Sodium in PDB 6qxy: Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip)

All present enzymatic activity of Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip):
3.2.1.17;

The structure of Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip), PDB code: 6qxy was solved by J.Lieske, A.Tolstikova, A.Meents, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.54 / 1.70
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	79.860, 79.860, 38.020, 90.00, 90.00, 90.00
R / Rfree (%)	16.1 / 18.6

The structure of Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip) also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Sodium atom in the Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip) (pdb code 6qxy). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip), PDB code: 6qxy:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:32.9 occ:1.00 H A:GLU7 2.4 23.7 1.0 O A:HOH375 2.6 31.4 1.0 HA3 A:GLY4 2.9 26.8 1.0 H A:CYS6 2.9 25.1 1.0 HB2 A:CYS6 2.9 25.9 1.0 HB2 A:GLU7 3.1 27.0 1.0 N A:GLU7 3.1 19.7 1.0 N A:CYS6 3.5 20.9 1.0 CA A:GLY4 3.7 22.3 1.0 C A:GLY4 3.7 18.1 1.0 CB A:GLU7 3.8 22.5 1.0 HB3 A:GLU7 3.8 27.0 1.0 CB A:CYS6 3.8 21.6 1.0 CA A:CYS6 3.9 19.6 1.0 C A:CYS6 3.9 17.1 1.0 N A:ARG5 3.9 20.2 1.0 H A:ARG5 4.0 24.2 1.0 CA A:GLU7 4.0 19.1 1.0 O A:GLY4 4.2 19.7 1.0 HA2 A:GLY4 4.3 26.8 1.0 HA A:GLU7 4.4 23.0 1.0 HB3 A:CYS6 4.4 25.9 1.0 H A:GLY4 4.4 26.1 1.0 C A:ARG5 4.4 20.8 1.0 N A:GLY4 4.6 21.7 1.0 CA A:ARG5 4.8 21.8 1.0 HA A:CYS6 4.9 23.5 1.0 HB3 A:ARG5 4.9 27.0 1.0 SG A:CYS6 4.9 20.8 1.0

Sodium binding site 2 out of 2 in the Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Pink Beam Serial Crystallography: Lysozyme, 5 Us Exposure, 8813 Patterns Merged (1 Chip) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na202 b:21.3 occ:0.63 HB2 A:SER72 2.1 37.2 1.0 OG A:SER72 2.3 37.6 1.0 O A:HOH305 2.3 26.5 0.6 O A:SER60 2.3 21.1 1.0 O A:CYS64 2.5 16.2 1.0 O A:HOH354 2.5 22.5 1.0 CB A:SER72 2.6 31.0 1.0 O A:ARG73 2.6 24.9 0.5 HA A:ASN65 3.0 20.4 1.0 HB3 A:SER72 3.2 37.2 1.0 H A:ASN74 3.2 27.2 0.5 C A:SER60 3.5 17.7 1.0 C A:CYS64 3.5 15.2 1.0 H A:ARG73 3.5 32.7 0.5 C A:ARG73 3.6 24.8 0.5 HB2 A:ASN74 3.7 23.6 0.5 CA A:SER72 3.8 35.5 1.0 N A:ARG73 3.8 27.3 0.5 HB A:THR69 3.8 22.1 1.0 HB2 A:SER60 3.8 19.8 1.0 C A:SER72 3.8 32.3 1.0 N A:ASN74 3.9 22.7 0.5 CA A:ASN65 3.9 17.0 1.0 H A:CYS64 3.9 19.2 1.0 HA A:SER60 3.9 19.3 1.0 N A:ARG73 4.0 27.3 0.5 HA A:ASN74 4.1 24.3 0.5 HA A:ASN74 4.1 24.6 0.5 N A:ASN65 4.1 16.5 1.0 HA A:ARG61 4.2 26.3 1.0 H A:ASP66 4.2 19.5 1.0 CA A:SER60 4.2 16.1 1.0 HB2 A:ASN74 4.3 23.2 0.5 H A:ARG73 4.3 32.8 0.5 HA A:SER72 4.3 42.6 1.0 O A:ARG61 4.3 25.1 1.0 HB2 A:ASN65 4.4 22.5 1.0 C A:ARG61 4.4 21.6 1.0 CA A:ASN74 4.4 20.5 0.5 O A:SER72 4.4 29.1 1.0 N A:ASN74 4.4 22.6 0.5 N A:CYS64 4.4 16.0 1.0 CA A:ARG73 4.5 26.9 0.5 CB A:ASN74 4.5 19.6 0.5 CB A:SER60 4.5 16.5 1.0 N A:ARG61 4.5 17.3 1.0 CA A:ARG61 4.6 21.9 1.0 CA A:ASN74 4.6 20.3 0.5 CA A:CYS64 4.6 17.2 1.0 CB A:ASN65 4.7 18.8 1.0 OD1 A:ASN65 4.7 34.9 1.0 H A:SER72 4.7 38.6 1.0 O A:HOH370 4.7 27.5 1.0 CB A:THR69 4.7 18.4 1.0 C A:ARG73 4.8 25.1 0.5 HG21 A:THR69 4.8 26.8 1.0 H A:TRP63 4.8 19.9 1.0 CA A:ARG73 4.8 27.4 0.5 N A:ASP66 4.8 16.2 1.0 O A:THR69 4.8 23.5 1.0 N A:SER72 4.8 32.2 1.0 N A:TRP62 4.9 19.5 1.0 C A:ASN65 4.9 15.9 1.0 HA A:ARG73 4.9 32.4 0.5 CB A:ASN74 4.9 19.3 0.5 H A:ASN65 4.9 19.8 1.0

A.Tolstikova, M.Levantino, O.Yefanov, V.Hennicke, P.Fischer, J.Meyer, A.Mozzanica, S.Redford, E.Crosas, N.L.Opara, M.Barthelmess, J.Lieske, D.Oberthuer, E.Wator, I.Mohacsi, M.Wulff, B.Schmitt, H.N.Chapman, A.Meents. 1 Khz Fixed-Target Serial Crystallography Using A Multilayer Monochromator and An Integrating Pixel Detector. Iucrj V. 6 927 2019.
ISSN: ESSN 2052-2525
PubMed: 31576225
DOI: 10.1107/S205225251900914X