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Sodium in PDB 4uwu: Lysozyme Soaked with A Ruthenium Based Corm with A Pyridine Ligand (Complex 7)

Enzymatic activity of Lysozyme Soaked with A Ruthenium Based Corm with A Pyridine Ligand (Complex 7)

All present enzymatic activity of Lysozyme Soaked with A Ruthenium Based Corm with A Pyridine Ligand (Complex 7):
3.2.1.17;

Protein crystallography data

The structure of Lysozyme Soaked with A Ruthenium Based Corm with A Pyridine Ligand (Complex 7), PDB code: 4uwu was solved by M.F.A.Santos, A.Mukhopadhyay, M.J.Romao, C.C.Romao, T.Santos-Silva, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 55.62 / 1.78
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.660, 78.660, 37.000, 90.00, 90.00, 90.00
R / Rfree (%) 16.13 / 19.522

Other elements in 4uwu:

The structure of Lysozyme Soaked with A Ruthenium Based Corm with A Pyridine Ligand (Complex 7) also contains other interesting chemical elements:

Ruthenium (Ru) 7 atoms
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Lysozyme Soaked with A Ruthenium Based Corm with A Pyridine Ligand (Complex 7) (pdb code 4uwu). 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 Lysozyme Soaked with A Ruthenium Based Corm with A Pyridine Ligand (Complex 7), PDB code: 4uwu:

Sodium binding site 1 out of 1 in 4uwu

Go back to Sodium Binding Sites List in 4uwu
Sodium binding site 1 out of 1 in the Lysozyme Soaked with A Ruthenium Based Corm with A Pyridine Ligand (Complex 7)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Lysozyme Soaked with A Ruthenium Based Corm with A Pyridine Ligand (Complex 7) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1131

b:14.7
occ:1.00
O A:SER60 2.3 17.1 1.0
O A:ARG73 2.3 20.2 1.0
OG A:SER72 2.3 22.7 1.0
O A:CYS64 2.3 14.5 1.0
O A:HOH2091 2.5 17.7 1.0
O A:HOH2090 2.5 17.4 1.0
CB A:SER72 3.2 21.9 1.0
C A:ARG73 3.4 22.1 1.0
C A:SER60 3.4 16.1 1.0
C A:CYS64 3.4 13.3 1.0
CA A:ASN65 3.9 14.0 1.0
N A:ARG73 4.0 22.4 1.0
CA A:SER60 4.0 13.5 1.0
N A:ASN65 4.1 13.6 1.0
C A:SER72 4.1 24.0 1.0
CB A:SER60 4.2 13.6 1.0
CA A:ARG73 4.3 24.4 1.0
N A:ASN74 4.3 21.1 1.0
CA A:SER72 4.3 23.0 1.0
N A:CYS64 4.5 13.8 1.0
CA A:ASN74 4.5 19.5 1.0
N A:ARG61 4.5 16.6 1.0
O A:ARG61 4.5 20.4 1.0
C A:ARG61 4.6 20.1 1.0
CA A:CYS64 4.6 13.7 1.0
OD1 A:ASN65 4.6 18.2 1.0
N A:ASP66 4.6 14.2 1.0
O A:HOH2099 4.6 26.2 1.0
O A:SER72 4.7 23.9 1.0
CB A:ASN74 4.7 20.0 1.0
O A:HOH2093 4.7 6.0 1.0
CB A:THR69 4.7 16.6 1.0
CB A:ASN65 4.8 15.6 1.0
C A:ASN65 4.8 13.7 1.0
CA A:ARG61 4.8 20.4 1.0
O A:HOH2097 4.9 28.0 1.0
N A:TRP62 4.9 18.0 1.0

Reference:

J.Seixas, M.F.A.Santos, A.Mukhopadhyay, A.C.Coelho, P.M.Reis, L.F.Veiros, A.R.Marques, N.Penacho, A.M.L.Goncalves, M.J Romao, G.J.L.Bernardes, T.Santos-Silva, C.C.Romao. A Contribution to the Rational Design of Ru(Co) 3CI2L Complexes For in Vivo Delivery of Co Dalton Trans 2014.
ISSN: ESSN 1477-9234
PubMed: 25427784
DOI: 10.1039/C4DT02966F
Page generated: Tue Dec 15 09:19:34 2020

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