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Sodium in PDB 6ig6: Crystal Structure of Lysozyme Delivered in Polyacrylamide Using X-Ray Free Electron Laser

Enzymatic activity of Crystal Structure of Lysozyme Delivered in Polyacrylamide Using X-Ray Free Electron Laser

All present enzymatic activity of Crystal Structure of Lysozyme Delivered in Polyacrylamide Using X-Ray Free Electron Laser:
3.2.1.17;

Protein crystallography data

The structure of Crystal Structure of Lysozyme Delivered in Polyacrylamide Using X-Ray Free Electron Laser, PDB code: 6ig6 was solved by K.H.Nam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.04 / 1.70
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.600, 79.600, 38.200, 90.00, 90.00, 90.00
R / Rfree (%) 19.6 / 21.7

Other elements in 6ig6:

The structure of Crystal Structure of Lysozyme Delivered in Polyacrylamide Using X-Ray Free Electron Laser also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Lysozyme Delivered in Polyacrylamide Using X-Ray Free Electron Laser (pdb code 6ig6). 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 Crystal Structure of Lysozyme Delivered in Polyacrylamide Using X-Ray Free Electron Laser, PDB code: 6ig6:

Sodium binding site 1 out of 1 in 6ig6

Go back to Sodium Binding Sites List in 6ig6
Sodium binding site 1 out of 1 in the Crystal Structure of Lysozyme Delivered in Polyacrylamide Using X-Ray Free Electron Laser


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Lysozyme Delivered in Polyacrylamide Using X-Ray Free Electron Laser within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na201

b:46.7
occ:1.00
 O A:SER60 2.3 36.4 1.0
O A:HOH324 2.4 39.1 1.0
OG A:SER72 2.4 51.2 1.0
HB2 A:SER72 2.4 70.9 1.0
O A:CYS64 2.5 34.2 1.0
O A:ARG73 2.7 52.6 1.0
CB A:SER72 2.9 59.0 1.0
HA A:ASN65 3.0 41.8 1.0
C A:CYS64 3.5 31.9 1.0
C A:SER60 3.5 34.1 1.0
HB3 A:SER72 3.5 70.9 1.0
C A:ARG73 3.6 55.8 1.0
HB2 A:SER60 3.8 44.0 1.0
HB A:THR69 3.8 44.1 1.0
CA A:ASN65 3.9 34.8 1.0
H A:CYS64 3.9 41.7 1.0
HA A:SER60 3.9 40.8 1.0
C A:SER72 3.9 59.1 1.0
N A:ARG73 4.0 45.4 1.0
CA A:SER72 4.0 56.5 1.0
N A:ASN65 4.1 32.2 1.0
HA A:ASN74 4.1 51.7 1.0
H A:ARG73 4.1 54.5 1.0
H A:ASP66 4.1 38.8 1.0
HB2 A:ASN74 4.1 48.1 1.0
CA A:SER60 4.2 33.9 1.0
HA A:ARG61 4.2 49.0 1.0
C A:ARG61 4.4 42.2 1.0
O A:SER72 4.4 52.3 1.0
N A:CYS64 4.4 34.7 1.0
N A:ASN74 4.4 46.6 1.0
CA A:ARG73 4.5 56.0 1.0
HB2 A:ASN65 4.5 43.0 1.0
CB A:SER60 4.5 36.6 1.0
O A:ARG61 4.5 42.2 1.0
N A:ARG61 4.5 33.4 1.0
HA A:SER72 4.6 67.8 1.0
CA A:CYS64 4.6 34.4 1.0
CA A:ARG61 4.6 40.8 1.0
CA A:ASN74 4.6 43.0 1.0
OD1 A:ASN65 4.7 46.7 1.0
CB A:ASN65 4.7 35.8 1.0
O A:HOH334 4.7 42.2 1.0
N A:ASP66 4.7 32.3 1.0
CB A:THR69 4.8 36.7 1.0
N A:TRP62 4.8 40.2 0.4
N A:TRP62 4.8 40.1 0.6
CB A:ASN74 4.8 40.1 1.0
C A:ASN65 4.9 30.2 1.0
HG21 A:THR69 4.9 47.3 1.0
H A:ASN65 4.9 38.7 1.0
H A:SER72 4.9 66.6 1.0
HA A:ARG73 4.9 67.3 1.0
H A:TRP63 4.9 38.6 1.0
HG A:SER60 4.9 39.9 1.0
O A:THR69 4.9 42.5 1.0

Reference:

J.Park, S.Park, J.Kim, G.Park, Y.Cho, K.H.Nam. Polyacrylamide Injection Matrix For Serial Femtosecond Crystallography. Sci Rep V. 9 2525 2019.
ISSN: ESSN 2045-2322
PubMed: 30792457
DOI: 10.1038/S41598-019-39020-9
Page generated: Tue Oct 8 09:37:57 2024

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