Sodium in PDB 2rkd: The Structure of Rat Cytosolic Pepck in Complex with 3- Phosphonopropionate

Enzymatic activity of The Structure of Rat Cytosolic Pepck in Complex with 3- Phosphonopropionate

All present enzymatic activity of The Structure of Rat Cytosolic Pepck in Complex with 3- Phosphonopropionate:
4.1.1.32;

Protein crystallography data

The structure of The Structure of Rat Cytosolic Pepck in Complex with 3- Phosphonopropionate, PDB code: 2rkd was solved by S.M.Sullivan, R.M.Stiffin, G.M.Carlson, T.Holyoak, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	33.98 / 1.90
*Space group*	P 1 2₁ 1
*Cell size a, b, c (Å), α, β, γ (°)*	45.294, 119.397, 60.762, 90.00, 108.66, 90.00
*R / R_free (%)*	18.7 / 23.3

Other elements in 2rkd:

The structure of The Structure of Rat Cytosolic Pepck in Complex with 3- Phosphonopropionate also contains other interesting chemical elements:

Manganese

(Mn)

2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the The Structure of Rat Cytosolic Pepck in Complex with 3- Phosphonopropionate (pdb code 2rkd). 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 The Structure of Rat Cytosolic Pepck in Complex with 3- Phosphonopropionate, PDB code: 2rkd:

Sodium binding site 1 out of 1 in 2rkd

Go back to

Sodium Binding Sites List in 2rkd

Sodium binding site 1 out of 1 in the The Structure of Rat Cytosolic Pepck in Complex with 3- Phosphonopropionate

Mono view

Stereo pair view

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

probe	atom	residue	distance (Å)	B	Occ
A:Na702 b:23.0 occ:1.00	O	A:HOH944	2.2	18.9	1.0
	O	A:ASN208	2.3	11.0	1.0
	O	A:HOH737	2.3	18.4	1.0
	O	A:LEU79	2.4	18.8	1.0
	C	A:ASN208	3.4	11.2	1.0
	C	A:LEU79	3.5	18.5	1.0
	O	A:HOH1169	3.8	32.6	1.0
	N	A:LEU79	3.8	17.9	1.0
	O	A:VAL65	3.8	19.4	1.0
	CA	A:LEU79	4.0	18.2	1.0
	CB	A:ASN208	4.1	11.4	1.0
	O	A:GLY64	4.2	20.2	1.0
	CB	A:LEU79	4.2	17.9	1.0
	CB	A:ASN209	4.2	10.6	1.0
	CA	A:ASN208	4.3	11.5	1.0
	C	A:ASN209	4.3	10.1	1.0
	O	A:ASN209	4.3	10.0	1.0
	N	A:ASN209	4.4	11.0	1.0
	CA	A:ASN209	4.5	10.3	1.0
	C	A:VAL65	4.6	19.3	1.0
	N	A:THR80	4.6	18.6	1.0
	CB	A:TRP210	4.8	8.5	1.0
	N	A:TRP210	4.8	9.2	1.0
	CA	A:VAL65	4.9	19.4	1.0
	C	A:ALA78	4.9	18.0	1.0
	CA	A:THR80	5.0	18.7	1.0

Reference:

R.M.Stiffin, S.M.Sullivan, G.M.Carlson, T.Holyoak. Differential Inhibition of Cytosolic Pepck By Substrate Analogues. Kinetic and Structural Characterization of Inhibitor Recognition. Biochemistry V. 47 2099 2008.
ISSN: ISSN 0006-2960
PubMed: 18197707
DOI: 10.1021/BI7020662

Page generated: Mon Oct 7 04:23:29 2024

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