Sodium in PDB 4hhd: 2.75 Angstrom Resolution Crystal Structure of the A. Thaliana LOV2 Domain with An Extended N-Terminal A' Helix (Cryo Dark Structure)

Enzymatic activity of 2.75 Angstrom Resolution Crystal Structure of the A. Thaliana LOV2 Domain with An Extended N-Terminal A' Helix (Cryo Dark Structure)

All present enzymatic activity of 2.75 Angstrom Resolution Crystal Structure of the A. Thaliana LOV2 Domain with An Extended N-Terminal A' Helix (Cryo Dark Structure):
2.7.11.1;

Protein crystallography data

The structure of 2.75 Angstrom Resolution Crystal Structure of the A. Thaliana LOV2 Domain with An Extended N-Terminal A' Helix (Cryo Dark Structure), PDB code: 4hhd was solved by A.S.Halavaty, K.Moffat, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	29.72 / 2.75
*Space group*	P 4₁ 2₁ 2
*Cell size a, b, c (Å), α, β, γ (°)*	63.382, 63.382, 171.318, 90.00, 90.00, 90.00
*R / R_free (%)*	23.1 / 28.9

Sodium Binding Sites:

The binding sites of Sodium atom in the 2.75 Angstrom Resolution Crystal Structure of the A. Thaliana LOV2 Domain with An Extended N-Terminal A' Helix (Cryo Dark Structure) (pdb code 4hhd). 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 2.75 Angstrom Resolution Crystal Structure of the A. Thaliana LOV2 Domain with An Extended N-Terminal A' Helix (Cryo Dark Structure), PDB code: 4hhd:

Sodium binding site 1 out of 1 in 4hhd

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Sodium Binding Sites List in 4hhd

Sodium binding site 1 out of 1 in the 2.75 Angstrom Resolution Crystal Structure of the A. Thaliana LOV2 Domain with An Extended N-Terminal A' Helix (Cryo Dark Structure)

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 2.75 Angstrom Resolution Crystal Structure of the A. Thaliana LOV2 Domain with An Extended N-Terminal A' Helix (Cryo Dark Structure) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na702 b:46.7 occ:1.00	OD2	B:ASP494	2.6	51.2	1.0
	OE2	A:GLU471	2.6	53.1	1.0
	O	B:HOH811	2.8	45.5	1.0
	OD1	B:ASP494	3.1	47.0	1.0
	OD2	A:ASP494	3.1	39.5	1.0
	CG	B:ASP494	3.2	49.5	1.0
	OD1	A:ASP494	3.2	38.4	1.0
	CG	A:ASP494	3.5	39.0	1.0
	CD	A:GLU471	3.6	51.5	1.0
	CG	B:GLU471	3.7	52.2	1.0
	NH2	B:ARG504	3.7	51.5	1.0
	CD	B:GLU471	3.8	54.3	1.0
	CG	A:GLU471	3.8	47.5	1.0
	OE2	B:GLU471	3.9	55.0	1.0
	CB	B:GLU471	4.0	52.5	1.0
	NH2	A:ARG504	4.3	40.8	1.0
	OE1	B:GLU471	4.4	55.7	1.0
	CB	B:ASP494	4.5	49.7	1.0
	CA	B:GLU471	4.6	52.0	1.0
	NH1	A:ARG504	4.7	42.7	1.0
	OE1	A:GLU471	4.7	51.5	1.0
	CZ	A:ARG504	4.8	40.7	1.0
	CB	A:GLU471	4.8	43.2	1.0
	CZ	B:ARG504	4.9	49.7	1.0
	N	B:ASP494	4.9	47.6	1.0

Reference:

A.S.Halavaty, K.Moffat. Coiled-Coil Dimerization of the LOV2 Domain of the Blue-Light Photoreceptor Phototropin 1 From Arabidopsis Thaliana. Acta Crystallogr.,Sect.F V. 69 1316 2013.
ISSN: ESSN 1744-3091
PubMed: 24316821
DOI: 10.1107/S1744309113029199

Page generated: Mon Oct 7 15:48:40 2024

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