Sodium in PDB 7dtb: Room Tempeature Structure of Lysozyme By Fixed-Target Serial Crystallography

Enzymatic activity of Room Tempeature Structure of Lysozyme By Fixed-Target Serial Crystallography

All present enzymatic activity of Room Tempeature Structure of Lysozyme By Fixed-Target Serial Crystallography:
3.2.1.17;

Protein crystallography data

The structure of Room Tempeature Structure of Lysozyme By Fixed-Target Serial Crystallography, PDB code: 7dtb 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) 56.18 / 1.65
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.45, 79.45, 38.47, 90, 90, 90
R / Rfree (%) 17.9 / 20.9

Other elements in 7dtb:

The structure of Room Tempeature Structure of Lysozyme By Fixed-Target Serial Crystallography also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Room Tempeature Structure of Lysozyme By Fixed-Target Serial Crystallography (pdb code 7dtb). 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 Tempeature Structure of Lysozyme By Fixed-Target Serial Crystallography, PDB code: 7dtb:

Sodium binding site 1 out of 1 in 7dtb

Go back to Sodium Binding Sites List in 7dtb
Sodium binding site 1 out of 1 in the Room Tempeature Structure of Lysozyme By Fixed-Target Serial Crystallography


Mono view


Stereo pair view

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

b:26.9
occ:1.00
O A:CYS82 2.3 24.2 1.0
O A:SER78 2.4 27.4 1.0
O A:HOH343 2.5 32.8 1.0
O A:ARG91 2.6 31.6 1.0
O A:HOH339 2.6 30.3 1.0
OG A:SER90 2.6 31.4 1.0
HB2 A:SER90 2.9 35.1 1.0
HA A:ASN83 3.1 30.5 1.0
CB A:SER90 3.3 29.2 1.0
C A:CYS82 3.4 20.5 1.0
C A:SER78 3.5 23.4 1.0
C A:ARG91 3.6 31.1 1.0
HB2 A:SER78 3.6 28.0 1.0
H A:CYS82 3.9 26.7 1.0
HB A:THR87 3.9 34.8 1.0
HB3 A:SER90 3.9 35.1 1.0
CA A:ASN83 3.9 25.4 1.0
HA A:SER78 4.0 26.6 1.0
N A:ARG91 4.0 30.3 1.0
H A:ARG91 4.0 36.5 1.0
HB2 A:ASN92 4.0 32.4 1.0
C A:SER90 4.1 36.4 1.0
N A:ASN83 4.1 25.5 1.0
H A:ASP84 4.1 28.9 1.0
HA A:ASN92 4.1 34.0 1.0
CA A:SER78 4.2 22.2 1.0
CB A:SER78 4.3 23.3 1.0
CA A:SER90 4.3 28.3 1.0
CA A:ARG91 4.4 29.7 1.0
N A:CYS82 4.4 22.2 1.0
N A:ASN92 4.4 30.7 1.0
HA A:ARG79 4.5 37.1 1.0
C A:ARG79 4.6 32.8 1.0
CA A:CYS82 4.6 23.8 1.0
O A:ARG79 4.6 28.7 1.0
N A:ARG79 4.6 24.9 1.0
CA A:ASN92 4.6 28.2 1.0
O A:SER90 4.6 38.2 1.0
HB2 A:ASN83 4.7 31.6 1.0
HG A:SER78 4.8 31.4 1.0
N A:ASP84 4.8 24.0 1.0
HA A:ARG91 4.8 35.7 1.0
CB A:ASN92 4.8 27.0 1.0
OD1 A:ASN83 4.8 37.2 1.0
CB A:THR87 4.8 29.0 1.0
CA A:ARG79 4.8 30.9 1.0
H A:TRP81 4.8 28.1 1.0
O A:HOH360 4.9 26.8 1.0
CB A:ASN83 4.9 26.3 1.0
N A:TRP80 4.9 26.7 1.0
C A:ASN83 4.9 25.6 1.0
HA A:SER90 4.9 34.1 1.0
O A:THR87 4.9 32.5 1.0
H A:ASN83 5.0 30.7 1.0
HB3 A:SER78 5.0 28.0 1.0

Reference:

K.H.Nam, K.H.Nam. N/A N/A.
Page generated: Mon Jan 25 15:53:34 2021

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