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Sodium in PDB 6rxi: In-Flow Serial Synchrotron Crystallography Using A 3D-Printed Microfluidic Device (3D-Mixd): Lysozyme

Enzymatic activity of In-Flow Serial Synchrotron Crystallography Using A 3D-Printed Microfluidic Device (3D-Mixd): Lysozyme

All present enzymatic activity of In-Flow Serial Synchrotron Crystallography Using A 3D-Printed Microfluidic Device (3D-Mixd): Lysozyme:
3.2.1.17;

Protein crystallography data

The structure of In-Flow Serial Synchrotron Crystallography Using A 3D-Printed Microfluidic Device (3D-Mixd): Lysozyme, PDB code: 6rxi was solved by D.C.F.Monteiro, D.Von Stetten, A.R.Pearson, M.Trebbin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 56.36 / 2.00
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.700, 79.700, 38.550, 90.00, 90.00, 90.00
R / Rfree (%) 15.8 / 20.1

Other elements in 6rxi:

The structure of In-Flow Serial Synchrotron Crystallography Using A 3D-Printed Microfluidic Device (3D-Mixd): Lysozyme also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the In-Flow Serial Synchrotron Crystallography Using A 3D-Printed Microfluidic Device (3D-Mixd): Lysozyme (pdb code 6rxi). 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 In-Flow Serial Synchrotron Crystallography Using A 3D-Printed Microfluidic Device (3D-Mixd): Lysozyme, PDB code: 6rxi:

Sodium binding site 1 out of 1 in 6rxi

Go back to Sodium Binding Sites List in 6rxi
Sodium binding site 1 out of 1 in the In-Flow Serial Synchrotron Crystallography Using A 3D-Printed Microfluidic Device (3D-Mixd): Lysozyme


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of In-Flow Serial Synchrotron Crystallography Using A 3D-Printed Microfluidic Device (3D-Mixd): Lysozyme within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na203

b:42.1
occ:1.00
 O A:SER60 2.3 34.8 1.0
OG A:SER72 2.4 45.5 1.0
O A:CYS64 2.4 32.6 1.0
O A:HOH342 2.5 44.8 1.0
O A:ARG73 2.5 48.0 1.0
O A:HOH337 2.6 37.4 1.0
CB A:SER72 3.3 46.5 1.0
C A:SER60 3.4 34.1 1.0
C A:CYS64 3.5 31.6 1.0
C A:ARG73 3.6 42.8 1.0
N A:ARG73 4.0 45.4 1.0
CA A:ASN65 4.0 35.8 1.0
C A:SER72 4.0 53.8 1.0
CA A:SER60 4.1 32.3 1.0
N A:ASN65 4.2 32.9 1.0
CA A:SER72 4.2 46.1 1.0
O A:ARG61 4.4 36.1 1.0
N A:CYS64 4.4 31.1 1.0
C A:ARG61 4.4 41.2 1.0
CA A:ARG73 4.5 44.5 1.0
CB A:SER60 4.5 32.9 1.0
N A:ASN74 4.5 39.1 1.0
N A:ARG61 4.5 34.2 1.0
O A:SER72 4.5 48.3 1.0
CA A:CYS64 4.6 32.3 1.0
CA A:ASN74 4.6 37.4 1.0
N A:TRP62 4.7 37.2 1.0
CA A:ARG61 4.8 41.1 1.0
CB A:THR69 4.8 34.5 1.0
CB A:ASN74 4.8 37.4 1.0
OD1 A:ASN65 4.9 46.2 1.0
O A:HOH344 4.9 35.7 1.0
CB A:ASN65 4.9 36.8 1.0
N A:ASP66 4.9 30.9 1.0
N A:TRP63 4.9 34.5 1.0
C A:TRP62 5.0 37.8 1.0
C A:ASN65 5.0 30.3 1.0
O A:THR69 5.0 45.2 1.0

Reference:

D.C.F.Monteiro, D.Von Stetten, C.Stohrer, M.Sans, A.R.Pearson, G.Santoni, P.Van Der Linden, M.Trebbin. 3D-Mixd: 3D-Printed X-Ray-Compatible Microfluidic Devices For Rapid, Low-Consumption Serial Synchrotron Crystallography Data Collection in Flow. Iucrj V. 7 207 2020.
ISSN: ESSN 2052-2525
PubMed: 32148849
DOI: 10.1107/S2052252519016865
Page generated: Tue Oct 8 13:20:48 2024

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