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Sodium in PDB 9i6o: Hen Egg-White Lysozyme Structure Embedded in Lcp Medium at 95% Relative Humidity

Enzymatic activity of Hen Egg-White Lysozyme Structure Embedded in Lcp Medium at 95% Relative Humidity

All present enzymatic activity of Hen Egg-White Lysozyme Structure Embedded in Lcp Medium at 95% Relative Humidity:
3.2.1.17;

Protein crystallography data

The structure of Hen Egg-White Lysozyme Structure Embedded in Lcp Medium at 95% Relative Humidity, PDB code: 9i6o was solved by D.Zabelskii, E.Round, H.Han, D.Von Stetten, D.Melo, R.De Wijn, R.Bean, A.Round, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 55.86 / 1.70
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79, 79, 38, 90, 90, 90
R / Rfree (%) 16.8 / 19.9

Other elements in 9i6o:

The structure of Hen Egg-White Lysozyme Structure Embedded in Lcp Medium at 95% Relative Humidity also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Hen Egg-White Lysozyme Structure Embedded in Lcp Medium at 95% Relative Humidity (pdb code 9i6o). 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 Structure Embedded in Lcp Medium at 95% Relative Humidity, PDB code: 9i6o:

Sodium binding site 1 out of 1 in 9i6o

Go back to Sodium Binding Sites List in 9i6o
Sodium binding site 1 out of 1 in the Hen Egg-White Lysozyme Structure Embedded in Lcp Medium at 95% Relative Humidity


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 Structure Embedded in Lcp Medium at 95% Relative Humidity within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1001

b:23.8
occ:1.00
 O A:SER60 2.3 17.6 1.0
OG A:SER72 2.4 28.7 1.0
O A:CYS64 2.5 17.7 1.0
O A:HOH1197 2.5 29.7 1.0
O A:ARG73 2.5 29.2 1.0
O A:HOH1173 2.5 18.5 1.0
CB A:SER72 3.1 30.4 1.0
C A:CYS64 3.5 14.6 1.0
C A:SER60 3.5 15.1 1.0
C A:ARG73 3.6 25.0 1.0
N A:ARG73 3.9 24.2 1.0
CA A:ASN65 3.9 16.8 1.0
C A:SER72 4.0 34.3 1.0
N A:ASN65 4.1 15.9 1.0
CA A:SER72 4.2 27.2 1.0
CA A:SER60 4.2 14.8 1.0
CA A:ARG73 4.4 21.4 1.0
N A:CYS64 4.4 14.3 1.0
C A:ARG61 4.5 24.9 0.5
N A:ASN74 4.5 21.6 1.0
CB A:SER60 4.5 19.1 1.0
C A:ARG61 4.5 24.9 0.5
O A:ARG61 4.5 21.5 0.5
O A:SER72 4.5 28.4 1.0
N A:ARG61 4.5 15.9 0.5
N A:ARG61 4.5 15.9 0.5
CA A:CYS64 4.6 17.5 1.0
O A:ARG61 4.6 21.5 0.5
CA A:ASN74 4.6 19.6 1.0
CA A:ARG61 4.7 21.1 0.5
CA A:ARG61 4.7 21.1 0.5
CB A:THR69 4.7 16.7 1.0
CB A:ASN74 4.8 18.8 1.0
N A:ASP66 4.8 15.3 1.0
N A:TRP62 4.8 19.4 1.0
CB A:ASN65 4.8 17.4 1.0
OD1 A:ASN65 4.8 30.9 1.0
O A:HOH1243 4.9 50.5 1.0
CL A:CL1003 4.9 42.3 1.0
O A:THR69 4.9 23.4 1.0
C A:ASN65 4.9 15.5 1.0
N A:TRP63 5.0 14.9 1.0

Reference:

D.Zabelskii, E.Round, H.Han, D.Von Stetten, R.Letrun, C.Kim, T.Sato, D.Melo, R.De Wijn, K.Kharitonov, P.Smyth, K.Doerner, M.Kloos, T.Dietze, L.Lopez, R.Bean, A.Round. Viscoelastic Characterization of the Lipid Cubic Phase Provides Insights Into High-Viscosity Extrusion Injection For Xfel Experiments. To Be Published.
Page generated: Mon Aug 18 17:11:27 2025

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