Sodium in PDB 3ifz: Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution

Enzymatic activity of Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution

All present enzymatic activity of Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution:
5.99.1.3;

Protein crystallography data

The structure of Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution, PDB code: 3ifz was solved by J.Piton, A.Aubry, M.Delarue, C.Mayer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	19.90 / 2.70
*Space group*	C 1 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	163.915, 109.660, 101.996, 90.00, 120.40, 90.00
*R / R_free (%)*	19.2 / 23.3

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution (pdb code 3ifz). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution, PDB code: 3ifz:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3ifz

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Sodium Binding Sites List in 3ifz

Sodium binding site 1 out of 2 in the Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na510 b:54.9 occ:1.00	NE2	A:GLN431	3.5	71.0	1.0
	NZ	A:LYS396	3.7	0.9	1.0
	CE	A:LYS396	4.2	93.0	1.0
	OE1	A:GLN431	4.3	81.9	1.0
	CD	A:GLN431	4.3	82.7	1.0
	CB	A:ARG392	4.4	46.4	1.0
	CD	A:ARG392	4.6	53.2	1.0
	CD2	A:HIS389	4.9	58.0	1.0

Sodium binding site 2 out of 2 in 3ifz

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Sodium Binding Sites List in 3ifz

Sodium binding site 2 out of 2 in the Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of the First Part of the Mycobacterium Tuberculosis Dna Gyrase Reaction Core: the Breakage and Reunion Domain at 2.7 A Resolution within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Na510 b:77.5 occ:1.00	NE2	B:GLN431	3.3	71.2	1.0
	NZ	B:LYS396	3.3	94.8	1.0
	OE1	B:GLN431	3.9	75.1	1.0
	CE	B:LYS396	4.0	83.5	1.0
	CD	B:GLN431	4.1	79.1	1.0
	O	B:ASP426	4.6	63.1	1.0
	CB	B:ARG392	4.7	53.5	1.0
	CG2	B:ILE427	4.7	61.3	1.0
	CD	B:LYS396	4.9	72.0	1.0
	CD2	B:HIS389	5.0	62.1	1.0

Reference:

J.Piton, S.Petrella, M.Delarue, G.Andre-Leroux, V.Jarlier, A.Aubry, C.Mayer. Structural Insights Into the Quinolone Resistance Mechanism of Mycobacterium Tuberculosis Dna Gyrase. Plos One V. 5 12245 2010.
ISSN: ESSN 1932-6203
PubMed: 20805881
DOI: 10.1371/JOURNAL.PONE.0012245

Page generated: Mon Oct 7 10:56:58 2024

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