Atomistry » Sodium » PDB 8byk-8cps » 8c59
Atomistry »
  Sodium »
    PDB 8byk-8cps »
      8c59 »

Sodium in PDB 8c59: Cpg Specific M.Mpei Methyltransferase Crystallized in the Presence of 5-Bromocytosine (Converted to 5MC) and 5-Methylcytosine Containing Dsdna

Protein crystallography data

The structure of Cpg Specific M.Mpei Methyltransferase Crystallized in the Presence of 5-Bromocytosine (Converted to 5MC) and 5-Methylcytosine Containing Dsdna, PDB code: 8c59 was solved by M.Wojciechowski, H.Czapinska, J.Krwawicz, D.Rafalski, M.Bochtler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.95 / 1.70
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 84.511, 84.511, 173.115, 90, 90, 90
R / Rfree (%) 16.7 / 19.3

Sodium Binding Sites:

The binding sites of Sodium atom in the Cpg Specific M.Mpei Methyltransferase Crystallized in the Presence of 5-Bromocytosine (Converted to 5MC) and 5-Methylcytosine Containing Dsdna (pdb code 8c59). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Cpg Specific M.Mpei Methyltransferase Crystallized in the Presence of 5-Bromocytosine (Converted to 5MC) and 5-Methylcytosine Containing Dsdna, PDB code: 8c59:

Sodium binding site 1 out of 1 in 8c59

Go back to Sodium Binding Sites List in 8c59
Sodium binding site 1 out of 1 in the Cpg Specific M.Mpei Methyltransferase Crystallized in the Presence of 5-Bromocytosine (Converted to 5MC) and 5-Methylcytosine Containing Dsdna


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Cpg Specific M.Mpei Methyltransferase Crystallized in the Presence of 5-Bromocytosine (Converted to 5MC) and 5-Methylcytosine Containing Dsdna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na402

b:52.8
occ:1.00
O A:HOH662 2.2 59.7 1.0
O A:ASN93 2.4 41.9 1.0
O A:LYS90 2.4 45.6 1.0
O7 A:CIT410 2.4 55.0 0.8
O6 A:CIT410 2.5 54.6 0.8
O4 A:CIT410 2.6 54.3 0.8
C6 A:CIT410 3.3 56.3 0.8
C3 A:CIT410 3.4 56.7 0.8
C A:ASN93 3.4 41.9 1.0
C A:LYS90 3.6 45.3 1.0
C5 A:CIT410 3.6 56.2 0.8
O A:HOH644 3.7 57.5 1.0
C4 A:CIT410 4.0 57.2 0.8
O A:LYS91 4.1 42.1 0.5
CB A:ASN93 4.1 42.1 1.0
CA A:LYS91 4.1 43.1 0.5
C A:LYS91 4.1 41.8 0.5
CA A:ASN93 4.1 40.9 1.0
O A:LYS91 4.1 42.2 0.5
CA A:LYS91 4.2 43.4 0.5
C A:LYS91 4.2 41.9 0.5
CB A:ASN94 4.2 46.0 1.0
ND2 A:ASN94 4.2 48.7 1.0
N A:ASN93 4.2 39.6 1.0
O2 A:CIT410 4.3 57.2 0.8
N A:LYS91 4.3 43.8 0.5
N A:LYS91 4.3 44.0 0.5
O5 A:CIT410 4.4 56.3 0.8
N A:ASN94 4.5 42.5 1.0
O A:HOH713 4.5 65.8 1.0
CA A:LYS90 4.6 47.0 1.0
C2 A:CIT410 4.7 58.4 0.8
CG A:ASN94 4.7 47.6 1.0
CA A:ASN94 4.7 43.6 1.0
ND2 A:ASN93 4.8 45.6 1.0
O3 A:CIT410 4.8 57.5 0.8
C A:ILE92 4.8 39.2 1.0
N A:ILE92 4.8 40.2 1.0
NZ A:LYS91 4.9 50.4 0.5
CG A:ASN93 4.9 43.5 1.0
O A:ASN94 4.9 43.3 1.0
C1 A:CIT410 4.9 58.5 0.8
C A:ASN94 5.0 42.6 1.0

Reference:

M.Wojciechowski, H.Czapinska, J.Krwawicz, D.Rafalski, M.Bochtler. Cytosine Analogues As Dna Methyltransferase Substrates and Inhibitors To Be Published.
Page generated: Wed Oct 9 10:51:40 2024

Last articles

Zn in 9FS1
Zn in 9FS3
Zn in 9FS2
Zn in 9H3H
Zn in 9F29
Zn in 9F2A
Zn in 9EY2
Zn in 9F26
Zn in 9E8J
Zn in 9E8N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy