Potassium in PDB 8swa: Crystal Structure of the Human S-Adenosylmethionine Synthetase 1 in Complex with Sam and Ppnp

Enzymatic activity of Crystal Structure of the Human S-Adenosylmethionine Synthetase 1 in Complex with Sam and Ppnp

All present enzymatic activity of Crystal Structure of the Human S-Adenosylmethionine Synthetase 1 in Complex with Sam and Ppnp:
2.5.1.6;

Protein crystallography data

The structure of Crystal Structure of the Human S-Adenosylmethionine Synthetase 1 in Complex with Sam and Ppnp, PDB code: 8swa was solved by K.J.Bruemmer, V.N.Pham, J.D.W.Toh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	38.86 / 2.00
*Space group*	I 2 2 2
*Cell size a, b, c (Å), α, β, γ (°)*	61.698, 100.421, 122.74, 90, 90, 90
*R / R_free (%)*	14.3 / 19.4

Other elements in 8swa:

The structure of Crystal Structure of the Human S-Adenosylmethionine Synthetase 1 in Complex with Sam and Ppnp also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of the Human S-Adenosylmethionine Synthetase 1 in Complex with Sam and Ppnp (pdb code 8swa). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total only one binding site of Potassium was determined in the Crystal Structure of the Human S-Adenosylmethionine Synthetase 1 in Complex with Sam and Ppnp, PDB code: 8swa:

Potassium binding site 1 out of 1 in 8swa

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Potassium Binding Sites List in 8swa

Potassium binding site 1 out of 1 in the Crystal Structure of the Human S-Adenosylmethionine Synthetase 1 in Complex with Sam and Ppnp

Mono view

Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of the Human S-Adenosylmethionine Synthetase 1 in Complex with Sam and Ppnp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:K604 b:27.6 occ:1.00	O1B	A:PPK601	2.8	10.9	1.0
	OD1	A:ASP258	2.8	25.7	1.0
	O	A:ALA259	3.0	13.6	1.0
	O	A:HOH750	3.2	13.2	1.0
	O	A:HOH736	3.3	10.9	1.0
	CG	A:ASP258	3.6	24.6	1.0
	O2B	A:PPK601	3.7	16.4	1.0
	OD2	A:ASP258	3.7	18.5	1.0
	PB	A:PPK601	3.8	13.2	1.0
	MG	A:MG602	3.8	6.4	1.0
	C	A:ALA259	4.0	14.4	1.0
	N	A:ALA259	4.1	13.2	1.0
	N	A:SAM605	4.3	27.3	1.0
	CA	A:ALA259	4.4	14.2	1.0
	CB	A:ALA259	4.4	16.6	1.0
	NH1	A:ARG264	4.4	19.0	1.0
	O3A	A:PPK601	4.6	14.9	1.0
	C	A:ASP258	4.8	16.5	1.0
	CB	A:ASP258	4.9	17.7	1.0

Reference:

V.N.Pham, K.J.Bruemmer, J.D.W.Toh, E.J.Ge, L.Tenney, C.C.Ward, F.A.Dingler, C.L.Millington, C.A.Garcia-Prieto, M.C.Pulos-Holmes, N.T.Ingolia, L.B.Pontel, M.Esteller, K.J.Patel, D.K.Nomura, C.J.Chang. Formaldehyde Regulates S -Adenosylmethionine Biosynthesis and One-Carbon Metabolism. Science V. 382 P9201 2023.
ISSN: ESSN 1095-9203
PubMed: 37917677
DOI: 10.1126/SCIENCE.ABP9201

Page generated: Tue Aug 13 00:54:07 2024

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