Atomistry » Magnesium » PDB 4yf4-4you » 4yg2
Atomistry »
  Magnesium »
    PDB 4yf4-4you »
      4yg2 »

Magnesium in PDB 4yg2: X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme

Enzymatic activity of X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme

All present enzymatic activity of X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme:
2.7.7.6;

Protein crystallography data

The structure of X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme, PDB code: 4yg2 was solved by K.S.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.98 / 3.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 187.308, 205.901, 309.185, 90.00, 90.00, 90.00
R / Rfree (%) 19.1 / 26

Other elements in 4yg2:

The structure of X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme (pdb code 4yg2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme, PDB code: 4yg2:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 4yg2

Go back to Magnesium Binding Sites List in 4yg2
Magnesium binding site 1 out of 4 in the X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1401

b:94.5
occ:1.00
 OD2 D:ASP460 1.8 0.1 1.0
O D:ALA459 2.8 67.4 1.0
CG D:ASP460 2.9 0.7 1.0
OE1 C:GLU813 2.9 0.3 1.0
CD C:GLU813 3.4 0.1 1.0
C D:ALA459 3.5 66.8 1.0
OD1 D:ASP460 3.5 0.7 1.0
OE2 C:GLU813 3.6 0.0 1.0
N D:ASP460 3.8 78.3 1.0
CA D:ASP460 3.8 0.0 1.0
CB D:ASP460 3.9 0.7 1.0
OD1 D:ASN458 4.4 87.0 1.0
CG C:GLU813 4.5 0.3 1.0
N D:ALA459 4.5 91.8 1.0
C D:ASN458 4.6 67.5 1.0
CA D:ALA459 4.6 68.1 1.0
O D:CYS454 4.9 71.8 1.0
O D:ASN458 5.0 67.2 1.0
CA D:ASN458 5.0 68.4 1.0

Magnesium binding site 2 out of 4 in 4yg2

Go back to Magnesium Binding Sites List in 4yg2
Magnesium binding site 2 out of 4 in the X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg2001

b:94.5
occ:1.00
 OD2 D:ASP462 2.4 98.3 1.0
OD1 D:ASP462 2.9 0.8 1.0
CG D:ASP462 2.9 0.4 1.0
OD1 D:ASP464 3.0 0.5 1.0
CG D:ASP464 4.0 98.4 1.0
OD2 D:ASP464 4.2 0.0 1.0
CB D:ASP462 4.4 0.9 1.0
CE C:LYS1073 4.9 63.1 1.0

Magnesium binding site 3 out of 4 in 4yg2

Go back to Magnesium Binding Sites List in 4yg2
Magnesium binding site 3 out of 4 in the X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg1401

b:94.5
occ:1.00
 OD2 J:ASP460 2.4 97.4 1.0
OE2 I:GLU813 2.9 0.7 1.0
O J:ALA459 3.1 0.3 1.0
OE1 I:GLU813 3.2 0.4 1.0
CD I:GLU813 3.3 0.1 1.0
CG J:ASP460 3.4 0.6 1.0
C J:ALA459 3.8 0.6 1.0
OD1 J:ASN458 4.1 96.3 1.0
O J:CYS454 4.1 95.5 1.0
OD1 J:ASP460 4.1 0.9 1.0
CA J:ASP460 4.2 0.6 1.0
N J:ASP460 4.2 0.3 1.0
CB J:ASP460 4.3 0.2 1.0
CG I:GLU813 4.4 0.3 1.0
N J:ALA459 4.6 94.1 1.0
C J:ASN458 4.6 0.0 1.0
CA J:ASN458 4.7 0.6 1.0
C J:CYS454 4.9 95.7 1.0
CA J:ALA459 4.9 94.0 1.0

Magnesium binding site 4 out of 4 in 4yg2

Go back to Magnesium Binding Sites List in 4yg2
Magnesium binding site 4 out of 4 in the X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of X-Ray Crystal Structur of Escherichia Coli Rna Polymerase SIGMA70 Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg2001

b:94.5
occ:1.00
 OD1 J:ASP464 2.4 1.0 1.0
OD2 J:ASP462 2.7 0.5 1.0
OD1 J:ASP462 2.7 0.9 1.0
OD2 J:ASP464 3.1 94.4 1.0
CG J:ASP462 3.1 0.1 1.0
CG J:ASP464 3.1 0.7 1.0
NH2 J:ARG425 4.2 0.5 1.0
CB J:ASP464 4.6 0.2 1.0
CB J:ASP462 4.7 1.0 1.0
OD1 J:ASP460 4.8 0.9 1.0

Reference:

K.S.Murakami, K.S.Murakami. N/A N/A.
ISSN: ESSN 1083-351X
PubMed: 23389035
DOI: 10.1074/JBC.M112.430900
Page generated: Sat Sep 28 23:17:55 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