Sodium in PDB 5bw6: Tryptophan Synthase From Salmonella Typhimurium in Complex with A Single Molecule of 2-({[4-(Trifluoromethoxy)Phenyl]Carbonyl}Amino) Ethyl Dihydrogen Phosphate (F6) in the Alpha-Site.

Enzymatic activity of Tryptophan Synthase From Salmonella Typhimurium in Complex with A Single Molecule of 2-({[4-(Trifluoromethoxy)Phenyl]Carbonyl}Amino) Ethyl Dihydrogen Phosphate (F6) in the Alpha-Site.

All present enzymatic activity of Tryptophan Synthase From Salmonella Typhimurium in Complex with A Single Molecule of 2-({[4-(Trifluoromethoxy)Phenyl]Carbonyl}Amino) Ethyl Dihydrogen Phosphate (F6) in the Alpha-Site.:
4.2.1.20;

Protein crystallography data

The structure of Tryptophan Synthase From Salmonella Typhimurium in Complex with A Single Molecule of 2-({[4-(Trifluoromethoxy)Phenyl]Carbonyl}Amino) Ethyl Dihydrogen Phosphate (F6) in the Alpha-Site., PDB code: 5bw6 was solved by E.Hilario, B.G.Caulkins, R.P.Young, D.Niks, M.F.Dunn, L.J.Mueller, L.Fan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	19.83 / 1.82
*Space group*	C 1 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	183.030, 58.900, 67.230, 90.00, 94.91, 90.00
*R / R_free (%)*	16.8 / 21.4

Other elements in 5bw6:

Fluorine

(F)

3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Tryptophan Synthase From Salmonella Typhimurium in Complex with A Single Molecule of 2-({[4-(Trifluoromethoxy)Phenyl]Carbonyl}Amino) Ethyl Dihydrogen Phosphate (F6) in the Alpha-Site. (pdb code 5bw6). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Tryptophan Synthase From Salmonella Typhimurium in Complex with A Single Molecule of 2-({[4-(Trifluoromethoxy)Phenyl]Carbonyl}Amino) Ethyl Dihydrogen Phosphate (F6) in the Alpha-Site., PDB code: 5bw6:

Sodium binding site 1 out of 1 in 5bw6

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Sodium Binding Sites List in 5bw6

Sodium binding site 1 out of 1 in the Tryptophan Synthase From Salmonella Typhimurium in Complex with A Single Molecule of 2-({[4-(Trifluoromethoxy)Phenyl]Carbonyl}Amino) Ethyl Dihydrogen Phosphate (F6) in the Alpha-Site.

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Tryptophan Synthase From Salmonella Typhimurium in Complex with A Single Molecule of 2-({[4-(Trifluoromethoxy)Phenyl]Carbonyl}Amino) Ethyl Dihydrogen Phosphate (F6) in the Alpha-Site. within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Na402 b:12.6 occ:1.00	O	B:GLY232	2.2	17.4	1.0
	O	B:SER308	2.2	18.7	1.0
	O	B:HOH572	2.2	20.1	1.0
	O	B:HOH729	2.3	14.2	1.0
	O	B:PHE306	2.3	23.6	1.0
	C	B:GLY232	3.4	15.5	1.0
	C	B:PHE306	3.5	23.3	1.0
	C	B:SER308	3.5	17.7	1.0
	CG	B:PRO270	3.8	14.2	1.0
	CD	B:PRO270	3.9	14.4	1.0
	N	B:SER308	4.0	19.5	1.0
	CA	B:GLY232	4.1	15.2	1.0
	O	B:GLY268	4.1	15.4	1.0
	CB	B:PHE306	4.2	23.9	1.0
	CA	B:PHE306	4.2	24.2	1.0
	CA	B:SER308	4.3	18.4	1.0
	CD2	B:PHE306	4.4	23.7	1.0
	OG	B:SER297	4.4	23.9	1.0
	O	B:VAL231	4.5	14.4	1.0
	N	B:VAL309	4.5	16.6	1.0
	O	B:LEU304	4.5	22.3	1.0
	N	B:GLY233	4.5	15.2	1.0
	N	B:PRO307	4.5	23.4	1.0
	C	B:PRO307	4.5	21.2	1.0
	N	B:PHE306	4.5	25.1	1.0
	CA	B:VAL309	4.6	15.6	1.0
	CA	B:PRO307	4.7	22.5	1.0
	CB	B:VAL309	4.7	15.4	1.0
	CG	B:PHE306	4.8	24.0	1.0
	CA	B:GLY233	4.8	14.6	1.0
	OE2	B:GLU256	4.9	13.1	1.0
	N	B:GLY232	4.9	14.5	1.0

Reference:

E.Hilario, B.G.Caulkins, Y.M.Huang, W.You, C.E.Chang, L.J.Mueller, M.F.Dunn, L.Fan. Visualizing the Tunnel in Tryptophan Synthase with Crystallography: Insights Into A Selective Filter For Accommodating Indole and Rejecting Water. Biochim.Biophys.Acta V.1864 268 2016.
ISSN: ISSN 0006-3002
PubMed: 26708480
DOI: 10.1016/J.BBAPAP.2015.12.006

Page generated: Mon Oct 7 20:10:44 2024

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