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Sodium in PDB 9ka0: Room-Temperature Structure of Lysozyme Determined By Serial Synchrotron Crystallography (Xgandalf)

Enzymatic activity of Room-Temperature Structure of Lysozyme Determined By Serial Synchrotron Crystallography (Xgandalf)

All present enzymatic activity of Room-Temperature Structure of Lysozyme Determined By Serial Synchrotron Crystallography (Xgandalf):
3.2.1.17;

Protein crystallography data

The structure of Room-Temperature Structure of Lysozyme Determined By Serial Synchrotron Crystallography (Xgandalf), PDB code: 9ka0 was solved by K.H.Nam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.51 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.03, 79.03, 38.24, 90, 90, 90
R / Rfree (%) 17.1 / 19

Other elements in 9ka0:

The structure of Room-Temperature Structure of Lysozyme Determined By Serial Synchrotron Crystallography (Xgandalf) also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Room-Temperature Structure of Lysozyme Determined By Serial Synchrotron Crystallography (Xgandalf) (pdb code 9ka0). 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 Room-Temperature Structure of Lysozyme Determined By Serial Synchrotron Crystallography (Xgandalf), PDB code: 9ka0:

Sodium binding site 1 out of 1 in 9ka0

Go back to Sodium Binding Sites List in 9ka0
Sodium binding site 1 out of 1 in the Room-Temperature Structure of Lysozyme Determined By Serial Synchrotron Crystallography (Xgandalf)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Room-Temperature Structure of Lysozyme Determined By Serial Synchrotron Crystallography (Xgandalf) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na201

b:36.3
occ:1.00
 O A:SER78 2.4 29.0 1.0
O A:CYS82 2.4 23.7 1.0
O A:HOH352 2.5 28.5 1.0
OG A:SER90 2.5 36.4 1.0
O A:ARG91 2.6 37.7 1.0
CB A:SER90 3.2 38.4 1.0
C A:CYS82 3.4 24.5 1.0
C A:ARG91 3.5 38.1 1.0
C A:SER78 3.6 23.6 1.0
CA A:ASN83 3.8 24.4 1.0
N A:ARG91 4.0 36.0 1.0
N A:ASN83 4.0 23.8 1.0
C A:SER90 4.0 43.2 1.0
CA A:SER90 4.2 40.9 1.0
CA A:SER78 4.3 22.1 1.0
N A:CYS82 4.3 22.9 1.0
CA A:ARG91 4.4 37.0 1.0
N A:ASN92 4.4 32.6 1.0
O A:ARG79 4.4 35.1 1.0
C A:ARG79 4.4 33.6 1.0
O A:SER90 4.5 40.1 1.0
CA A:ASN92 4.5 29.0 1.0
CA A:CYS82 4.5 24.0 1.0
CB A:SER78 4.6 23.4 1.0
CB A:ASN92 4.6 28.1 1.0
N A:ARG79 4.6 24.2 1.0
CB A:ASN83 4.6 24.2 1.0
CA A:ARG79 4.7 29.9 1.0
OD1 A:ASN83 4.7 34.7 1.0
O A:HOH359 4.7 33.2 1.0
N A:ASP84 4.7 25.7 1.0
N A:TRP80 4.8 29.2 1.0
C A:ASN83 4.8 23.4 1.0
CB A:THR87 4.9 30.1 1.0
O A:THR87 5.0 37.1 1.0
N A:TRP81 5.0 24.6 1.0

Reference:

K.H.Nam, K.H.Nam. N/A N/A.
Page generated: Wed Nov 13 13:12:50 2024

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