Magnesium in PDB 7qsw: L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos

Enzymatic activity of L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos

All present enzymatic activity of L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos:
4.1.1.39;

Protein crystallography data

The structure of L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos, PDB code: 7qsw was solved by J.Zarzycki, L.Schulz, T.J.Erb, G.K.A.Hochberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.96 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 131.873, 131.873, 305.463, 90, 90, 90
R / Rfree (%) 14.1 / 15.9

Magnesium Binding Sites:

The binding sites of Magnesium atom in the L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos (pdb code 7qsw). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos, PDB code: 7qsw:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 7qsw

Go back to Magnesium Binding Sites List in 7qsw
Magnesium binding site 1 out of 4 in the L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg502

b:17.5
occ:1.00
 OQ2 A:KCX199 2.0 18.1 1.0
OD1 A:ASP201 2.0 17.4 1.0
OE1 A:GLU202 2.0 18.8 1.0
O7 A:CAP501 2.1 16.8 1.0
O3 A:CAP501 2.2 16.2 1.0
O2 A:CAP501 2.2 18.1 1.0
C2 A:CAP501 2.8 17.8 1.0
C A:CAP501 2.8 17.4 1.0
CX A:KCX199 3.0 16.1 1.0
C3 A:CAP501 3.0 16.7 1.0
CD A:GLU202 3.1 17.6 1.0
CG A:ASP201 3.2 16.4 1.0
OQ1 A:KCX199 3.4 17.9 1.0
OE2 A:GLU202 3.5 19.2 1.0
NZ A:LYS175 3.7 18.3 1.0
N A:GLU202 3.8 15.7 1.0
OD2 A:ASP201 3.9 17.9 1.0
CG2 A:THR171 3.9 16.7 1.0
NZ A:LYS173 4.0 16.4 1.0
NE2 A:HIS292 4.0 16.6 1.0
O6 A:CAP501 4.0 16.1 1.0
NZ A:KCX199 4.2 16.0 1.0
CA A:ASP201 4.2 16.1 1.0
C4 A:CAP501 4.2 18.0 1.0
C1 A:CAP501 4.3 17.1 1.0
CB A:ASP201 4.3 16.3 1.0
CG A:GLU202 4.3 15.9 1.0
OG1 A:THR171 4.3 17.5 1.0
CB A:GLU202 4.5 15.0 1.0
C A:ASP201 4.6 16.9 1.0
CD2 A:HIS292 4.6 15.6 1.0
CB A:THR171 4.7 18.2 1.0
C5 A:CAP501 4.7 15.4 1.0
O1 A:CAP501 4.7 18.2 1.0
CA A:GLU202 4.8 15.5 1.0
CE1 A:HIS292 4.9 15.8 1.0

Magnesium binding site 2 out of 4 in 7qsw

Go back to Magnesium Binding Sites List in 7qsw
Magnesium binding site 2 out of 4 in the L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg502

b:16.6
occ:1.00
 OD1 C:ASP201 2.0 16.1 1.0
OQ1 C:KCX199 2.0 15.6 1.0
OE1 C:GLU202 2.0 14.8 1.0
O6 C:CAP501 2.1 16.7 1.0
O3 C:CAP501 2.2 16.9 1.0
O2 C:CAP501 2.3 16.1 1.0
C2 C:CAP501 2.8 16.9 1.0
C C:CAP501 2.8 18.1 1.0
CX C:KCX199 3.0 16.6 1.0
C3 C:CAP501 3.0 15.5 1.0
CD C:GLU202 3.1 15.5 1.0
CG C:ASP201 3.2 18.2 1.0
OQ2 C:KCX199 3.4 15.9 1.0
OE2 C:GLU202 3.5 17.1 1.0
NZ C:LYS175 3.7 16.7 1.0
N C:GLU202 3.8 16.5 1.0
OD2 C:ASP201 3.9 17.2 1.0
CG2 C:THR171 3.9 15.4 1.0
NZ C:LYS173 3.9 15.3 1.0
NE2 C:HIS292 4.0 15.9 1.0
O7 C:CAP501 4.0 18.3 1.0
CA C:ASP201 4.2 16.0 1.0
NZ C:KCX199 4.2 15.5 1.0
CB C:ASP201 4.2 14.6 1.0
C4 C:CAP501 4.3 17.6 1.0
OG1 C:THR171 4.3 17.3 1.0
C1 C:CAP501 4.3 17.5 1.0
CG C:GLU202 4.3 15.9 1.0
CB C:GLU202 4.5 15.5 1.0
C C:ASP201 4.5 15.4 1.0
CD2 C:HIS292 4.6 14.8 1.0
CB C:THR171 4.6 16.6 1.0
C5 C:CAP501 4.7 15.4 1.0
O1 C:CAP501 4.8 17.1 1.0
CA C:GLU202 4.8 14.7 1.0
CE1 C:HIS292 4.9 14.4 1.0

Magnesium binding site 3 out of 4 in 7qsw

Go back to Magnesium Binding Sites List in 7qsw
Magnesium binding site 3 out of 4 in the L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg502

b:20.3
occ:1.00
 OD1 E:ASP201 2.0 21.2 1.0
OQ2 E:KCX199 2.0 18.2 1.0
OE1 E:GLU202 2.0 19.9 1.0
O7 E:CAP501 2.1 20.2 1.0
O3 E:CAP501 2.2 21.6 1.0
O2 E:CAP501 2.2 20.9 1.0
C2 E:CAP501 2.8 21.2 1.0
C E:CAP501 2.8 20.6 1.0
CX E:KCX199 3.0 19.2 1.0
C3 E:CAP501 3.0 18.0 1.0
CD E:GLU202 3.1 20.3 1.0
CG E:ASP201 3.2 19.6 1.0
OQ1 E:KCX199 3.3 19.6 1.0
OE2 E:GLU202 3.6 22.0 1.0
NZ E:LYS175 3.7 20.7 1.0
N E:GLU202 3.8 20.0 1.0
OD2 E:ASP201 3.9 19.9 1.0
CG2 E:THR171 3.9 19.1 1.0
NZ E:LYS173 3.9 19.5 1.0
NE2 E:HIS292 4.0 19.3 1.0
O6 E:CAP501 4.1 21.1 1.0
CA E:ASP201 4.2 18.4 1.0
NZ E:KCX199 4.2 17.6 1.0
CB E:ASP201 4.3 17.5 1.0
C4 E:CAP501 4.3 21.1 1.0
OG1 E:THR171 4.3 20.1 1.0
CG E:GLU202 4.3 19.0 1.0
C1 E:CAP501 4.3 19.5 1.0
CB E:GLU202 4.5 19.6 1.0
C E:ASP201 4.5 18.4 1.0
CD2 E:HIS292 4.6 18.0 1.0
CB E:THR171 4.7 20.7 1.0
CA E:GLU202 4.7 17.3 1.0
O1 E:CAP501 4.7 21.1 1.0
C5 E:CAP501 4.8 20.6 1.0
CE1 E:HIS292 4.9 20.6 1.0

Magnesium binding site 4 out of 4 in 7qsw

Go back to Magnesium Binding Sites List in 7qsw
Magnesium binding site 4 out of 4 in the L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of L8S8-Complex Forming Rubisco Derived From Ancestral Sequence Reconstruction of the Last Common Ancestor of Ssu-Bearing Form I Rubiscos within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg502

b:17.4
occ:1.00
 OE1 G:GLU202 2.0 17.2 1.0
OD1 G:ASP201 2.0 17.1 1.0
OQ1 G:KCX199 2.1 16.8 1.0
O6 G:CAP501 2.1 17.2 1.0
O3 G:CAP501 2.2 17.2 1.0
O2 G:CAP501 2.2 19.2 1.0
C2 G:CAP501 2.8 17.4 1.0
C G:CAP501 2.8 19.6 1.0
CX G:KCX199 3.0 18.7 1.0
CD G:GLU202 3.0 16.9 1.0
C3 G:CAP501 3.0 17.9 1.0
CG G:ASP201 3.2 18.7 1.0
OQ2 G:KCX199 3.4 18.3 1.0
OE2 G:GLU202 3.5 18.7 1.0
NZ G:LYS175 3.7 17.0 1.0
N G:GLU202 3.8 14.8 1.0
OD2 G:ASP201 3.9 18.2 1.0
NZ G:LYS173 3.9 18.5 1.0
CG2 G:THR171 4.0 16.7 1.0
NE2 G:HIS292 4.0 17.7 1.0
O7 G:CAP501 4.0 18.4 1.0
CA G:ASP201 4.2 16.1 1.0
NZ G:KCX199 4.3 16.1 1.0
C4 G:CAP501 4.3 18.6 1.0
CB G:ASP201 4.3 17.2 1.0
CG G:GLU202 4.3 16.1 1.0
C1 G:CAP501 4.3 17.4 1.0
OG1 G:THR171 4.3 17.5 1.0
CB G:GLU202 4.5 17.6 1.0
C G:ASP201 4.6 16.8 1.0
CD2 G:HIS292 4.7 15.4 1.0
CB G:THR171 4.7 18.4 1.0
C5 G:CAP501 4.7 18.6 1.0
O1 G:CAP501 4.7 18.4 1.0
CA G:GLU202 4.8 16.4 1.0
CE1 G:HIS292 4.9 15.9 1.0

Reference:

L.Schulz, Z.Guo, J.Zarzycki, W.Steinchen, J.M.Schuller, T.Heimerl, S.Prinz, O.Mueller-Cajar, T.J.Erb, G.K.A.Hochberg. Evolution of Increased Complexity and Specificity at the Dawn of Form I Rubiscos. Science V. 378 155 2022.
ISSN: ESSN 1095-9203
PubMed: 36227987
DOI: 10.1126/SCIENCE.ABQ1416
Page generated: Thu Oct 3 06:45:12 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy