Sodium in PDB 4ywd: Structure of Rat Cytosolic Pepck in Complex with 2,3-Pyridine Dicarboxylic Acid

Enzymatic activity of Structure of Rat Cytosolic Pepck in Complex with 2,3-Pyridine Dicarboxylic Acid

All present enzymatic activity of Structure of Rat Cytosolic Pepck in Complex with 2,3-Pyridine Dicarboxylic Acid:
4.1.1.32;

Protein crystallography data

The structure of Structure of Rat Cytosolic Pepck in Complex with 2,3-Pyridine Dicarboxylic Acid, PDB code: 4ywd was solved by M.D.Balan, T.A.Johnson, M.J.Mcleod, W.R.Lotosky, T.Holyoak, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	57.63 / 2.10
*Space group*	P 1 2₁ 1
*Cell size a, b, c (Å), α, β, γ (°)*	45.340, 119.405, 61.015, 90.00, 109.16, 90.00
*R / R_free (%)*	19.5 / 23.7

Other elements in 4ywd:

The structure of Structure of Rat Cytosolic Pepck in Complex with 2,3-Pyridine Dicarboxylic Acid also contains other interesting chemical elements:

Manganese

(Mn)

2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Rat Cytosolic Pepck in Complex with 2,3-Pyridine Dicarboxylic Acid (pdb code 4ywd). 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 Structure of Rat Cytosolic Pepck in Complex with 2,3-Pyridine Dicarboxylic Acid, PDB code: 4ywd:

Sodium binding site 1 out of 1 in 4ywd

Go back to

Sodium Binding Sites List in 4ywd

Sodium binding site 1 out of 1 in the Structure of Rat Cytosolic Pepck in Complex with 2,3-Pyridine Dicarboxylic Acid

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Rat Cytosolic Pepck in Complex with 2,3-Pyridine Dicarboxylic Acid within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na703 b:48.9 occ:1.00	O	A:HOH944	2.0	47.3	1.0
	O	A:ASN208	2.2	48.8	1.0
	O	A:HOH847	2.4	49.9	1.0
	O	A:LEU79	2.4	46.5	1.0
	C	A:ASN208	3.4	50.7	1.0
	C	A:LEU79	3.5	46.4	1.0
	O	A:VAL65	3.8	53.6	1.0
	N	A:LEU79	3.9	47.5	1.0
	CA	A:LEU79	4.1	47.7	1.0
	CB	A:ASN208	4.1	52.9	1.0
	O	A:GLY64	4.2	57.1	1.0
	CB	A:LEU79	4.2	49.8	1.0
	CB	A:ASN209	4.2	49.0	1.0
	CA	A:ASN208	4.3	52.7	1.0
	N	A:ASN209	4.3	50.5	1.0
	C	A:ASN209	4.3	47.0	1.0
	O	A:ASN209	4.4	44.5	1.0
	CA	A:ASN209	4.5	48.5	1.0
	C	A:VAL65	4.6	52.7	1.0
	N	A:THR80	4.7	46.0	1.0
	N	A:TRP210	4.7	47.0	1.0
	CB	A:TRP210	4.8	45.4	1.0
	CA	A:VAL65	4.9	52.6	1.0
	CA	A:THR80	5.0	45.6	1.0

Reference:

M.D.Balan, M.J.Mcleod, W.R.Lotosky, M.Ghaly, T.Holyoak. Inhibition and Allosteric Regulation of Monomeric Phosphoenolpyruvate Carboxykinase By 3-Mercaptopicolinic Acid. Biochemistry V. 54 5878 2015.
ISSN: ISSN 0006-2960
PubMed: 26322521
DOI: 10.1021/ACS.BIOCHEM.5B00822

Page generated: Mon Oct 7 19:35:21 2024

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