Sodium in PDB 4xtj: N-Terminal 43 kDa Fragment of the E. Coli Dna Gyrase B Subunit Grown From 100 Mm Kcl Plus 100 Mm Nacl Condition

Enzymatic activity of N-Terminal 43 kDa Fragment of the E. Coli Dna Gyrase B Subunit Grown From 100 Mm Kcl Plus 100 Mm Nacl Condition

All present enzymatic activity of N-Terminal 43 kDa Fragment of the E. Coli Dna Gyrase B Subunit Grown From 100 Mm Kcl Plus 100 Mm Nacl Condition:
5.99.1.3;

Protein crystallography data

The structure of N-Terminal 43 kDa Fragment of the E. Coli Dna Gyrase B Subunit Grown From 100 Mm Kcl Plus 100 Mm Nacl Condition, PDB code: 4xtj was solved by S.J.Hearnshaw, T.T.Chung, C.E.M.Stevenson, A.Maxwell, D.M.Lawson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	35.23 / 1.92
*Space group*	C 2 2 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	87.520, 140.910, 79.840, 90.00, 90.00, 90.00
*R / R_free (%)*	18.4 / 21.8

Other elements in 4xtj:

The structure of N-Terminal 43 kDa Fragment of the E. Coli Dna Gyrase B Subunit Grown From 100 Mm Kcl Plus 100 Mm Nacl Condition also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Potassium	(K)	1 atom
Chlorine	(Cl)	1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the N-Terminal 43 kDa Fragment of the E. Coli Dna Gyrase B Subunit Grown From 100 Mm Kcl Plus 100 Mm Nacl Condition (pdb code 4xtj). 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 N-Terminal 43 kDa Fragment of the E. Coli Dna Gyrase B Subunit Grown From 100 Mm Kcl Plus 100 Mm Nacl Condition, PDB code: 4xtj:

Sodium binding site 1 out of 1 in 4xtj

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Sodium Binding Sites List in 4xtj

Sodium binding site 1 out of 1 in the N-Terminal 43 kDa Fragment of the E. Coli Dna Gyrase B Subunit Grown From 100 Mm Kcl Plus 100 Mm Nacl Condition

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of N-Terminal 43 kDa Fragment of the E. Coli Dna Gyrase B Subunit Grown From 100 Mm Kcl Plus 100 Mm Nacl Condition within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na404 b:33.6 occ:1.00	O	A:HOH552	2.4	32.2	1.0
	O	A:HOH598	2.4	31.6	1.0
	O	A:HOH606	2.4	32.1	1.0
	O	A:HOH538	2.4	43.3	1.0
	O	A:LYS103	2.6	31.7	1.0
	O	A:ASP105	2.8	35.5	1.0
	C	A:LYS103	3.4	30.5	1.0
	C	A:ASP105	3.6	37.5	1.0
	O	A:PRO328	4.0	34.0	1.0
	N	A:ASP105	4.0	34.5	1.0
	CA	A:LYS103	4.1	30.5	1.0
	OD1	A:ASP329	4.3	35.7	1.0
	O	A:HOH592	4.3	28.9	1.0
	O	A:HOH653	4.3	39.8	1.0
	O	A:HOH530	4.3	36.3	1.0
	N	A:PHE104	4.3	31.2	1.0
	C	A:PHE104	4.3	33.5	1.0
	CA	A:ASP105	4.3	37.5	1.0
	O	A:TYR109	4.3	35.2	1.0
	N	A:ASP106	4.4	39.4	1.0
	CB	A:LYS103	4.4	28.5	1.0
	OG	A:SER112	4.5	30.0	1.0
	CA	A:ASP106	4.5	40.3	1.0
	CA	A:PHE104	4.5	31.1	1.0
	O	A:HOH581	4.7	27.5	1.0
	CB	A:ASP106	4.9	41.7	1.0
	O	A:PHE104	4.9	34.3	1.0

Reference:

S.J.Hearnshaw, T.T.Chung, C.E.M.Stevenson, A.Maxwell, D.M.Lawson. The Role of Monovalent Cations in the Atpase Reaction of Dna Gyrase Acta Crystallogr.,Sect.D V. 71 996 2015.
ISSN: ESSN 1399-0047
DOI: 10.1107/S1399004715002916

Page generated: Mon Oct 7 19:24:48 2024

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