Sodium in PDB 8rus: Hen Egg-White Lysozyme (Hewl) Structure From Euxfel Fxe, Multi-Hit Droplet-on-Demand (Dod) Injection, 9.3 Kev Photon Energy, Space Group P432121

Enzymatic activity of Hen Egg-White Lysozyme (Hewl) Structure From Euxfel Fxe, Multi-Hit Droplet-on-Demand (Dod) Injection, 9.3 Kev Photon Energy, Space Group P432121

All present enzymatic activity of Hen Egg-White Lysozyme (Hewl) Structure From Euxfel Fxe, Multi-Hit Droplet-on-Demand (Dod) Injection, 9.3 Kev Photon Energy, Space Group P432121:
3.2.1.17;

Protein crystallography data

The structure of Hen Egg-White Lysozyme (Hewl) Structure From Euxfel Fxe, Multi-Hit Droplet-on-Demand (Dod) Injection, 9.3 Kev Photon Energy, Space Group P432121, PDB code: 8rus was solved by S.Perrett, J.J.Van Thor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 18.73 / 1.38
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.47, 79.47, 38.32, 90, 90, 90
R / Rfree (%) 14.8 / 20

Other elements in 8rus:

The structure of Hen Egg-White Lysozyme (Hewl) Structure From Euxfel Fxe, Multi-Hit Droplet-on-Demand (Dod) Injection, 9.3 Kev Photon Energy, Space Group P432121 also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Hen Egg-White Lysozyme (Hewl) Structure From Euxfel Fxe, Multi-Hit Droplet-on-Demand (Dod) Injection, 9.3 Kev Photon Energy, Space Group P432121 (pdb code 8rus). 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 Hen Egg-White Lysozyme (Hewl) Structure From Euxfel Fxe, Multi-Hit Droplet-on-Demand (Dod) Injection, 9.3 Kev Photon Energy, Space Group P432121, PDB code: 8rus:

Sodium binding site 1 out of 1 in 8rus

Go back to Sodium Binding Sites List in 8rus
Sodium binding site 1 out of 1 in the Hen Egg-White Lysozyme (Hewl) Structure From Euxfel Fxe, Multi-Hit Droplet-on-Demand (Dod) Injection, 9.3 Kev Photon Energy, Space Group P432121


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Hen Egg-White Lysozyme (Hewl) Structure From Euxfel Fxe, Multi-Hit Droplet-on-Demand (Dod) Injection, 9.3 Kev Photon Energy, Space Group P432121 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na204

b:38.9
occ:1.00
 O A:SER60 2.3 29.2 1.0
OG A:SER72 2.4 44.3 1.0
O A:CYS64 2.5 30.0 1.0
O A:ARG73 2.5 44.0 1.0
O A:HOH349 2.5 43.6 1.0
O A:HOH353 2.5 35.9 1.0
HB2 A:SER72 2.8 51.0 1.0
HA A:ASN65 3.1 36.6 1.0
CB A:SER72 3.1 42.4 1.0
C A:SER60 3.5 26.6 1.0
C A:CYS64 3.5 29.3 1.0
C A:ARG73 3.5 43.3 1.0
HB2 A:SER60 3.7 33.5 1.0
HB3 A:SER72 3.8 51.0 1.0
HB A:THR69 3.9 35.1 1.0
H A:CYS64 3.9 33.8 1.0
HA A:SER60 3.9 31.5 1.0
N A:ARG73 3.9 42.9 1.0
HB2 A:ASN74 4.0 41.5 1.0
CA A:ASN65 4.0 30.5 1.0
H A:ARG73 4.0 51.5 1.0
C A:SER72 4.0 44.9 1.0
HA A:ASN74 4.0 40.7 1.0
CA A:SER60 4.2 26.2 1.0
H A:ASP66 4.2 35.8 1.0
N A:ASN65 4.2 29.3 1.0
CA A:SER72 4.2 44.2 1.0
CA A:ARG73 4.4 43.3 1.0
HA A:ARG61 4.4 41.9 1.0
CB A:SER60 4.4 27.9 1.0
N A:ASN74 4.4 38.6 1.0
N A:CYS64 4.4 28.2 1.0
C A:ARG61 4.4 33.5 1.0
O A:ARG61 4.5 35.0 1.0
N A:ARG61 4.5 28.4 1.0
CA A:ASN74 4.6 33.9 1.0
O A:SER72 4.6 43.5 1.0
CA A:CYS64 4.6 26.4 1.0
HB2 A:ASN65 4.7 41.1 1.0
CA A:ARG61 4.7 34.9 1.0
CB A:ASN74 4.7 34.6 1.0
N A:TRP62 4.7 33.7 1.0
OD1 A:ASN65 4.8 47.2 1.0
CB A:THR69 4.8 29.2 1.0
HG21 A:THR69 4.8 36.0 1.0
HA A:ARG73 4.8 52.0 1.0
HA A:SER72 4.8 53.0 1.0
N A:ASP66 4.8 29.8 1.0
CL A:CL203 4.8 59.9 1.0
H A:TRP63 4.8 34.6 1.0
CB A:ASN65 4.9 34.2 1.0
H A:SER72 4.9 52.6 1.0
O A:THR69 4.9 37.6 1.0
C A:ASN65 5.0 29.8 1.0
H A:TRP62 5.0 40.5 1.0

Reference:

S.Perrett, A.Fadini, C.D.M.Hutchison, S.Bhattacharya, C.Morrison, O.Turkot, M.B.Jakobsen, M.Grossler, J.Licon-Salaiz, F.Griese, S.Flewett, J.Valerio, J.Schulz, M.Biednov, Y.Jiang, H.Han, H.Yousef, D.Khakhulin, C.Milne, A.Barty, J.J.Van Thor. Kilohertz Droplet-on-Demand Serial Femtosecond Crystallography at the European Xfel Station Fxe. Struct Dyn. V. 11 24310 2024.
ISSN: ESSN 2329-7778
PubMed: 38638699
DOI: 10.1063/4.0000248
Page generated: Wed Oct 9 13:23:06 2024

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