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Sodium in PDB 4bap: Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution.

Enzymatic activity of Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution.

All present enzymatic activity of Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution.:
3.2.1.17;

Protein crystallography data

The structure of Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution., PDB code: 4bap was solved by R.Talon, R.Kahn, A.Gautier, L.Nauton, E.Girard, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.76 / 1.21
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.509, 77.509, 38.482, 90.00, 90.00, 90.00
R / Rfree (%) 15.8 / 17.8

Other elements in 4bap:

The structure of Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution. also contains other interesting chemical elements:

Europium (Eu) 1 atom
Chlorine (Cl) 8 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution. (pdb code 4bap). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution., PDB code: 4bap:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 4bap

Go back to Sodium Binding Sites List in 4bap
Sodium binding site 1 out of 2 in the Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1142

b:15.3
occ:1.00
 OG1 A:THR51 2.7 9.1 1.0
OD2 A:ASP66 2.8 9.3 1.0
NE A:ARG68 2.8 14.9 0.5
O A:GLY49 2.9 13.9 1.0
NE A:ARG68 3.0 9.6 0.5
OG1 A:THR69 3.0 10.8 1.0
N A:THR51 3.4 8.0 1.0
C A:SER50 3.5 8.8 1.0
CB A:THR51 3.5 7.7 1.0
CD A:ARG68 3.5 12.9 0.5
CG A:ARG68 3.5 13.9 0.5
CG A:ARG68 3.6 14.6 0.5
CA A:SER50 3.6 9.7 1.0
NE A:ARG45 3.6 14.4 0.5
CG A:ASP66 3.6 8.7 1.0
CZ A:ARG68 3.7 14.2 0.5
OG A:SER60 3.8 9.3 1.0
NH2 A:ARG68 3.8 11.0 0.5
CD A:ARG68 3.8 10.1 0.5
OD1 A:ASP66 3.8 9.5 1.0
NH2 A:ARG68 3.9 8.8 0.5
CZ A:ARG68 3.9 9.1 0.5
C A:GLY49 3.9 14.6 1.0
O A:ARG68 3.9 20.6 1.0
O A:SER50 4.0 9.9 1.0
CA A:THR51 4.1 7.5 1.0
CZ A:ARG45 4.1 12.0 0.5
NE A:ARG45 4.1 10.8 0.5
NH2 A:ARG45 4.1 19.8 0.5
N A:SER50 4.2 12.2 1.0
C A:ARG68 4.3 16.6 1.0
CD A:ARG45 4.3 12.6 0.5
CB A:THR69 4.3 11.9 1.0
OH A:TYR53 4.3 8.5 1.0
NH2 A:ARG45 4.5 11.3 0.5
CB A:ARG68 4.5 13.6 0.5
CZ A:ARG45 4.6 11.6 0.5
N A:THR69 4.6 12.9 1.0
CA A:THR69 4.8 14.8 1.0
CB A:ARG68 4.8 16.9 0.5
CB A:SER60 4.8 8.5 1.0
CD A:ARG45 4.8 10.6 0.5
CG2 A:THR69 4.8 12.8 1.0
CG2 A:THR51 4.8 9.1 1.0
CB A:SER50 4.9 11.5 1.0
CA A:ARG68 4.9 14.2 0.5
CB A:ASP66 5.0 9.6 1.0
NH1 A:ARG68 5.0 14.4 0.5

Sodium binding site 2 out of 2 in 4bap

Go back to Sodium Binding Sites List in 4bap
Sodium binding site 2 out of 2 in the Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Hen Egg-White Lysozyme Structure in Complex with the Europium Tris- Hydroxyethylcholinetriazoledipicolinate Complex at 1.21 A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1143

b:13.5
occ:1.00
 O A:SER60 2.4 12.2 1.0
O A:CYS64 2.4 10.0 1.0
O A:ARG73 2.5 14.8 1.0
OG A:SER72 2.5 14.7 1.0
O A:HOH2081 2.5 12.6 1.0
O A:HOH2083 2.5 16.9 1.0
CB A:SER72 3.3 14.8 1.0
C A:SER60 3.5 10.2 1.0
C A:ARG73 3.5 15.3 1.0
C A:CYS64 3.5 9.2 1.0
CA A:ASN65 3.9 9.4 1.0
N A:ARG73 4.0 16.1 1.0
CA A:SER60 4.0 9.0 1.0
N A:ASN65 4.1 9.7 1.0
C A:SER72 4.2 16.0 1.0
CB A:SER60 4.2 8.5 1.0
CA A:ARG73 4.3 18.2 1.0
CA A:SER72 4.4 15.8 1.0
N A:ASN74 4.4 13.1 1.0
N A:CYS64 4.5 9.8 1.0
N A:ARG61 4.6 10.8 1.0
O A:HOH2089 4.6 32.6 1.0
CA A:ASN74 4.6 11.6 1.0
C A:ARG61 4.6 12.4 1.0
CA A:CYS64 4.6 9.2 1.0
CB A:THR69 4.6 11.9 1.0
N A:ASP66 4.7 10.0 1.0
O A:ARG61 4.7 14.5 1.0
OD1 A:ASN65 4.7 16.9 1.0
O A:SER72 4.7 18.4 1.0
CB A:ASN74 4.7 13.0 1.0
CL A:CL1135 4.7 20.8 1.0
CB A:ASN65 4.8 12.0 1.0
CA A:ARG61 4.8 12.2 0.5
CA A:ARG61 4.8 13.1 0.5
C A:ASN65 4.8 9.0 1.0
O A:THR69 4.9 14.9 1.0
N A:TRP62 4.9 11.7 1.0

Reference:

R.Talon, L.Nauton, J.-L.Canet, R.Kahn, E.Girard, A.Gautier. Clicked Europium Dipicolinate Complexes For Protein X-Ray Structure Determination. Chem.Commun.(Camb.) V. 48 11886 2012.
ISSN: ISSN 1359-7345
PubMed: 23123834
DOI: 10.1039/C2CC36982F
Page generated: Mon Oct 7 14:29:18 2024

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