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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

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