Sodium in PDB 5ocv: A Rare Lysozyme Crystal Form Solved Using High-Redundancy 3D Electron Diffraction Data From Micron-Sized Needle Shaped Crystals

Enzymatic activity of A Rare Lysozyme Crystal Form Solved Using High-Redundancy 3D Electron Diffraction Data From Micron-Sized Needle Shaped Crystals

All present enzymatic activity of A Rare Lysozyme Crystal Form Solved Using High-Redundancy 3D Electron Diffraction Data From Micron-Sized Needle Shaped Crystals:
3.2.1.17;

Sodium Binding Sites:

The binding sites of Sodium atom in the A Rare Lysozyme Crystal Form Solved Using High-Redundancy 3D Electron Diffraction Data From Micron-Sized Needle Shaped Crystals (pdb code 5ocv). 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 A Rare Lysozyme Crystal Form Solved Using High-Redundancy 3D Electron Diffraction Data From Micron-Sized Needle Shaped Crystals, PDB code: 5ocv:

Sodium binding site 1 out of 1 in 5ocv

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Sodium Binding Sites List in 5ocv

Sodium binding site 1 out of 1 in the A Rare Lysozyme Crystal Form Solved Using High-Redundancy 3D Electron Diffraction Data From Micron-Sized Needle Shaped Crystals

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of A Rare Lysozyme Crystal Form Solved Using High-Redundancy 3D Electron Diffraction Data From Micron-Sized Needle Shaped Crystals within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Na201 b:9.2 occ:1.00	O	B:CYS64	2.5	33.5	1.0
	OG	B:SER72	2.5	20.4	1.0
	O	B:SER60	2.6	25.6	1.0
	O	B:HOH305	2.6	25.9	1.0
	O	B:HOH308	2.6	13.0	1.0
	O	B:ARG73	2.9	27.7	1.0
	CB	B:SER72	3.0	22.9	1.0
	C	B:CYS64	3.5	31.0	1.0
	CA	B:ASN65	3.6	35.3	1.0
	C	B:SER60	3.8	26.3	1.0
	C	B:ARG73	3.9	27.6	1.0
	N	B:ASN65	3.9	33.5	1.0
	C	B:SER72	4.0	27.7	1.0
	N	B:ARG73	4.1	25.3	1.0
	CA	B:SER72	4.2	23.8	1.0
	CB	B:ASN65	4.2	34.7	1.0
	O	B:ARG61	4.4	33.5	1.0
	OD1	B:ASN65	4.5	35.4	1.0
	O	B:SER72	4.5	27.8	1.0
	N	B:ASP66	4.6	39.5	1.0
	C	B:ARG61	4.6	32.2	1.0
	CA	B:ARG73	4.6	27.6	1.0
	CA	B:SER60	4.6	23.1	1.0
	C	B:ASN65	4.6	35.7	1.0
	N	B:ASN74	4.7	30.6	1.0
	CA	B:CYS64	4.7	29.7	1.0
	CB	B:THR69	4.7	24.8	1.0
	N	B:CYS64	4.7	29.7	1.0
	O	B:HOH303	4.8	10.4	1.0
	N	B:ARG61	4.8	28.8	1.0
	CB	B:SER60	4.8	23.1	1.0
	CA	B:ASN74	4.8	30.4	1.0
	CG	B:ASN65	4.8	34.4	1.0
	CA	B:ARG61	4.8	34.2	1.0
	CB	B:ASN74	4.9	28.9	1.0
	OD1	B:ASP66	4.9	51.8	1.0

Reference:

H.Xu, H.Lebrette, T.Yang, V.Srinivas, S.Hovmoller, M.Hogbom, X.Zou. A Rare Lysozyme Crystal Form Solved Using Highly Redundant Multiple Electron Diffraction Datasets From Micron-Sized Crystals. Structure V. 26 667 2018.
ISSN: ISSN 1878-4186
PubMed: 29551291
DOI: 10.1016/J.STR.2018.02.015

Page generated: Mon Oct 7 23:10:30 2024

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