Atomistry » Magnesium » PDB 7mo0-7mz8 » 7my6
Atomistry »
  Magnesium »
    PDB 7mo0-7mz8 »
      7my6 »

Magnesium in PDB 7my6: Se-Crte C-Term His-Tag with Ipp Added

Enzymatic activity of Se-Crte C-Term His-Tag with Ipp Added

All present enzymatic activity of Se-Crte C-Term His-Tag with Ipp Added:
2.5.1.10;

Protein crystallography data

The structure of Se-Crte C-Term His-Tag with Ipp Added, PDB code: 7my6 was solved by T.S.Peat, J.Newman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.48 / 2.02
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 45.423, 144.627, 48.066, 90, 95.25, 90
R / Rfree (%) 18 / 20.9

Other elements in 7my6:

The structure of Se-Crte C-Term His-Tag with Ipp Added also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Se-Crte C-Term His-Tag with Ipp Added (pdb code 7my6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Se-Crte C-Term His-Tag with Ipp Added, PDB code: 7my6:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 7my6

Go back to Magnesium Binding Sites List in 7my6
Magnesium binding site 1 out of 6 in the Se-Crte C-Term His-Tag with Ipp Added


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Se-Crte C-Term His-Tag with Ipp Added within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg405

b:24.9
occ:1.00
 OD1 A:ASP229 2.0 19.8 1.0
O A:HOH541 2.0 27.3 1.0
O A:HOH598 2.1 22.0 1.0
O A:HOH520 2.2 20.3 1.0
O A:HOH609 2.2 23.3 1.0
O A:HOH519 2.3 25.9 1.0
CG A:ASP229 2.9 18.8 1.0
OD2 A:ASP229 3.3 19.1 1.0
O A:HOH528 3.8 26.5 1.0
O A:GLN225 4.1 16.6 1.0
CB A:ASP229 4.3 19.2 1.0
NE2 A:HIS184 4.3 20.7 0.5
OE1 A:GLN225 4.3 17.2 1.0
NE2 A:HIS184 4.4 20.3 0.5
CE1 A:HIS184 4.5 19.6 0.5
OD2 A:ASP228 4.5 33.3 1.0
CE1 A:HIS184 4.5 20.8 0.5
CA A:ASP229 4.6 19.5 1.0
N A:ASP229 4.6 19.8 1.0
OD2 A:ASP232 4.8 37.3 1.0

Magnesium binding site 2 out of 6 in 7my6

Go back to Magnesium Binding Sites List in 7my6
Magnesium binding site 2 out of 6 in the Se-Crte C-Term His-Tag with Ipp Added


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Se-Crte C-Term His-Tag with Ipp Added within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg406

b:48.3
occ:1.00
 O A:HOH521 1.6 50.5 1.0
O A:HOH508 1.8 21.5 1.0
O3B A:IPE401 1.9 54.4 0.8
OD2 A:ASP96 2.1 38.5 1.0
OD2 A:ASP90 2.4 20.4 1.0
O2A A:IPE401 2.6 51.7 0.8
CG A:ASP96 3.1 30.9 1.0
PB A:IPE401 3.2 59.4 0.8
O A:HOH583 3.3 30.9 1.0
OD2 A:ASP98 3.3 31.1 1.0
O3A A:IPE401 3.5 62.2 0.8
PA A:IPE401 3.5 67.4 0.8
CB A:ASP96 3.5 26.4 1.0
CG A:ASP90 3.6 20.3 1.0
O1B A:IPE401 3.8 63.7 0.8
O1 A:IPE401 3.8 62.1 0.8
MG A:MG407 3.9 39.7 1.0
NH2 A:ARG101 4.0 25.4 1.0
OD1 A:ASP90 4.1 23.3 1.0
OD1 A:ASP96 4.3 35.1 1.0
OD1 A:ASP91 4.3 18.3 1.0
O2B A:IPE401 4.4 49.4 0.8
O A:HOH584 4.5 29.9 1.0
CG A:ASP98 4.6 26.0 1.0
O A:ASP90 4.6 15.3 1.0
CB A:ASP90 4.8 20.1 1.0
O A:HOH572 4.9 22.9 1.0
O1A A:IPE401 4.9 65.7 0.8
C A:ASP90 4.9 18.4 1.0

Magnesium binding site 3 out of 6 in 7my6

Go back to Magnesium Binding Sites List in 7my6
Magnesium binding site 3 out of 6 in the Se-Crte C-Term His-Tag with Ipp Added


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Se-Crte C-Term His-Tag with Ipp Added within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg407

b:39.7
occ:1.00
 O A:HOH584 1.8 29.9 1.0
O A:HOH513 2.0 21.6 1.0
O A:HOH515 2.1 27.5 1.0
O2A A:IPE401 2.3 51.7 0.8
OD1 A:ASP90 2.3 23.3 1.0
OD2 A:ASP96 2.5 38.5 1.0
OD1 A:ASP96 2.9 35.1 1.0
CG A:ASP96 3.0 30.9 1.0
CG A:ASP90 3.2 20.3 1.0
PA A:IPE401 3.3 67.4 0.8
OD2 A:ASP90 3.4 20.4 1.0
O1 A:IPE401 3.6 62.1 0.8
O1A A:IPE401 3.9 65.7 0.8
MG A:MG406 3.9 48.3 1.0
OE1 A:GLN163 3.9 28.6 1.0
OD2 A:ASP166 4.3 24.1 1.0
NE2 A:GLN163 4.3 28.8 1.0
CB A:ASP96 4.5 26.4 1.0
O A:HOH521 4.6 50.5 1.0
CD A:GLN163 4.6 25.7 1.0
CB A:ASP90 4.6 20.1 1.0
O3A A:IPE401 4.7 62.2 0.8
C1 A:IPE401 4.9 51.0 0.8
O3B A:IPE401 5.0 54.4 0.8
O A:ASP90 5.0 15.3 1.0
NZ A:LYS187 5.0 31.1 1.0

Magnesium binding site 4 out of 6 in 7my6

Go back to Magnesium Binding Sites List in 7my6
Magnesium binding site 4 out of 6 in the Se-Crte C-Term His-Tag with Ipp Added


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Se-Crte C-Term His-Tag with Ipp Added within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg406

b:22.3
occ:1.00
 O B:HOH569 1.9 23.4 1.0
OD1 B:ASP229 2.1 19.5 1.0
O B:HOH526 2.2 32.5 1.0
O B:HOH530 2.2 23.3 1.0
O B:HOH613 2.2 25.3 1.0
O B:HOH543 2.2 19.7 1.0
CG B:ASP229 3.1 19.3 1.0
OD2 B:ASP229 3.4 19.6 1.0
O B:HOH544 3.5 29.2 1.0
O B:HOH540 3.9 27.1 1.0
O B:GLN225 4.3 15.1 1.0
CB B:ASP229 4.4 19.6 1.0
NE2 B:HIS184 4.5 17.1 0.5
OE1 B:GLN225 4.5 18.1 1.0
OD2 B:ASP228 4.5 31.1 1.0
NE2 B:HIS184 4.5 16.8 0.5
O B:HOH612 4.6 36.2 1.0
CE1 B:HIS184 4.6 16.7 0.5
CE1 B:HIS184 4.6 16.8 0.5
CA B:ASP229 4.7 20.0 1.0
OD2 B:ASP232 4.7 40.4 1.0
N B:ASP229 4.7 19.6 1.0

Magnesium binding site 5 out of 6 in 7my6

Go back to Magnesium Binding Sites List in 7my6
Magnesium binding site 5 out of 6 in the Se-Crte C-Term His-Tag with Ipp Added


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Se-Crte C-Term His-Tag with Ipp Added within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg407

b:32.7
occ:1.00
 O B:HOH593 1.9 37.1 1.0
O B:HOH515 2.1 25.3 1.0
O B:HOH507 2.1 31.1 1.0
OD1 B:ASP90 2.2 23.7 1.0
OD2 B:ASP96 2.6 41.4 1.0
CG B:ASP90 3.1 19.3 1.0
OD1 B:ASP96 3.1 40.5 1.0
CG B:ASP96 3.2 31.8 1.0
OD2 B:ASP90 3.2 20.6 1.0
MG B:MG408 3.5 49.2 1.0
OE1 B:GLN163 3.8 26.4 1.0
OD2 B:ASP166 4.2 25.5 1.0
O B:HOH600 4.3 43.9 1.0
NE2 B:GLN163 4.3 26.2 1.0
CD B:GLN163 4.5 25.1 1.0
CB B:ASP90 4.5 17.8 1.0
CB B:ASP96 4.6 26.5 1.0
NZ B:LYS187 4.6 30.3 1.0
O B:HOH607 4.8 31.3 1.0
O B:HOH501 5.0 23.5 1.0

Magnesium binding site 6 out of 6 in 7my6

Go back to Magnesium Binding Sites List in 7my6
Magnesium binding site 6 out of 6 in the Se-Crte C-Term His-Tag with Ipp Added


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Se-Crte C-Term His-Tag with Ipp Added within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg408

b:49.2
occ:1.00
 O B:HOH600 1.8 43.9 1.0
O B:HOH501 2.0 23.5 1.0
OD2 B:ASP96 2.0 41.4 1.0
O B:HOH515 2.2 25.3 1.0
OD2 B:ASP90 2.3 20.6 1.0
CG B:ASP96 3.2 31.8 1.0
CG B:ASP90 3.4 19.3 1.0
MG B:MG407 3.5 32.7 1.0
CB B:ASP96 3.7 26.5 1.0
OD2 B:ASP98 3.8 28.9 1.0
OD1 B:ASP90 3.8 23.7 1.0
NH2 B:ARG101 3.9 23.9 1.0
OD1 B:ASP96 4.2 40.5 1.0
O B:HOH604 4.3 29.1 1.0
O B:HOH593 4.3 37.1 1.0
OD1 B:ASP91 4.5 16.9 1.0
CB B:ASP90 4.6 17.8 1.0
O B:ASP90 4.7 15.4 1.0
C B:ASP90 5.0 16.0 1.0

Reference:

A.Satta, L.Esquirol, B.E.Ebert, J.Newman, T.S.Peat, M.Plan, G.Schenk, C.E.Vickers. Molecular Characterization of Cyanobacterial Short-Chain Prenyltransferases and Discovery of A Novel Ggpp Phosphatase. Febs J. V. 289 6672 2022.
ISSN: ISSN 1742-464X
PubMed: 35704353
DOI: 10.1111/FEBS.16556
Page generated: Thu Oct 3 01:10:05 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