Sodium in PDB 6rnc: Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Lysozyme with GLCNAC3 - 100MS Diffusion Time.

Enzymatic activity of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Lysozyme with GLCNAC3 - 100MS Diffusion Time.

All present enzymatic activity of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Lysozyme with GLCNAC3 - 100MS Diffusion Time.:
3.2.1.17;

Protein crystallography data

The structure of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Lysozyme with GLCNAC3 - 100MS Diffusion Time., PDB code: 6rnc was solved by P.Mehrabi, E.C.Schulz, R.J.D.Miller, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	39.35 / 1.80
*Space group*	P 4₃ 2₁ 2
*Cell size a, b, c (Å), α, β, γ (°)*	78.700, 78.700, 37.900, 90.00, 90.00, 90.00
*R / R_free (%)*	16.7 / 19.2

Other elements in 6rnc:

The structure of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Lysozyme with GLCNAC3 - 100MS Diffusion Time. also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Lysozyme with GLCNAC3 - 100MS Diffusion Time. (pdb code 6rnc). 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 Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Lysozyme with GLCNAC3 - 100MS Diffusion Time., PDB code: 6rnc:

Sodium binding site 1 out of 1 in 6rnc

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Sodium Binding Sites List in 6rnc

Sodium binding site 1 out of 1 in the Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Lysozyme with GLCNAC3 - 100MS Diffusion Time.

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Liquid Application Method For Time-Resolved Analyses (Lama) By Serial Synchrotron Crystallography, Lysozyme with GLCNAC3 - 100MS Diffusion Time. within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na206 b:49.9 occ:1.00	OG	A:SER72	2.4	53.8	1.0
	O	A:SER60	2.4	29.3	1.0
	O	A:ARG73	2.5	57.9	1.0
	O	A:CYS64	2.6	26.0	1.0
	CB	A:SER72	2.8	52.3	1.0
	O	A:HOH356	2.9	31.6	1.0
	C	A:ARG73	3.3	48.6	1.0
	C	A:CYS64	3.4	25.5	1.0
	C	A:SER60	3.6	24.5	1.0
	C	A:SER72	3.7	48.4	1.0
	N	A:ARG73	3.8	41.4	1.0
	CA	A:SER72	3.9	48.1	1.0
	CA	A:ASN65	4.0	25.5	1.0
	O	A:ARG61	4.0	30.8	1.0
	N	A:ASN65	4.1	26.2	1.0
	N	A:ASN74	4.1	37.6	1.0
	C	A:ARG61	4.1	43.7	1.0
	O	A:SER72	4.1	36.0	1.0
	N	A:CYS64	4.2	21.3	1.0
	CA	A:ASN74	4.2	32.6	1.0
	CA	A:ARG73	4.2	43.7	1.0
	CA	A:CYS64	4.4	26.5	1.0
	CA	A:SER60	4.4	23.0	1.0
	CA	A:ARG61	4.5	28.6	1.0
	N	A:ARG61	4.5	23.4	1.0
	CB	A:ASN74	4.5	27.8	1.0
	N	A:TRP62	4.6	27.9	1.0
	CB	A:ASN65	4.7	25.7	1.0
	N	A:TRP63	4.7	22.4	1.0
	C	A:TRP62	4.7	27.6	1.0
	OD1	A:ASN65	4.9	41.0	1.0
	CB	A:SER60	4.9	23.8	1.0
	O	A:HOH354	5.0	45.8	1.0
	N	A:SER72	5.0	46.6	1.0

Reference:

P.Mehrabi, E.C.Schulz, M.Agthe, S.Horrell, G.Bourenkov, D.Von Stetten, J.P.Leimkohl, H.Schikora, T.R.Schneider, A.R.Pearson, F.Tellkamp, R.J.D.Miller. Liquid Application Method For Time-Resolved Analyses By Serial Synchrotron Crystallography. Nat.Methods V. 16 979 2019.
ISSN: ESSN 1548-7105
PubMed: 31527838
DOI: 10.1038/S41592-019-0553-1

Page generated: Tue Oct 8 13:16:53 2024

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