Atomistry » Sodium » PDB 5kd8-5kw9 » 5kkj
Atomistry »
  Sodium »
    PDB 5kd8-5kw9 »
      5kkj »

Sodium in PDB 5kkj: 2.0-Angstrom in Situ Mylar Structure of Hen Egg-White Lysozyme (Hewl) at 293 K

Enzymatic activity of 2.0-Angstrom in Situ Mylar Structure of Hen Egg-White Lysozyme (Hewl) at 293 K

All present enzymatic activity of 2.0-Angstrom in Situ Mylar Structure of Hen Egg-White Lysozyme (Hewl) at 293 K:
3.2.1.17;

Protein crystallography data

The structure of 2.0-Angstrom in Situ Mylar Structure of Hen Egg-White Lysozyme (Hewl) at 293 K, PDB code: 5kkj was solved by J.Broecker, O.P.Ernst, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.95 / 2.00
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.064, 79.064, 38.336, 90.00, 90.00, 90.00
R / Rfree (%) 14.9 / 20

Other elements in 5kkj:

The structure of 2.0-Angstrom in Situ Mylar Structure of Hen Egg-White Lysozyme (Hewl) at 293 K also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the 2.0-Angstrom in Situ Mylar Structure of Hen Egg-White Lysozyme (Hewl) at 293 K (pdb code 5kkj). 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 2.0-Angstrom in Situ Mylar Structure of Hen Egg-White Lysozyme (Hewl) at 293 K, PDB code: 5kkj:

Sodium binding site 1 out of 1 in 5kkj

Go back to Sodium Binding Sites List in 5kkj
Sodium binding site 1 out of 1 in the 2.0-Angstrom in Situ Mylar Structure of Hen Egg-White Lysozyme (Hewl) at 293 K


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 2.0-Angstrom in Situ Mylar Structure of Hen Egg-White Lysozyme (Hewl) at 293 K within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na201

b:33.6
occ:1.00
 O A:SER60 2.2 24.3 1.0
O A:CYS64 2.4 23.8 1.0
O A:HOH353 2.6 36.9 1.0
OG A:SER72 2.6 35.2 1.0
O A:ARG73 2.6 34.9 1.0
O A:HOH329 2.7 23.9 1.0
CB A:SER72 3.3 31.6 1.0
C A:SER60 3.4 20.4 1.0
C A:CYS64 3.5 21.6 1.0
C A:ARG73 3.6 37.1 1.0
CA A:ASN65 3.9 20.7 1.0
N A:ARG73 4.0 28.7 1.0
C A:SER72 4.0 39.0 1.0
N A:ASN65 4.1 19.5 1.0
CA A:SER60 4.2 20.9 1.0
CA A:SER72 4.3 37.4 1.0
O A:ARG61 4.4 31.0 0.5
N A:CYS64 4.4 18.8 1.0
O A:ARG61 4.4 31.0 0.5
C A:ARG61 4.4 32.8 0.5
C A:ARG61 4.4 32.8 0.5
CB A:SER60 4.4 19.8 1.0
N A:ARG61 4.4 24.3 0.5
N A:ARG61 4.4 24.3 0.5
CA A:ARG73 4.4 29.9 1.0
O A:SER72 4.4 32.0 1.0
N A:ASN74 4.5 29.8 1.0
CA A:CYS64 4.6 21.8 1.0
CA A:ARG61 4.6 30.4 0.5
CA A:ARG61 4.6 30.4 0.5
CA A:ASN74 4.6 24.5 1.0
CB A:THR69 4.7 29.8 1.0
O A:HOH356 4.7 28.5 1.0
N A:ASP66 4.7 18.2 1.0
N A:TRP62 4.8 28.2 1.0
CB A:ASN65 4.8 18.5 1.0
CB A:ASN74 4.8 22.7 1.0
C A:ASN65 4.9 14.4 1.0
OD1 A:ASN65 4.9 32.9 1.0
O A:THR69 4.9 36.9 1.0
N A:TRP63 4.9 23.3 1.0

Reference:

J.Broecker, V.Klingel, W.L.Ou, A.R.Balo, D.J.Kissick, C.M.Ogata, A.Kuo, O.P.Ernst. A Versatile System For High-Throughput in Situ X-Ray Screening and Data Collection of Soluble and Membrane-Protein Crystals. Cryst Growth Des V. 16 6318 2016.
ISSN: ISSN 1528-7483
PubMed: 28261000
DOI: 10.1021/ACS.CGD.6B00950
Page generated: Mon Oct 7 22:06:08 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy