.3 1.0
ND1 A:HIS131 3.9 40.8 1.0
O2A A:ADP405 3.9 46.9 1.0
O1B A:ADP405 3.9 46.9 1.0
O A:HOH519 4.0 57.5 1.0
CG A:HIS131 4.2 40.8 1.0
O5' A:ADP405 4.3 46.9 1.0
O2B A:ADP405 4.4 46.9 1.0
NH1 A:ARG99 4.5 39.4 1.0
C5' A:ADP405 4.5 46.9 1.0
OD2 A:ASP98 4.9 37.5 1.0

Magnesium binding site 3 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 3 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg402

b:61.6
occ:1.00
 O1 D:HSX401 2.0 62.6 1.0
O D:HOH531 2.0 58.2 1.0
O3 D:HSX401 2.0 62.6 1.0
O D:HOH519 2.1 56.0 1.0
OD2 D:ASP170 2.1 59.3 1.0
O2 D:HSX401 2.5 62.6 1.0
C2 D:HSX401 3.0 62.6 1.0
C3 D:HSX401 3.0 62.6 1.0
C1 D:HSX401 3.0 62.6 1.0
CG D:ASP170 3.1 59.3 1.0
OD1 D:ASP170 3.4 59.3 1.0
C4 D:HSX401 3.7 62.6 1.0
O4 D:HSX401 3.9 62.6 1.0
O2A D:ADP405 4.1 47.0 1.0
O D:HOH575 4.2 61.1 1.0
OD1 D:ASP220 4.2 55.4 1.0
O D:HOH617 4.2 54.7 1.0
OD2 D:ASP220 4.3 55.4 1.0
CB D:ASP170 4.5 59.3 1.0
CG D:ASP220 4.7 55.4 1.0
OD1 D:ASP221 4.8 52.1 1.0

Magnesium binding site 4 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 4 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg404

b:44.4
occ:1.00
 O D:HOH501 1.9 42.3 1.0
O D:HOH512 1.9 42.6 1.0
O1A D:ADP405 1.9 47.0 1.0
O3B D:ADP405 2.0 47.0 1.0
NE2 D:HIS131 2.0 40.8 1.0
O D:HOH502 2.1 47.7 1.0
CE1 D:HIS131 2.7 40.8 1.0
PA D:ADP405 3.0 47.0 1.0
PB D:ADP405 3.2 47.0 1.0
CD2 D:HIS131 3.2 40.8 1.0
O3A D:ADP405 3.3 47.0 1.0
O D:HOH544 3.8 44.5 1.0
ND1 D:HIS131 3.9 40.8 1.0
O2A D:ADP405 3.9 47.0 1.0
O1B D:ADP405 3.9 47.0 1.0
O D:HOH519 4.0 56.0 1.0
CG D:HIS131 4.2 40.8 1.0
O5' D:ADP405 4.3 47.0 1.0
O2B D:ADP405 4.4 47.0 1.0
NH1 D:ARG99 4.5 39.5 1.0
C5' D:ADP405 4.5 47.0 1.0
OD2 D:ASP98 4.9 37.7 1.0

Magnesium binding site 5 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 5 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg402

b:62.8
occ:1.00
 O1 B:HSX401 2.0 64.2 1.0
O B:HOH529 2.0 59.2 1.0
O3 B:HSX401 2.0 64.2 1.0
O B:HOH513 2.0 57.6 1.0
OD2 B:ASP170 2.1 60.6 1.0
O2 B:HSX401 2.5 64.2 1.0
C2 B:HSX401 3.0 64.2 1.0
C3 B:HSX401 3.0 64.2 1.0
C1 B:HSX401 3.0 64.2 1.0
CG B:ASP170 3.1 60.6 1.0
OD1 B:ASP170 3.4 60.6 1.0
C4 B:HSX401 3.7 64.2 1.0
O4 B:HSX401 3.9 64.2 1.0
O1A B:ADP405 4.1 47.0 1.0
O B:HOH578 4.2 62.5 1.0
OD1 B:ASP220 4.2 56.7 1.0
O B:HOH613 4.2 56.1 1.0
OD2 B:ASP220 4.3 56.7 1.0
CB B:ASP170 4.5 60.6 1.0
CG B:ASP220 4.7 56.7 1.0
OD1 B:ASP221 4.8 52.7 1.0

Magnesium binding site 6 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 6 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg404

b:45.3
occ:1.00
 O B:HOH508 1.9 44.0 1.0
O B:HOH501 1.9 42.5 1.0
O2A B:ADP405 1.9 47.0 1.0
O1B B:ADP405 2.0 47.0 1.0
NE2 B:HIS131 2.0 41.4 1.0
O B:HOH502 2.1 48.3 1.0
CE1 B:HIS131 2.7 41.4 1.0
PA B:ADP405 3.0 47.0 1.0
PB B:ADP405 3.2 47.0 1.0
CD2 B:HIS131 3.2 41.4 1.0
O3A B:ADP405 3.3 47.0 1.0
O B:HOH547 3.9 45.1 1.0
ND1 B:HIS131 3.9 41.4 1.0
O1A B:ADP405 3.9 47.0 1.0
O3B B:ADP405 3.9 47.0 1.0
O B:HOH513 4.0 57.6 1.0
CG B:HIS131 4.2 41.4 1.0
O5' B:ADP405 4.3 47.0 1.0
O2B B:ADP405 4.4 47.0 1.0
NH1 B:ARG99 4.5 39.5 1.0
C5' B:ADP405 4.5 47.0 1.0
OD2 B:ASP98 4.9 37.6 1.0

Magnesium binding site 7 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 7 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg402

b:62.6
occ:1.00
 O1 E:HSX401 2.0 64.2 1.0
O E:HOH530 2.0 59.0 1.0
O3 E:HSX401 2.0 64.2 1.0
O E:HOH513 2.0 57.3 1.0
OD2 E:ASP170 2.1 60.5 1.0
O2 E:HSX401 2.5 64.2 1.0
C2 E:HSX401 3.0 64.2 1.0
C3 E:HSX401 3.0 64.2 1.0
C1 E:HSX401 3.0 64.2 1.0
CG E:ASP170 3.1 60.5 1.0
OD1 E:ASP170 3.4 60.5 1.0
C4 E:HSX401 3.7 64.2 1.0
O4 E:HSX401 3.9 64.2 1.0
O2A E:ADP405 4.1 46.8 1.0
O E:HOH579 4.2 62.9 1.0
OD1 E:ASP220 4.2 56.9 1.0
O E:HOH613 4.2 56.2 1.0
OD2 E:ASP220 4.3 56.9 1.0
CB E:ASP170 4.5 60.5 1.0
CG E:ASP220 4.7 56.9 1.0
OD1 E:ASP221 4.8 52.7 1.0

Magnesium binding site 8 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 8 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg404

b:45.2
occ:1.00
 O E:HOH501 1.9 42.5 1.0
O E:HOH510 1.9 44.0 1.0
O1A E:ADP405 1.9 46.8 1.0
O3B E:ADP405 2.0 46.8 1.0
NE2 E:HIS131 2.0 41.1 1.0
O E:HOH502 2.1 47.9 1.0
CE1 E:HIS131 2.7 41.1 1.0
PA E:ADP405 3.0 46.8 1.0
PB E:ADP405 3.2 46.8 1.0
CD2 E:HIS131 3.2 41.1 1.0
O3A E:ADP405 3.3 46.8 1.0
O E:HOH547 3.9 44.8 1.0
ND1 E:HIS131 3.9 41.1 1.0
O2A E:ADP405 3.9 46.8 1.0
O1B E:ADP405 3.9 46.8 1.0
O E:HOH513 4.0 57.3 1.0
CG E:HIS131 4.2 41.1 1.0
O5' E:ADP405 4.3 46.8 1.0
O2B E:ADP405 4.4 46.8 1.0
NH1 E:ARG99 4.5 39.7 1.0
C5' E:ADP405 4.5 46.8 1.0
OD2 E:ASP98 4.9 37.5 1.0

Magnesium binding site 9 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 9 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg402

b:61.4
occ:1.00
 O1 F:HSX401 2.0 62.8 1.0
O F:HOH528 2.0 58.3 1.0
O3 F:HSX401 2.0 62.8 1.0
O F:HOH517 2.1 56.3 1.0
OD2 F:ASP170 2.1 59.5 1.0
O2 F:HSX401 2.5 62.8 1.0
C2 F:HSX401 3.0 62.8 1.0
C3 F:HSX401 3.0 62.8 1.0
C1 F:HSX401 3.0 62.8 1.0
CG F:ASP170 3.1 59.5 1.0
OD1 F:ASP170 3.4 59.5 1.0
C4 F:HSX401 3.7 62.8 1.0
O4 F:HSX401 3.9 62.8 1.0
O1A A:ADP407 4.1 47.0 1.0
O F:HOH573 4.2 61.3 1.0
OD1 F:ASP220 4.2 55.7 1.0
O F:HOH603 4.2 54.6 1.0
OD2 F:ASP220 4.3 55.7 1.0
CB F:ASP170 4.5 59.5 1.0
CG F:ASP220 4.7 55.7 1.0
OD1 F:ASP221 4.8 52.2 1.0

Magnesium binding site 10 out of 12 in 7xmu

Go back to Magnesium Binding Sites List in 7xmu
Magnesium binding site 10 out of 12 in the E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of E.Coli Phosphoribosylpyrophosphate (Prpp) Synthetase Type A Filament Bound with Adp, Pi and R5P within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg404

b:44.6
occ:1.00
 O A:HOH502 1.9 42.4 1.0
O A:HOH514 1.9 42.8 1.0
O2A A:ADP407 1.9 47.0 1.0
O1B A:ADP407 2.0 47.0 1.0
NE2 F:HIS131 2.0 41.2 1.0
O A:HOH504 2.1 48.0 1.0
CE1 F:HIS131 2.7 41.2 1.0
PA A:ADP407 3.0 47.0 1.0
PB A:ADP407 3.2 47.0 1.0
CD2 F:HIS131 3.2 41.2 1.0
O3A A:ADP407 3.2 47.0 1.0
O F:HOH540 3.8 45.1 1.0
ND1 F:HIS131 3.9 41.2 1.0
O1A A:ADP407 3.9 47.0 1.0
O3B A:ADP407 3.9 47.0 1.0
O F:HOH517 4.0 56.3 1.0
CG F:HIS131 4.2 41.2 1.0
O5' A:ADP407 4.3 47.0 1.0
O2B A:ADP407 4.4 47.0 1.0
NH1 F:ARG99 4.5 39.6 1.0
C5' A:ADP407 4.5 47.0 1.0
OD2 F:ASP98 4.9 37.8 1.0

Reference:

H.H.Hu, G.M.Lu, C.C.Chang, Y.Li, J.Zhong, C.J.Guo, X.Zhou, B.Yin, T.Zhang, J.L.Liu. Filamentation Modulates Allosteric Regulation of Prps. Elife V. 11 2022.
ISSN: ESSN 2050-084X
PubMed: 35736577
DOI: 10.7554/ELIFE.79552
Page generated: Thu Oct 3 12:31:09 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy