Sodium in PDB 8rt3: Hen Egg White Lysozyme Crystallized with Bioassembler in Space Microgravity Conditions

Enzymatic activity of Hen Egg White Lysozyme Crystallized with Bioassembler in Space Microgravity Conditions

All present enzymatic activity of Hen Egg White Lysozyme Crystallized with Bioassembler in Space Microgravity Conditions:
3.2.1.17;

Protein crystallography data

The structure of Hen Egg White Lysozyme Crystallized with Bioassembler in Space Microgravity Conditions, PDB code: 8rt3 was solved by C.Maccarthy, E.V.Koudan, S.V.Petrov, A.A.Levin, Y.D.Khesuani, V.Borshchevskiy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.45 / 1.09
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.21, 77.21, 39.05, 90, 90, 90
R / Rfree (%) 12.2 / 14.2

Other elements in 8rt3:

The structure of Hen Egg White Lysozyme Crystallized with Bioassembler in Space Microgravity Conditions also contains other interesting chemical elements:

Chlorine (Cl) 7 atoms
Gadolinium (Gd) 4 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Hen Egg White Lysozyme Crystallized with Bioassembler in Space Microgravity Conditions (pdb code 8rt3). 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 Hen Egg White Lysozyme Crystallized with Bioassembler in Space Microgravity Conditions, PDB code: 8rt3:

Sodium binding site 1 out of 1 in 8rt3

Go back to Sodium Binding Sites List in 8rt3
Sodium binding site 1 out of 1 in the Hen Egg White Lysozyme Crystallized with Bioassembler in Space Microgravity Conditions


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 Crystallized with Bioassembler in Space Microgravity Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1008

b:15.1
occ:1.00
 O A:SER60 2.4 14.1 1.0
O A:CYS64 2.4 13.2 1.0
O A:HOH1233 2.4 17.9 1.0
O A:ARG73 2.4 16.1 1.0
OG A:SER72 2.4 17.1 1.0
O A:HOH1198 2.5 14.7 1.0
HB2 A:SER72 3.0 20.0 1.0
HA A:ASN65 3.0 15.6 1.0
HG A:SER72 3.1 20.6 1.0
CB A:SER72 3.3 16.7 1.0
C A:ARG73 3.5 16.2 1.0
C A:CYS64 3.5 12.6 1.0
HB2 A:SER60 3.5 15.4 1.0
C A:SER60 3.5 12.7 1.0
HB A:THR69 3.8 16.7 1.0
HA A:SER60 3.8 14.2 1.0
HB3 A:SER72 3.9 20.0 1.0
H A:ARG73 3.9 21.1 0.5
N A:ARG73 3.9 17.6 1.0
H A:ARG73 3.9 21.1 0.5
H A:CYS64 3.9 15.2 1.0
CA A:ASN65 3.9 13.0 1.0
H A:ASP66 4.0 14.7 1.0
HB2 A:ASN74 4.0 18.9 1.0
C A:SER72 4.1 17.5 1.0
CA A:SER60 4.1 11.8 1.0
N A:ASN65 4.1 13.5 1.0
HA A:ASN74 4.1 18.6 1.0
CB A:SER60 4.2 12.8 1.0
CA A:ARG73 4.3 17.7 0.5
CA A:SER72 4.3 17.3 1.0
CA A:ARG73 4.3 17.7 0.5
N A:ASN74 4.4 16.2 1.0
N A:CYS64 4.4 12.7 1.0
HA A:ARG61 4.5 19.2 0.7
C A:ARG61 4.5 13.9 1.0
O A:ARG61 4.5 16.1 1.0
N A:ARG61 4.6 12.5 1.0
HB2 A:ASN65 4.6 17.4 1.0
CA A:ASN74 4.6 15.5 1.0
HA A:ARG61 4.6 16.7 0.3
O A:HOH1268 4.6 32.3 1.0
CA A:CYS64 4.6 13.2 1.0
N A:ASP66 4.6 12.3 1.0
O A:SER72 4.7 19.9 1.0
OD1 A:ASN65 4.7 17.1 1.0
CB A:THR69 4.7 13.9 1.0
HA A:ARG73 4.7 21.3 0.5
HA A:ARG73 4.7 21.3 0.5
CL A:CL1010 4.8 17.4 0.8
CA A:ARG61 4.8 16.0 0.7
CB A:ASN74 4.8 15.8 1.0
CB A:ASN65 4.8 14.5 1.0
HG21 A:THR69 4.8 18.3 1.0
CA A:ARG61 4.8 13.9 0.3
H A:TRP63 4.8 15.0 1.0
C A:ASN65 4.8 11.9 1.0
HG A:SER60 4.9 15.0 1.0
N A:TRP62 4.9 13.4 1.0
HB3 A:SER60 4.9 15.4 1.0
O A:HOH1253 4.9 28.5 0.8
H A:ASN65 4.9 16.2 1.0
HA A:SER72 4.9 20.7 1.0
O A:THR69 5.0 15.4 1.0

Reference:

C.Maccarthy, E.V.Koudan, S.V.Petrov, A.A.Levin, Y.D.Khesuani, V.Borshchevskiy. Hen Egg White Lysozyme Crystallized with Bioassembler in Space Microgravity Conditions To Be Published.
Page generated: Wed Oct 9 13:22:31 2024

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