Atomistry » Sodium » PDB 6jbu-6kcb » 6jzi
Atomistry »
  Sodium »
    PDB 6jbu-6kcb »
      6jzi »

Sodium in PDB 6jzi: Structure of Hen Egg-White Lysozyme Obtained From Sfx Experiments Under Atmospheric Pressure

Enzymatic activity of Structure of Hen Egg-White Lysozyme Obtained From Sfx Experiments Under Atmospheric Pressure

All present enzymatic activity of Structure of Hen Egg-White Lysozyme Obtained From Sfx Experiments Under Atmospheric Pressure:
3.2.1.17;

Protein crystallography data

The structure of Structure of Hen Egg-White Lysozyme Obtained From Sfx Experiments Under Atmospheric Pressure, PDB code: 6jzi was solved by E.Nango, M.Sugahara, T.Nakane, T.Tanaka, S.Iwata, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.27 / 2.00
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.110, 79.110, 38.020, 90.00, 90.00, 90.00
R / Rfree (%) 15.9 / 20.2

Other elements in 6jzi:

The structure of Structure of Hen Egg-White Lysozyme Obtained From Sfx Experiments Under Atmospheric Pressure also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Hen Egg-White Lysozyme Obtained From Sfx Experiments Under Atmospheric Pressure (pdb code 6jzi). 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 Structure of Hen Egg-White Lysozyme Obtained From Sfx Experiments Under Atmospheric Pressure, PDB code: 6jzi:

Sodium binding site 1 out of 1 in 6jzi

Go back to Sodium Binding Sites List in 6jzi
Sodium binding site 1 out of 1 in the Structure of Hen Egg-White Lysozyme Obtained From Sfx Experiments Under Atmospheric Pressure


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Hen Egg-White Lysozyme Obtained From Sfx Experiments Under Atmospheric Pressure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na201

b:27.7
occ:1.00
 O A:SER60 2.4 26.4 1.0
O A:CYS64 2.4 22.6 1.0
O A:HOH319 2.5 32.0 1.0
O A:HOH316 2.5 25.5 1.0
OG A:SER72 2.5 30.1 1.0
O A:ARG73 2.6 28.6 1.0
CB A:SER72 3.2 28.7 1.0
C A:CYS64 3.5 21.1 1.0
C A:SER60 3.5 22.4 1.0
C A:ARG73 3.6 31.6 1.0
CA A:ASN65 4.0 26.0 1.0
N A:ARG73 4.0 26.7 1.0
C A:SER72 4.1 37.2 1.0
CA A:SER60 4.2 20.2 1.0
N A:ASN65 4.2 24.7 1.0
CA A:SER72 4.3 34.9 1.0
CB A:SER60 4.4 20.9 1.0
N A:CYS64 4.4 20.0 1.0
CA A:ARG73 4.4 26.6 1.0
N A:ASN74 4.5 28.1 1.0
C A:ARG61 4.5 28.0 1.0
O A:ARG61 4.5 26.3 1.0
N A:ARG61 4.6 21.1 1.0
CA A:ASN74 4.6 26.4 1.0
O A:SER72 4.6 30.2 1.0
CA A:CYS64 4.6 19.6 1.0
CB A:THR69 4.7 25.8 1.0
O A:HOH302 4.7 23.9 1.0
N A:ASP66 4.8 21.6 1.0
CB A:ASN74 4.8 23.3 1.0
CA A:ARG61 4.8 29.9 0.5
CA A:ARG61 4.8 29.8 0.5
OD1 A:ASN65 4.8 31.4 1.0
N A:TRP62 4.8 23.8 1.0
CB A:ASN65 4.8 21.9 1.0
O A:THR69 4.9 34.5 1.0
C A:ASN65 4.9 19.3 1.0

Reference:

Y.Shimazu, K.Tono, T.Tanaka, Y.Yamanaka, T.Nakane, C.Mori, K.T.Kimura, T.Fujiwara, M.Sugahara, R.Tanaka, R.B.Doak, T.Shimamura, S.Iwata, E.Nango, M.Yabashi. High-Viscosity Sample-Injection Device For Serial Femtosecond Crystallography at Atmospheric Pressure J.Appl.Crystallogr. V. 52 2019.
ISSN: ESSN 1600-5767
DOI: 10.1107/S1600576719012846
Page generated: Tue Oct 8 11:30:01 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy