Sodium in PDB 5mk6: Crystal Structure of the Receptor-Binding Domain of Botulinum Neurotoxin A1 (Crystal Form 1)

Enzymatic activity of Crystal Structure of the Receptor-Binding Domain of Botulinum Neurotoxin A1 (Crystal Form 1)

All present enzymatic activity of Crystal Structure of the Receptor-Binding Domain of Botulinum Neurotoxin A1 (Crystal Form 1):
3.4.24.69;

Protein crystallography data

The structure of Crystal Structure of the Receptor-Binding Domain of Botulinum Neurotoxin A1 (Crystal Form 1), PDB code: 5mk6 was solved by J.R.Davies, K.R.Acharya, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	24.05 / 1.45
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	39.770, 107.320, 107.600, 90.00, 90.00, 90.00
*R / R_free (%)*	17.7 / 22.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Receptor-Binding Domain of Botulinum Neurotoxin A1 (Crystal Form 1) (pdb code 5mk6). 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 the Receptor-Binding Domain of Botulinum Neurotoxin A1 (Crystal Form 1), PDB code: 5mk6:

Sodium binding site 1 out of 1 in 5mk6

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Sodium Binding Sites List in 5mk6

Sodium binding site 1 out of 1 in the Crystal Structure of the Receptor-Binding Domain of Botulinum Neurotoxin A1 (Crystal Form 1)

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 Receptor-Binding Domain of Botulinum Neurotoxin A1 (Crystal Form 1) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na1301 b:20.1 occ:1.00	O	A:HOH1764	3.1	42.4	1.0
	ND2	A:ASN1183	3.2	13.0	1.0
	NH2	A:ARG1192	3.3	19.1	1.0
	CD1	A:ILE1211	3.8	14.8	1.0
	CE	A:LYS1163	3.9	17.8	1.0
	O	A:HOH1735	4.1	48.0	1.0
	CG	A:ASN1183	4.1	13.1	1.0
	OD1	A:ASN1183	4.1	15.1	1.0
	CG	A:LYS1163	4.4	14.6	1.0
	CD	A:LYS1163	4.5	14.9	1.0
	NZ	A:LYS1163	4.6	20.6	1.0
	CZ	A:ARG1192	4.6	16.5	1.0
	OE1	A:GLU1190	4.8	23.8	1.0
	CG2	A:ILE1211	4.9	15.0	1.0

Reference:

J.R.Davies, G.S.Hackett, S.M.Liu, K.R.Acharya. High Resolution Crystal Structures of the Receptor-Binding Domain Ofclostridium Botulinumneurotoxin Serotypes A and Fa. Peerj V. 6 E4552 2018.
ISSN: ESSN 2167-8359
PubMed: 29576992
DOI: 10.7717/PEERJ.4552

Page generated: Mon Oct 7 22:42:16 2024

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