Atomistry » Zinc » PDB 3eju-3eyd » 3epz
Atomistry »
  Zinc »
    PDB 3eju-3eyd »
      3epz »

Zinc in PDB 3epz: Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1

Enzymatic activity of Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1

All present enzymatic activity of Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1:
2.1.1.37;

Protein crystallography data

The structure of Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1, PDB code: 3epz was solved by J.R.Walker, G.V.Avvakumov, S.Xue, Y.Li, C.Bountra, J.Weigelt, C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Paganon, Structuralgenomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.11 / 2.31
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 57.544, 59.768, 96.286, 90.00, 92.31, 90.00
R / Rfree (%) 21.3 / 26.4

Other elements in 3epz:

The structure of Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1 also contains other interesting chemical elements:

Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1 (pdb code 3epz). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1, PDB code: 3epz:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3epz

Go back to Zinc Binding Sites List in 3epz
Zinc binding site 1 out of 2 in the Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn701

b:35.4
occ:1.00
ND1 A:HIS418 2.1 39.8 1.0
SG A:CYS356 2.2 37.3 1.0
SG A:CYS414 2.3 34.9 1.0
SG A:CYS353 2.4 38.0 1.0
CG A:HIS418 3.1 39.4 1.0
CE1 A:HIS418 3.1 41.4 1.0
CB A:CYS353 3.2 41.6 1.0
CB A:HIS418 3.3 37.7 1.0
CB A:CYS414 3.5 35.0 1.0
CB A:CYS356 3.5 40.6 1.0
N A:CYS356 3.9 41.8 1.0
NE2 A:HIS418 4.2 42.4 1.0
CD2 A:HIS418 4.2 40.5 1.0
CB A:GLN355 4.3 40.6 1.0
CA A:CYS356 4.3 41.9 1.0
CA A:HIS418 4.5 37.9 1.0
CB A:HIS416 4.6 40.2 1.0
N A:HIS418 4.6 38.0 1.0
CD2 A:HIS416 4.7 40.8 1.0
CA A:CYS353 4.7 43.9 1.0
C A:GLN355 4.8 42.7 1.0
CA A:CYS414 4.8 35.1 1.0
CA A:GLN355 4.9 42.6 1.0
NE2 A:GLN358 4.9 42.3 1.0
O A:HIS418 5.0 38.2 1.0
N A:GLN355 5.0 43.4 1.0

Zinc binding site 2 out of 2 in 3epz

Go back to Zinc Binding Sites List in 3epz
Zinc binding site 2 out of 2 in the Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Replication Foci-Targeting Sequence of Human Dna Cytosine Methyltransferase DNMT1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn701

b:60.5
occ:1.00
ND1 B:HIS418 2.0 66.4 1.0
SG B:CYS353 2.3 64.2 1.0
SG B:CYS414 2.5 58.9 1.0
CB B:CYS356 2.6 65.0 1.0
SG B:CYS356 2.6 67.1 1.0
CE1 B:HIS418 3.0 67.1 1.0
CG B:HIS418 3.0 66.4 1.0
CB B:CYS353 3.1 66.1 1.0
CB B:HIS418 3.3 64.2 1.0
N B:CYS356 3.4 64.6 1.0
CA B:CYS356 3.5 64.9 1.0
CB B:CYS414 3.6 56.5 1.0
NE2 B:HIS418 4.1 69.6 1.0
CD2 B:HIS418 4.1 68.7 1.0
CB B:GLN355 4.4 66.3 1.0
CA B:HIS418 4.5 64.5 1.0
C B:GLN355 4.6 65.3 1.0
CA B:CYS353 4.6 65.9 1.0
N B:HIS418 4.6 64.1 1.0
ND1 B:HIS416 4.6 63.3 1.0
CB B:HIS416 4.7 65.2 1.0
C B:CYS356 4.8 65.1 1.0
O B:HIS418 4.9 61.1 1.0
CA B:GLN355 4.9 65.7 1.0
CA B:CYS414 5.0 55.9 1.0

Reference:

F.Syeda, R.L.Fagan, M.Wean, G.V.Avvakumov, J.R.Walker, S.Xue, S.Dhe-Paganon, C.Brenner. The Replication Focus Targeting Sequence (Rfts) Domain Is A Dna-Competitive Inhibitor of DNMT1. J.Biol.Chem. V. 286 15344 2011.
ISSN: ISSN 0021-9258
PubMed: 21389349
DOI: 10.1074/JBC.M110.209882
Page generated: Wed Dec 16 04:16:44 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy