Atomistry » Sodium » PDB 8ad0-8b9z » 8aj3
Atomistry »
  Sodium »
    PDB 8ad0-8b9z »
      8aj3 »

Sodium in PDB 8aj3: X-Ray Structure of Lysozyme Obtained Upon Reaction with [Vivo(Malt)2] (Structure A)

Protein crystallography data

The structure of X-Ray Structure of Lysozyme Obtained Upon Reaction with [Vivo(Malt)2] (Structure A), PDB code: 8aj3 was solved by M.Paolillo, A.Merlino, G.Ferraro, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 54.37 / 1.13
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 76.89, 76.89, 38.05, 90, 90, 90
R / Rfree (%) 19.9 / 24.9

Other elements in 8aj3:

The structure of X-Ray Structure of Lysozyme Obtained Upon Reaction with [Vivo(Malt)2] (Structure A) also contains other interesting chemical elements:

Vanadium (V) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the X-Ray Structure of Lysozyme Obtained Upon Reaction with [Vivo(Malt)2] (Structure A) (pdb code 8aj3). 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 X-Ray Structure of Lysozyme Obtained Upon Reaction with [Vivo(Malt)2] (Structure A), PDB code: 8aj3:

Sodium binding site 1 out of 1 in 8aj3

Go back to Sodium Binding Sites List in 8aj3
Sodium binding site 1 out of 1 in the X-Ray Structure of Lysozyme Obtained Upon Reaction with [Vivo(Malt)2] (Structure A)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Structure of Lysozyme Obtained Upon Reaction with [Vivo(Malt)2] (Structure A) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na201

b:13.4
occ:0.80
O A:SER60 2.2 14.9 1.0
O A:CYS64 2.4 10.6 1.0
O A:HOH355 2.4 13.3 1.0
OG A:SER72 2.4 19.6 1.0
O A:ARG73 2.5 20.6 1.0
O A:HOH390 2.5 21.5 1.0
CB A:SER72 3.3 22.4 1.0
C A:SER60 3.3 12.1 1.0
C A:CYS64 3.5 10.3 1.0
C A:ARG73 3.6 17.8 1.0
CA A:ASN65 3.9 11.2 1.0
CA A:SER60 4.0 11.2 1.0
N A:ARG73 4.1 20.2 1.0
C A:SER72 4.1 22.1 1.0
N A:ASN65 4.1 10.1 1.0
CB A:SER60 4.2 9.8 1.0
CA A:SER72 4.3 19.7 1.0
C A:ARG61 4.4 14.8 1.0
N A:ARG61 4.4 12.0 1.0
O A:ARG61 4.4 17.7 1.0
N A:CYS64 4.4 10.8 1.0
N A:ASN74 4.4 14.0 1.0
CA A:ARG73 4.4 20.0 1.0
O A:SER72 4.5 22.4 1.0
CB A:THR69 4.5 12.3 1.0
O A:HOH323 4.5 21.1 1.0
CA A:ARG61 4.6 14.6 1.0
CA A:CYS64 4.6 9.8 1.0
O A:HOH304 4.6 33.2 1.0
CB A:ASN65 4.6 13.5 1.0
CA A:ASN74 4.6 13.3 1.0
N A:ASP66 4.7 10.2 1.0
CB A:ASN74 4.7 13.3 1.0
N A:TRP62 4.8 12.3 1.0
O A:THR69 4.8 18.2 1.0
C A:ASN65 4.8 9.3 1.0
OD1 A:ASN65 4.9 24.6 1.0
CG2 A:THR69 4.9 12.9 1.0

Reference:

G.Ferraro, M.Paolillo, G.Sciortino, E.Garribba, A.Merlino. Multiple and Variable Binding of Pharmacologically Active Bis(Maltolato)Oxidovanadium(IV) to Lysozyme. Inorg.Chem. V. 61 16458 2022.
ISSN: ISSN 0020-1669
PubMed: 36205235
DOI: 10.1021/ACS.INORGCHEM.2C02690
Page generated: Wed Oct 9 10:32:55 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