Atomistry » Magnesium » PDB 3fzn-3g8c » 3g4t
Atomistry »
  Magnesium »
    PDB 3fzn-3g8c »
      3g4t »

Magnesium in PDB 3g4t: MTH0212 (Wt) in Complex with A 7BP Dsdna

Enzymatic activity of MTH0212 (Wt) in Complex with A 7BP Dsdna

All present enzymatic activity of MTH0212 (Wt) in Complex with A 7BP Dsdna:
3.1.11.2;

Protein crystallography data

The structure of MTH0212 (Wt) in Complex with A 7BP Dsdna, PDB code: 3g4t was solved by K.Lakomek, A.Dickmanns, R.Ficner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.57 / 2.64
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 100.764, 79.600, 99.409, 90.00, 90.00, 90.00
R / Rfree (%) 24 / 29.7

Magnesium Binding Sites:

The binding sites of Magnesium atom in the MTH0212 (Wt) in Complex with A 7BP Dsdna (pdb code 3g4t). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the MTH0212 (Wt) in Complex with A 7BP Dsdna, PDB code: 3g4t:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3g4t

Go back to Magnesium Binding Sites List in 3g4t
Magnesium binding site 1 out of 2 in the MTH0212 (Wt) in Complex with A 7BP Dsdna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of MTH0212 (Wt) in Complex with A 7BP Dsdna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg267

b:77.2
occ:1.00
O4 A:PO4266 2.3 64.6 1.0
OE2 A:GLU38 2.4 56.1 1.0
O3' H:DA7 2.6 69.4 1.0
OD2 A:ASP247 3.2 52.4 1.0
OD1 A:ASP247 3.3 56.0 1.0
CD A:GLU38 3.4 55.9 1.0
NE2 A:HIS248 3.6 51.0 1.0
CG A:ASP247 3.7 54.8 1.0
OD1 A:ASN12 3.7 46.6 1.0
OD1 A:ASN10 3.7 49.8 1.0
P A:PO4266 3.8 63.8 1.0
CD2 A:HIS248 3.8 51.2 1.0
OE1 A:GLU38 3.8 58.6 1.0
ND2 A:ASN10 3.9 46.9 1.0
CG A:ASN12 4.0 48.8 1.0
C3' H:DA7 4.0 69.8 1.0
CG A:ASN10 4.1 48.9 1.0
O3 A:PO4266 4.4 59.3 1.0
CB A:ASN12 4.4 49.7 1.0
O1 A:PO4266 4.4 66.2 1.0
CG A:GLU38 4.6 52.6 1.0
ND2 A:ASN12 4.7 49.4 1.0
O2 A:PO4266 4.7 63.3 1.0
C2' H:DA7 4.7 70.2 1.0
CA A:ASN12 4.9 49.5 1.0
CE1 A:HIS248 4.9 50.6 1.0
C4' H:DA7 4.9 69.5 1.0
NE1 A:TRP205 4.9 67.5 1.0

Magnesium binding site 2 out of 2 in 3g4t

Go back to Magnesium Binding Sites List in 3g4t
Magnesium binding site 2 out of 2 in the MTH0212 (Wt) in Complex with A 7BP Dsdna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of MTH0212 (Wt) in Complex with A 7BP Dsdna within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg267

b:80.7
occ:1.00
O4 B:PO4266 2.3 76.1 1.0
OE2 B:GLU38 2.8 56.4 1.0
O3' I:DG9 2.8 72.7 1.0
OD1 B:ASP247 3.1 57.9 1.0
OD2 B:ASP247 3.2 53.5 1.0
CG B:ASP247 3.5 56.4 1.0
NE2 B:HIS248 3.6 53.4 1.0
OD1 B:ASN10 3.6 51.2 1.0
CD2 B:HIS248 3.7 53.4 1.0
CD B:GLU38 3.7 56.8 1.0
OD1 B:ASN12 3.7 47.7 1.0
P B:PO4266 3.8 76.5 1.0
CG B:ASN12 3.9 49.9 1.0
ND2 B:ASN10 4.1 47.9 1.0
OE1 B:GLU38 4.1 59.7 1.0
CG B:ASN10 4.1 50.1 1.0
CB B:ASN12 4.2 50.5 1.0
C3' I:DG9 4.2 73.8 1.0
O3 B:PO4266 4.3 78.5 1.0
O1 B:PO4266 4.5 74.5 1.0
ND2 B:ASN12 4.5 49.8 1.0
O2 B:PO4266 4.7 75.6 1.0
CA B:ASN12 4.8 50.5 1.0
CG B:GLU38 4.9 54.0 1.0
CE1 B:HIS248 4.9 52.5 1.0
NE1 B:TRP205 4.9 77.0 1.0
C2' I:DG9 5.0 73.5 1.0

Reference:

K.Lakomek, A.Dickmanns, E.Ciirdaeva, L.Schomacher, R.Ficner. Crystal Structure Analysis of Dna Uridine Endonuclease MTH212 Bound to Dna J.Mol.Biol. V. 399 604 2010.
ISSN: ISSN 0022-2836
PubMed: 20434457
DOI: 10.1016/J.JMB.2010.04.044
Page generated: Wed Aug 14 14:05:06 2024

Last articles

Ca in 2YIC
Ca in 2YIG
Ca in 2YID
Ca in 2YIH
Ca in 2YI1
Ca in 2YHY
Ca in 2YHW
Ca in 2YHG
Ca in 2YGG
Ca in 2YGM
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy