Atomistry » Mercury » PDB 2esw-2o1f » 2jhn
Atomistry »
  Mercury »
    PDB 2esw-2o1f »
      2jhn »

Mercury in PDB 2jhn: 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus

Enzymatic activity of 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus

All present enzymatic activity of 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus:
3.2.2.21;

Protein crystallography data

The structure of 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus, PDB code: 2jhn was solved by I.Leiros, M.P.Nabong, K.Grosvik, J.Ringvoll, G.T.Haugland, L.Uldal, K.Reite, I.K.Olsbu, I.Knaevelsrud, E.Moe, O.A.Andersen, N.K.Birkeland, P.Ruoff, A.Klungland, S.Bjelland, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 12.00 / 1.8
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 69.494, 49.968, 105.798, 90.00, 107.43, 90.00
R / Rfree (%) 18.5 / 22.3

Other elements in 2jhn:

The structure of 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus also contains other interesting chemical elements:

Sodium (Na) 4 atoms

Mercury Binding Sites:

The binding sites of Mercury atom in the 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus (pdb code 2jhn). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 4 binding sites of Mercury where determined in the 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus, PDB code: 2jhn:
Jump to Mercury binding site number: 1; 2; 3; 4;

Mercury binding site 1 out of 4 in 2jhn

Go back to Mercury Binding Sites List in 2jhn
Mercury binding site 1 out of 4 in the 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1296

b:24.6
occ:0.70
HG A:MBO1296 0.0 24.6 0.7
CE1 A:MBO1296 2.3 23.9 0.7
SG A:CYS178 2.3 21.5 1.0
CE6 A:MBO1296 3.2 22.7 0.7
CE2 A:MBO1296 3.2 22.7 0.7
O A:LYS142 3.2 16.8 1.0
CB A:CYS178 3.2 22.9 1.0
O B:HOH2173 3.4 30.8 1.0
NH1 A:ARG146 3.6 24.0 1.0
CZ A:ARG146 3.6 22.4 1.0
C A:LYS142 3.7 17.8 1.0
CA A:CYS178 3.7 23.8 1.0
CB A:LYS142 3.7 20.6 1.0
NE A:ARG146 3.8 21.1 1.0
CB A:ARG146 3.9 19.8 1.0
CA A:LYS142 4.0 18.6 1.0
CD A:ARG146 4.1 21.9 1.0
NH2 A:ARG146 4.2 25.3 1.0
CD A:LYS142 4.3 27.0 1.0
CE3 A:MBO1296 4.5 24.1 0.7
N A:ILE143 4.5 16.8 1.0
CE5 A:MBO1296 4.5 24.3 0.7
N A:CYS178 4.5 23.9 1.0
CG A:ARG146 4.6 19.5 1.0
CG A:LYS142 4.7 23.2 1.0
C A:CYS178 4.8 24.1 1.0
O A:CYS178 4.9 24.5 1.0
CA A:ILE143 4.9 16.5 1.0
OE2 B:GLU177 4.9 24.6 1.0
N A:ARG146 5.0 18.6 1.0

Mercury binding site 2 out of 4 in 2jhn

Go back to Mercury Binding Sites List in 2jhn
Mercury binding site 2 out of 4 in the 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1297

b:44.9
occ:0.30
N A:MET1 2.7 29.0 1.0
O A:MET1 2.9 26.9 1.0
C A:MET1 3.4 27.1 1.0
CE2 A:TRP2 3.6 23.9 1.0
CA A:MET1 3.6 28.2 1.0
CZ2 A:TRP2 3.7 24.5 1.0
CD2 A:TRP2 3.8 23.1 1.0
CH2 A:TRP2 3.9 24.9 1.0
CE3 A:TRP2 4.1 22.8 1.0
CZ3 A:TRP2 4.1 24.4 1.0
NE1 A:TRP2 4.1 23.1 1.0
N A:TRP2 4.4 24.5 1.0
CB A:MET1 4.4 29.2 1.0
CG A:TRP2 4.4 23.3 1.0
O A:HOH2001 4.6 30.0 1.0
CD1 A:TRP2 4.6 24.8 1.0
OD1 A:ASN66 4.7 41.1 1.0

Mercury binding site 3 out of 4 in 2jhn

Go back to Mercury Binding Sites List in 2jhn
Mercury binding site 3 out of 4 in the 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 3 of 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg1296

b:21.2
occ:0.70
HG B:MBO1296 0.0 21.2 0.7
CE1 B:MBO1296 2.3 21.8 0.7
SG B:CYS178 2.4 20.5 1.0
CE2 B:MBO1296 3.2 20.7 0.7
O B:LYS142 3.2 13.0 1.0
CE6 B:MBO1296 3.2 20.4 0.7
O A:HOH2125 3.2 27.9 1.0
CB B:CYS178 3.4 17.4 1.0
CB B:ARG146 3.6 16.1 1.0
C B:LYS142 3.7 14.2 1.0
CA B:CYS178 3.7 18.3 1.0
CB B:LYS142 3.9 16.5 1.0
CA B:LYS142 4.1 14.8 1.0
OE2 A:GLU177 4.1 28.0 1.0
NE B:ARG146 4.3 24.0 1.0
NH2 B:ARG146 4.3 25.8 1.0
CD B:LYS142 4.4 24.5 1.0
CG B:ARG146 4.4 17.9 1.0
CZ B:ARG146 4.5 24.4 1.0
OE1 A:GLU177 4.5 30.0 1.0
N B:ILE143 4.5 12.5 1.0
CE3 B:MBO1296 4.5 22.8 0.7
CE5 B:MBO1296 4.5 21.3 0.7
N B:CYS178 4.6 17.7 1.0
CD A:GLU177 4.7 27.7 1.0
CG B:LYS142 4.7 18.1 1.0
C B:CYS178 4.8 17.5 1.0
N B:ARG146 4.8 15.0 1.0
O B:CYS178 4.8 18.5 1.0
CA B:ARG146 4.8 15.5 1.0
O B:HOH2171 4.8 22.8 1.0
O B:HOH2144 4.9 34.1 1.0
CA B:ILE143 4.9 12.9 1.0
CD B:ARG146 5.0 20.7 1.0

Mercury binding site 4 out of 4 in 2jhn

Go back to Mercury Binding Sites List in 2jhn
Mercury binding site 4 out of 4 in the 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 4 of 3-Methyladenine Dna-Glycosylase From Archaeoglobus Fulgidus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg1297

b:42.8
occ:0.30
N B:MET1 2.8 27.7 1.0
O B:MET1 2.9 26.4 1.0
O B:HOH2029 3.2 42.2 1.0
C B:MET1 3.3 25.5 1.0
CA B:MET1 3.4 26.4 1.0
CE2 B:TRP2 3.7 21.2 1.0
CZ2 B:TRP2 3.8 23.5 1.0
CD2 B:TRP2 3.9 22.0 1.0
CH2 B:TRP2 3.9 23.1 1.0
CE3 B:TRP2 4.0 20.6 1.0
CZ3 B:TRP2 4.1 21.7 1.0
NE1 B:TRP2 4.3 21.1 1.0
O B:HOH2066 4.3 22.7 1.0
N B:TRP2 4.4 22.9 1.0
CG B:TRP2 4.5 22.1 1.0
CD1 B:TRP2 4.7 21.9 1.0
OD1 B:ASN66 4.7 30.8 0.5
CB B:MET1 4.9 26.8 1.0

Reference:

I.Leiros, M.P.Nabong, K.Grosvik, J.Ringvoll, G.T.Haugland, L.Uldal, K.Reite, I.K.Olsbu, I.Knaevelsrud, E.Moe, O.A.Andersen, N.K.Birkeland, P.Ruoff, A.Klungland, S.Bjelland. Structural Basis For Enzymatic Excision of N1- Methyladenine and N3-Methylcytosine From Dna Embo J. V. 26 2206 2007.
ISSN: ISSN 0261-4189
PubMed: 17396151
DOI: 10.1038/SJ.EMBOJ.7601662
Page generated: Sun Dec 13 19:07:21 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy