Magnesium in PDB 7l6t: Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions.

Protein crystallography data

The structure of Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions., PDB code: 7l6t was solved by G.Minasov, L.Shuvalova, M.Rosas-Lemus, O.Kiryukhina, J.S.Brunzelle, K.J.F.Satchell, Center For Structural Genomics Of Infectious Diseases(Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.33 / 1.78
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 169.351, 169.351, 52.629, 90, 90, 120
R / Rfree (%) 14.1 / 16.2

Other elements in 7l6t:

The structure of Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions. also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions. (pdb code 7l6t). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions., PDB code: 7l6t:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 7l6t

Go back to Magnesium Binding Sites List in 7l6t
Magnesium binding site 1 out of 2 in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg7101

b:20.5
occ:1.00
O A:HOH7388 2.1 19.1 1.0
O C:HOH205 2.1 19.0 1.0
O A:HOH7455 2.1 20.1 1.0
OD1 A:ASN6996 2.1 18.4 1.0
O C:HOH219 2.1 22.1 1.0
O C:HOH206 2.2 19.5 1.0
CG A:ASN6996 3.1 18.4 1.0
ND2 A:ASN6996 3.6 17.5 1.0
O A:HOH7329 4.0 27.7 1.0
OP2 C:U2 4.1 20.9 1.0
O C:HOH211 4.2 26.1 1.0
OP1 C:U2 4.2 18.5 1.0
OG A:SER6998 4.2 19.1 1.0
O A:HOH7291 4.2 28.5 1.0
CB A:SER6999 4.3 17.9 1.0
O C:HOH220 4.4 35.9 1.0
O4' C:U3 4.4 25.5 1.0
OP1 C:A2M1 4.4 22.2 1.0
CB A:ASN6996 4.4 18.3 1.0
P C:U2 4.6 20.6 1.0
C1' C:U3 4.7 26.6 1.0
CA A:ASN6996 4.8 18.1 1.0
C4' C:U3 4.8 26.6 1.0
CE A:MET6840 4.9 29.9 1.0
O A:ASP6830 5.0 24.2 1.0

Magnesium binding site 2 out of 2 in 7l6t

Go back to Magnesium Binding Sites List in 7l6t
Magnesium binding site 2 out of 2 in the Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg101

b:34.7
occ:1.00
OP1 C:U3 1.9 25.4 1.0
OP2 C:A4 2.1 36.7 1.0
O C:HOH212 2.1 32.8 1.0
O A:HOH7254 2.1 30.7 1.0
O A:HOH7370 2.2 28.1 1.0
O C:HOH215 2.2 38.2 1.0
P C:U3 3.3 25.0 1.0
P C:A4 3.5 39.0 1.0
OP2 C:U3 3.9 25.4 1.0
NZ A:LYS6874 4.0 29.8 1.0
O5' C:U3 4.1 24.4 1.0
OD2 A:ASP6873 4.1 34.3 1.0
O C:HOH217 4.2 40.1 1.0
O C:HOH223 4.2 36.8 1.0
O A:HOH7585 4.2 57.7 1.0
OP1 C:A4 4.2 41.4 1.0
O5' C:A4 4.3 40.7 1.0
O3' C:U2 4.4 23.1 1.0
C2' C:U2 4.4 23.9 1.0
C5' C:U3 4.4 24.9 1.0
OD1 A:ASP6873 4.5 31.0 1.0
O A:HOH7538 4.5 55.8 1.0
O3' C:U3 4.5 33.6 1.0
C3' C:U2 4.5 22.8 1.0
O2' C:U2 4.7 23.7 1.0
CG A:ASP6873 4.7 31.7 1.0
C3' C:U3 4.8 28.3 1.0

Reference:

G.Minasov, L.Shuvalova, M.Rosas-Lemus, O.Kiryukhina, J.S.Brunzelle, K.J.F.Satchell, Center For Structural Genomics Of Infectious Diseases(Csgid). Crystal Structure of Sars-Cov-2 NSP16/10 Heterodimer in Complex with (M7GPPPA2M)Pupupapapa (Cap-1), S-Adenosyl-L-Homocysteine (Sah) and Two Magnesium (Mg) Ions. To Be Published.
Page generated: Mon Jan 25 15:30:01 2021

Last articles

Zn in 7M6U
Zn in 7NNG
Zn in 7NEE
Zn in 7NEU
Zn in 7M3K
Zn in 7KWD
Zn in 7KYH
Zn in 7KNG
Zn in 7KY2
Zn in 7KYF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy