Sodium in PDB 1w5q: Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R)

Enzymatic activity of Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R)

All present enzymatic activity of Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R):
4.2.1.24;

Protein crystallography data

The structure of Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R), PDB code: 1w5q was solved by F.Frere, H.Reents, W.-D.Schubert, D.W.Heinz, D.Jahn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	87.71 / 1.40
*Space group*	P 4 2₁ 2
*Cell size a, b, c (Å), α, β, γ (°)*	125.667, 125.667, 85.523, 90.00, 90.00, 90.00
*R / R_free (%)*	14.7 / 17.3

Other elements in 1w5q:

The structure of Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R) also contains other interesting chemical elements:

Magnesium	(Mg)	5 atoms
Zinc	(Zn)	2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R) (pdb code 1w5q). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R), PDB code: 1w5q:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 1w5q

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Sodium Binding Sites List in 1w5q

Sodium binding site 1 out of 2 in the Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R)

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na1342 b:18.3 occ:1.00	O	A:HOH2047	1.5	17.9	0.5
	O	A:HOH2046	1.8	16.1	0.5
	O	A:HOH2044	2.3	15.9	0.5
	O	A:HOH2049	2.6	17.0	0.5
	O	A:LEU27	3.2	16.5	1.0
	O	A:ARG29	4.1	15.7	1.0
	O	A:ARG26	4.2	14.2	1.0
	C	A:LEU27	4.2	14.4	1.0
	CA	A:LEU27	4.7	12.2	1.0
	O	A:HOH2050	4.7	23.6	0.5

Sodium binding site 2 out of 2 in 1w5q

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Sodium Binding Sites List in 1w5q

Sodium binding site 2 out of 2 in the Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R)

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Stepwise Introduction of Zinc Binding Site Into Porphobilinogen Synthase of Pseudomonas Aeruginosa (Mutations A129C, D131C, D139C, P132E, K229R) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Na1342 b:18.0 occ:1.00	O	B:HOH2049	1.8	7.6	0.2
	O	B:HOH2048	2.4	14.3	0.5
	O	B:HOH2051	2.5	18.4	0.8
	O	B:LEU27	3.4	17.6	1.0
	O	B:ARG29	4.1	14.2	1.0
	O	B:ARG26	4.2	13.4	1.0
	C	B:LEU27	4.2	14.4	1.0
	CA	B:LEU27	4.7	13.2	1.0

Reference:

F.Frere, H.Reents, W.-D.Schubert, D.W.Heinz, D.Jahn. Tracking the Evolution of Porphobilinogen Synthase Metal Dependence in Vitro J.Mol.Biol. V. 345 1059 2005.
ISSN: ISSN 0022-2836
PubMed: 15644204
DOI: 10.1016/J.JMB.2004.10.053

Page generated: Mon Oct 7 00:24:20 2024

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