Manganese in PDB 5zqf: Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221

Enzymatic activity of Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221

All present enzymatic activity of Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221:
5.99.1.3;

Protein crystallography data

The structure of Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221, PDB code: 5zqf was solved by S.F.Chen, Y.R.Wang, N.L.Chan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	19.90 / 3.87
*Space group*	P 3₂ 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	94.990, 94.990, 231.486, 90.00, 90.00, 120.00
*R / R_free (%)*	20.3 / 24.7

Other elements in 5zqf:

The structure of Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221 also contains other interesting chemical elements:

Iodine

(I)

2 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221 (pdb code 5zqf). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221, PDB code: 5zqf:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 5zqf

Go back to

Manganese Binding Sites List in 5zqf

Manganese binding site 1 out of 2 in the Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221

Mono view

Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221 within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mn1301 b:0.6 occ:1.00	OD2	A:ASP559	1.9	0.3	1.0
	OD2	A:ASP557	2.4	0.2	1.0
	CG	A:ASP559	2.9	0.8	1.0
	OD1	A:ASP559	3.2	0.8	1.0
	CG	A:ASP557	3.2	0.4	1.0
	CB	A:ASP557	3.4	0.9	1.0
	OE2	A:GLU477	4.0	92.7	1.0
	CB	A:ASP559	4.2	0.4	1.0
	OD1	A:ASP557	4.4	0.3	1.0
	CA	A:GLY631	4.5	0.4	1.0
	O3'	B:DC8	4.5	0.6	1.0
	OP1	B:DC8	4.7	0.8	1.0
	C5'	B:DC8	4.8	0.1	1.0
	CD	A:GLU477	4.8	94.9	1.0
	N	A:GLY631	4.8	0.4	1.0
	CA	A:ASP557	4.9	0.2	1.0

Manganese binding site 2 out of 2 in 5zqf

Go back to

Manganese Binding Sites List in 5zqf

Manganese binding site 2 out of 2 in the Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221

Mono view

Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Human Topoisomerase II Beta in Complex with 5- Iodouridine-Containing-Dna in Space Group P3221 within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mn1302 b:0.5 occ:1.00	O	A:ASN867	3.4	0.9	1.0
	O	A:SER794	3.8	78.6	1.0
	O	A:GLY868	3.9	0.2	1.0
	OP1	B:DG5	4.1	0.9	1.0
	OE1	A:GLU870	4.2	0.5	1.0
	OD1	A:ASN795	4.3	93.3	1.0
	NH1	A:ARG945	4.6	0.2	1.0
	C	A:ASN867	4.6	0.5	1.0
	C	A:GLY868	4.6	0.8	1.0
	C	A:SER794	4.7	78.4	1.0
	NH2	A:ARG945	4.9	0.8	1.0
	CD	A:GLU870	4.9	0.1	1.0
	OD1	A:ASN786	5.0	0.0	1.0

Reference:

S.F.Chen, N.L.Huang, J.H.Lin, C.C.Wu, Y.R.Wang, Y.J.Yu, M.K.Gilson, N.L.Chan. Structural Insights Into the Gating of Dna Passage By the Topoisomerase II Dna-Gate. Nat Commun V. 9 3085 2018.
ISSN: ESSN 2041-1723
PubMed: 30082834
DOI: 10.1038/S41467-018-05406-Y

Page generated: Sun Oct 6 03:43:25 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