Sodium in PDB 1m0n: Structure of Dialkylglycine Decarboxylase Complexed with 1- Aminocyclopentanephosphonate

Enzymatic activity of Structure of Dialkylglycine Decarboxylase Complexed with 1- Aminocyclopentanephosphonate

All present enzymatic activity of Structure of Dialkylglycine Decarboxylase Complexed with 1- Aminocyclopentanephosphonate:
4.1.1.64;

Protein crystallography data

The structure of Structure of Dialkylglycine Decarboxylase Complexed with 1- Aminocyclopentanephosphonate, PDB code: 1m0n was solved by W.Liu, C.J.Rogers, A.J.Fisher, M.D.Toney, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	20.00 / 2.20
*Space group*	P 6₄ 2 2
*Cell size a, b, c (Å), α, β, γ (°)*	151.290, 151.290, 84.790, 90.00, 90.00, 120.00
*R / R_free (%)*	n/a / n/a

Other elements in 1m0n:

The structure of Structure of Dialkylglycine Decarboxylase Complexed with 1- Aminocyclopentanephosphonate also contains other interesting chemical elements:

Potassium

(K)

1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Dialkylglycine Decarboxylase Complexed with 1- Aminocyclopentanephosphonate (pdb code 1m0n). 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 Dialkylglycine Decarboxylase Complexed with 1- Aminocyclopentanephosphonate, PDB code: 1m0n:

Sodium binding site 1 out of 1 in 1m0n

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Sodium Binding Sites List in 1m0n

Sodium binding site 1 out of 1 in the Structure of Dialkylglycine Decarboxylase Complexed with 1- Aminocyclopentanephosphonate

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Dialkylglycine Decarboxylase Complexed with 1- Aminocyclopentanephosphonate within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na436 b:20.9 occ:1.00	O	A:PRO99	2.0	32.8	1.0
	O	A:ALA95	2.2	30.4	1.0
	O	A:THR98	2.3	41.6	1.0
	O	A:LEU102	2.6	31.6	1.0
	OG1	A:THR98	2.9	40.3	1.0
	C	A:PRO99	3.0	45.5	1.0
	O	A:HOH636	3.1	53.3	1.0
	C	A:THR98	3.2	37.1	1.0
	C	A:ALA95	3.4	34.2	1.0
	C	A:LEU102	3.7	30.4	1.0
	CB	A:THR98	3.9	41.8	1.0
	N	A:PRO100	3.9	51.3	1.0
	N	A:PRO99	3.9	38.6	1.0
	CA	A:PRO99	4.0	42.9	1.0
	CA	A:THR98	4.0	28.8	1.0
	N	A:LEU102	4.0	32.9	1.0
	CB	A:LEU102	4.0	35.4	1.0
	CA	A:ALA95	4.1	30.0	1.0
	CA	A:LEU102	4.1	31.5	1.0
	N	A:THR98	4.1	28.5	1.0
	CA	A:PRO100	4.2	48.3	1.0
	O	A:HOH583	4.4	54.3	1.0
	N	A:ASN96	4.5	28.5	1.0
	O	A:LEU94	4.5	31.8	1.0
	N	A:GLY101	4.6	38.4	1.0
	C	A:PRO100	4.8	37.7	1.0
	CD	A:PRO100	4.8	54.8	1.0
	C	A:ASN96	4.8	39.8	1.0
	CA	A:ASN96	4.8	31.0	1.0
	O	A:HOH512	4.9	55.7	1.0
	N	A:ASP103	4.9	30.6	1.0
	CB	A:ALA95	4.9	27.9	1.0
	OD1	A:ASP103	5.0	29.9	1.0
	O	A:ASN96	5.0	38.4	1.0

Reference:

W.Liu, C.J.Rogers, A.J.Fisher, M.D.Toney. Aminophosphonate Inhibitors of Dialkylglycine Decarboxylase: Structural Basis For Slow Binding Inhibition Biochemistry V. 41 12320 2002.
ISSN: ISSN 0006-2960
PubMed: 12369820
DOI: 10.1021/BI026318G

Page generated: Sun Oct 6 20:19:02 2024

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