Sodium in PDB 8rpm: Lysozyme Structure Based on Automated Real-Time Serial Crystallography Data Processing Using Crystfel

Enzymatic activity of Lysozyme Structure Based on Automated Real-Time Serial Crystallography Data Processing Using Crystfel

All present enzymatic activity of Lysozyme Structure Based on Automated Real-Time Serial Crystallography Data Processing Using Crystfel:
3.2.1.17;

Protein crystallography data

The structure of Lysozyme Structure Based on Automated Real-Time Serial Crystallography Data Processing Using Crystfel, PDB code: 8rpm was solved by T.A.White, D.Oberthuer, A.Henkel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	56.00 / 1.80
*Space group*	P 4₃ 2₁ 2
*Cell size a, b, c (Å), α, β, γ (°)*	79.2, 79.2, 38, 90, 90, 90
*R / R_free (%)*	18.5 / 22.2

Other elements in 8rpm:

The structure of Lysozyme Structure Based on Automated Real-Time Serial Crystallography Data Processing Using Crystfel also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Lysozyme Structure Based on Automated Real-Time Serial Crystallography Data Processing Using Crystfel (pdb code 8rpm). 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 Lysozyme Structure Based on Automated Real-Time Serial Crystallography Data Processing Using Crystfel, PDB code: 8rpm:

Sodium binding site 1 out of 1 in 8rpm

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Sodium Binding Sites List in 8rpm

Sodium binding site 1 out of 1 in the Lysozyme Structure Based on Automated Real-Time Serial Crystallography Data Processing Using Crystfel

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Lysozyme Structure Based on Automated Real-Time Serial Crystallography Data Processing Using Crystfel within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na203 b:53.9 occ:1.00	N	A:ILE88	3.4	28.9	1.0
	OD1	A:ASP87	3.7	42.8	1.0
	CG1	A:ILE88	3.7	32.9	1.0
	CA	A:ASP87	3.9	39.5	1.0
	NE2	A:HIS15	3.9	42.2	1.0
	C	A:ASP87	4.1	37.6	1.0
	CG	A:ASP87	4.2	44.8	1.0
	O	A:SER86	4.4	40.0	1.0
	CB	A:ILE88	4.4	29.0	1.0
	CA	A:ILE88	4.4	28.5	1.0
	CD2	A:HIS15	4.5	40.1	1.0
	CB	A:ASP87	4.5	41.1	1.0
	CB	A:ALA11	4.6	35.8	1.0
	CG2	A:ILE88	4.6	37.5	1.0
	CD1	A:ILE88	4.7	35.9	1.0
	CZ	A:PHE3	4.8	34.2	1.0
	N	A:THR89	4.9	26.2	1.0
	N	A:ASP87	4.9	37.1	1.0
	CE1	A:HIS15	5.0	42.2	1.0

Reference:

T.A.White, D.Oberthuer, A.Henkel. Real-Time Data Processing For Serial Crystallography Experiments To Be Published.

Page generated: Wed Oct 9 13:22:20 2024

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