Sodium in PDB 4njk: Crystal Structure of Quee From Burkholderia Multivorans in Complex with Adomet, 7-Carboxy-7-Deazaguanine, and MG2+

Enzymatic activity of Crystal Structure of Quee From Burkholderia Multivorans in Complex with Adomet, 7-Carboxy-7-Deazaguanine, and MG2+

All present enzymatic activity of Crystal Structure of Quee From Burkholderia Multivorans in Complex with Adomet, 7-Carboxy-7-Deazaguanine, and MG2+:
4.3.99.3;

Protein crystallography data

The structure of Crystal Structure of Quee From Burkholderia Multivorans in Complex with Adomet, 7-Carboxy-7-Deazaguanine, and MG2+, PDB code: 4njk was solved by D.P.Dowling, N.A.Bruender, A.P.Young, R.M.Mccarty, V.Bandarian, C.L.Drennan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	47.18 / 1.91
*Space group*	P 4₃ 2₁ 2
*Cell size a, b, c (Å), α, β, γ (°)*	118.790, 118.790, 102.664, 90.00, 90.00, 90.00
*R / R_free (%)*	15.3 / 18.3

Other elements in 4njk:

The structure of Crystal Structure of Quee From Burkholderia Multivorans in Complex with Adomet, 7-Carboxy-7-Deazaguanine, and MG2+ also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Iron	(Fe)	8 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Quee From Burkholderia Multivorans in Complex with Adomet, 7-Carboxy-7-Deazaguanine, and MG2+ (pdb code 4njk). 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 Crystal Structure of Quee From Burkholderia Multivorans in Complex with Adomet, 7-Carboxy-7-Deazaguanine, and MG2+, PDB code: 4njk:

Sodium binding site 1 out of 1 in 4njk

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Sodium Binding Sites List in 4njk

Sodium binding site 1 out of 1 in the Crystal Structure of Quee From Burkholderia Multivorans in Complex with Adomet, 7-Carboxy-7-Deazaguanine, and MG2+

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 Quee From Burkholderia Multivorans in Complex with Adomet, 7-Carboxy-7-Deazaguanine, and MG2+ within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Na306 b:30.3 occ:1.00	O	B:HOH545	2.3	37.9	1.0
	O	B:GLN154	2.6	30.0	1.0
	O	B:HOH444	2.7	35.9	1.0
	O	B:HOH443	3.2	37.8	1.0
	C	B:GLN154	3.7	30.7	1.0
	CB	B:GLN157	4.2	30.0	1.0
	CA	B:ASP155	4.2	27.5	1.0
	N	B:GLN154	4.3	24.9	1.0
	N	B:ASP155	4.3	27.9	1.0
	OE1	B:GLN157	4.4	31.8	1.0
	N	B:GLN157	4.6	26.8	1.0
	O	B:HOH494	4.6	37.0	1.0
	C	B:ASP155	4.6	29.6	1.0
	CB	B:PRO153	4.6	30.2	1.0
	CA	B:GLN154	4.7	28.2	1.0
	N	B:ASN156	4.7	28.7	1.0
	O	B:HOH411	4.7	30.3	1.0
	O	B:GLN157	4.8	29.6	1.0
	CA	B:GLN157	4.9	27.9	1.0

Reference:

D.P.Dowling, N.A.Bruender, A.P.Young, R.M.Mccarty, V.Bandarian, C.L.Drennan. Radical Sam Enzyme Quee Defines A New Minimal Core Fold and Metal-Dependent Mechanism. Nat.Chem.Biol. V. 10 106 2014.
ISSN: ISSN 1552-4450
PubMed: 24362703
DOI: 10.1038/NCHEMBIO.1426

Page generated: Sun Aug 17 20:48:51 2025

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