Magnesium in PDB 8xi2: Cryo-Em Structure of the Chlamydomonas C* Complex

Enzymatic activity of Cryo-Em Structure of the Chlamydomonas C* Complex

All present enzymatic activity of Cryo-Em Structure of the Chlamydomonas C* Complex:
2.3.2.27; 5.2.1.8;

Other elements in 8xi2:

The structure of Cryo-Em Structure of the Chlamydomonas C* Complex also contains other interesting chemical elements:

Zinc (Zn) 3 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of the Chlamydomonas C* Complex (pdb code 8xi2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Cryo-Em Structure of the Chlamydomonas C* Complex, PDB code: 8xi2:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 8xi2

Go back to Magnesium Binding Sites List in 8xi2
Magnesium binding site 1 out of 7 in the Cryo-Em Structure of the Chlamydomonas C* Complex


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 the Chlamydomonas C* Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1002

b:20.5
occ:1.00
 OG C:SER193 1.2 26.0 1.0
OG1 C:THR151 1.6 26.2 1.0
O3G C:GTP1001 2.0 28.2 1.0
CB C:SER193 2.6 26.0 1.0
O2B C:GTP1001 2.9 28.2 1.0
CB C:THR151 2.9 26.2 1.0
PG C:GTP1001 3.1 28.2 1.0
N C:SER193 3.3 26.0 1.0
O1G C:GTP1001 3.3 28.2 1.0
OD1 C:ASP182 3.3 29.9 1.0
CA C:SER193 3.4 26.0 1.0
O3B C:GTP1001 3.7 28.2 1.0
CG2 C:THR151 3.8 26.2 1.0
OD2 C:ASP182 3.8 29.9 1.0
PB C:GTP1001 3.8 28.2 1.0
N C:THR151 3.9 26.2 1.0
CA C:THR151 3.9 26.2 1.0
CG C:ASP182 4.0 29.9 1.0
OD2 C:ASP217 4.0 26.7 1.0
O3A C:GTP1001 4.3 28.2 1.0
O C:CYS218 4.3 25.8 1.0
C C:MET192 4.3 29.1 1.0
O2G C:GTP1001 4.4 28.2 1.0
O2A C:GTP1001 4.4 28.2 1.0
NH1 C:ARG179 4.7 29.2 1.0
C C:SER193 4.7 26.0 1.0
CE C:LYS150 4.8 24.8 1.0
CG C:ASP217 4.8 26.7 1.0
OD1 C:ASP217 4.8 26.7 1.0
PA C:GTP1001 4.8 28.2 1.0

Magnesium binding site 2 out of 7 in 8xi2

Go back to Magnesium Binding Sites List in 8xi2
Magnesium binding site 2 out of 7 in the Cryo-Em Structure of the Chlamydomonas C* Complex


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 the Chlamydomonas C* Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg201

b:21.6
occ:1.00
 OP2 F:U67 2.0 17.9 1.0
OP1 F:G65 2.0 21.4 1.0
O3' 5:G-1 2.8 18.1 1.0
P F:U67 3.2 17.9 1.0
P F:G65 3.4 21.4 1.0
OP1 F:G47 3.5 21.4 1.0
OP1 F:U67 3.7 17.9 1.0
O5' F:G47 3.9 21.4 1.0
O5' F:U67 3.9 17.9 1.0
C3' 5:G-1 4.0 18.1 1.0
OP2 F:G65 4.2 21.4 1.0
P F:G47 4.2 21.4 1.0
O2' 5:G-1 4.3 18.1 1.0
C5' F:U67 4.3 17.9 1.0
O3' F:G64 4.3 21.4 1.0
O5' F:G65 4.3 21.4 1.0
C4' 5:G-1 4.5 18.1 1.0
O3' F:A66 4.5 20.8 1.0
MG F:MG202 4.5 21.6 1.0
C3' F:A66 4.8 20.8 1.0
C2' 5:G-1 4.8 18.1 1.0
OP2 F:G47 4.9 21.4 1.0
C5' F:G47 4.9 21.4 1.0
C5' F:G65 4.9 21.4 1.0
C5' 5:G-1 5.0 18.1 1.0

Magnesium binding site 3 out of 7 in 8xi2

Go back to Magnesium Binding Sites List in 8xi2
Magnesium binding site 3 out of 7 in the Cryo-Em Structure of the Chlamydomonas C* Complex


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 the Chlamydomonas C* Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg202

b:21.6
occ:1.00
 OP1 F:U67 2.1 17.9 1.0
OP1 F:A46 2.7 21.4 1.0
OP2 F:G47 3.2 21.4 1.0
OP1 F:G47 3.4 21.4 1.0
P F:U67 3.4 17.9 1.0
P F:G47 3.7 21.4 1.0
OP2 F:U67 4.0 17.9 1.0
P F:A46 4.1 21.4 1.0
O3' F:A66 4.2 20.8 1.0
MG F:MG201 4.5 21.6 1.0
O5' F:U67 4.6 17.9 1.0
C5' F:A46 4.7 21.4 1.0
O5' F:A46 4.7 21.4 1.0
O5' F:G47 4.8 21.4 1.0
O3' F:U45 4.9 18.5 1.0
O3' F:A46 4.9 21.4 1.0

Magnesium binding site 4 out of 7 in 8xi2

Go back to Magnesium Binding Sites List in 8xi2
Magnesium binding site 4 out of 7 in the Cryo-Em Structure of the Chlamydomonas C* Complex


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 the Chlamydomonas C* Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg203

b:15.7
occ:1.00
 OP1 F:G68 2.8 21.4 1.0
N7 F:G68 3.8 21.4 1.0
N7 F:A69 4.0 21.4 1.0
P F:G68 4.1 21.4 1.0
O4 F:U50 4.1 21.4 1.0
C8 F:G68 4.2 21.4 1.0
N6 F:A69 4.4 21.4 1.0
OP2 F:G68 4.5 21.4 1.0
N4 F:C70 4.5 16.9 1.0
MG F:MG205 4.7 11.5 1.0
C5 F:G68 4.7 21.4 1.0
OP2 F:A69 4.7 21.4 1.0
O5' F:G68 4.8 21.4 1.0
C5 F:A69 4.9 21.4 1.0
O6 F:G51 4.9 21.4 1.0
C8 F:A69 5.0 21.4 1.0
C4 F:U50 5.0 21.4 1.0
O6 F:G68 5.0 21.4 1.0

Magnesium binding site 5 out of 7 in 8xi2

Go back to Magnesium Binding Sites List in 8xi2
Magnesium binding site 5 out of 7 in the Cryo-Em Structure of the Chlamydomonas C* Complex


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 the Chlamydomonas C* Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg204

b:13.8
occ:1.00
 OP2 F:G68 2.5 21.4 1.0
N7 F:G65 3.7 21.4 1.0
N7 F:G64 3.9 21.4 1.0
P F:G68 3.9 21.4 1.0
C8 F:G64 4.1 21.4 1.0
C8 F:G65 4.3 21.4 1.0
OP2 F:G65 4.4 21.4 1.0
OP2 F:G64 4.5 21.4 1.0
O3' F:U67 4.6 17.9 1.0
C5 F:G64 4.6 21.4 1.0
OP1 F:G68 4.7 21.4 1.0
C8 F:G68 4.8 21.4 1.0
C5 F:G65 4.8 21.4 1.0
O5' F:G64 4.9 21.4 1.0
N9 F:G64 4.9 21.4 1.0
N7 F:G68 5.0 21.4 1.0
O6 F:G65 5.0 21.4 1.0

Magnesium binding site 6 out of 7 in 8xi2

Go back to Magnesium Binding Sites List in 8xi2
Magnesium binding site 6 out of 7 in the Cryo-Em Structure of the Chlamydomonas C* Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of the Chlamydomonas C* Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg205

b:11.5
occ:1.00
 OP2 F:A49 2.4 21.4 1.0
O2' F:U67 3.3 17.9 1.0
C8 F:A49 3.4 21.4 1.0
C6 F:C48 3.6 21.4 1.0
C5 F:C48 3.6 21.4 1.0
P F:A49 3.8 21.4 1.0
C2' F:U67 3.9 17.9 1.0
C3' F:C48 3.9 21.4 1.0
N7 F:A49 3.9 21.4 1.0
O4' F:A49 4.0 21.4 1.0
C5' F:A49 4.0 21.4 1.0
OP2 F:C48 4.0 21.4 1.0
N1 F:C48 4.1 21.4 1.0
OP1 F:G68 4.1 21.4 1.0
O5' F:A49 4.2 21.4 1.0
C4 F:C48 4.3 21.4 1.0
O3' F:U67 4.3 17.9 1.0
C2' F:C48 4.3 21.4 1.0
O3' F:C48 4.4 21.4 1.0
O5' F:C48 4.4 21.4 1.0
N9 F:A49 4.5 21.4 1.0
C2 F:C48 4.6 21.4 1.0
C4' F:A49 4.6 21.4 1.0
MG F:MG203 4.7 15.7 1.0
C3' F:U67 4.7 17.9 1.0
N3 F:C48 4.7 21.4 1.0
P F:G68 4.7 21.4 1.0
C1' F:C48 4.7 21.4 1.0
C1' F:A49 4.9 21.4 1.0
OP1 F:A49 4.9 21.4 1.0
N4 F:C48 4.9 21.4 1.0
P F:C48 4.9 21.4 1.0
OP2 F:G68 5.0 21.4 1.0
C4' F:C48 5.0 21.4 1.0

Magnesium binding site 7 out of 7 in 8xi2

Go back to Magnesium Binding Sites List in 8xi2
Magnesium binding site 7 out of 7 in the Cryo-Em Structure of the Chlamydomonas C* Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryo-Em Structure of the Chlamydomonas C* Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg206

b:8.3
occ:1.00
 OP1 F:G64 2.1 21.4 1.0
OP1 F:C48 2.3 21.4 1.0
P F:C48 3.5 21.4 1.0
P F:G64 3.5 21.4 1.0
O3' F:G47 3.7 21.4 1.0
NE2 A:GLN739 4.0 3.4 1.0
O3' F:A63 4.3 21.4 1.0
C5' F:C48 4.3 21.4 1.0
O5' F:G64 4.3 21.4 1.0
O5' F:C48 4.4 21.4 1.0
C5' F:G64 4.4 21.4 1.0
OP2 F:G64 4.5 21.4 1.0
O2' 5:G-1 4.5 18.1 1.0
OP2 F:C48 4.6 21.4 1.0
CD A:GLN739 4.8 3.4 1.0
OE1 A:GLN739 4.9 3.4 1.0

Reference:

Y.Lu, X.Zhan. Structure of A Step II Catalytically Activated Spliceosome Form Chlamydomonas Reinhardtii To Be Published.
Page generated: Thu Oct 31 22:20:44 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy