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Sodium in PDB 1at5: Hen Egg White Lysozyme with A Succinimide Residue

Enzymatic activity of Hen Egg White Lysozyme with A Succinimide Residue

All present enzymatic activity of Hen Egg White Lysozyme with A Succinimide Residue:
3.2.1.17;

Protein crystallography data

The structure of Hen Egg White Lysozyme with A Succinimide Residue, PDB code: 1at5 was solved by S.Noguchi, K.Miyawaki, Y.Satow, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.610, 78.610, 38.780, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 23.3

Other elements in 1at5:

The structure of Hen Egg White Lysozyme with A Succinimide Residue also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Hen Egg White Lysozyme with A Succinimide Residue (pdb code 1at5). 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 with A Succinimide Residue, PDB code: 1at5:

Sodium binding site 1 out of 1 in 1at5

Go back to Sodium Binding Sites List in 1at5
Sodium binding site 1 out of 1 in the Hen Egg White Lysozyme with A Succinimide Residue


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 with A Succinimide Residue within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na140

b:38.5
occ:1.00
OG A:SER72 2.2 33.7 1.0
O A:SER60 2.3 14.6 1.0
O A:ARG73 2.7 34.1 1.0
O A:CYS64 2.7 15.6 1.0
CB A:SER72 2.8 36.5 1.0
O A:HOH219 2.9 51.0 1.0
O A:HOH175 2.9 18.2 1.0
C A:SER60 3.5 12.4 1.0
C A:ARG73 3.5 30.2 1.0
C A:SER72 3.6 34.7 1.0
N A:ARG73 3.7 32.7 1.0
C A:CYS64 3.7 13.9 1.0
CA A:SER72 3.8 35.5 1.0
O A:SER72 4.0 33.8 1.0
O A:ARG61 4.1 20.0 1.0
C A:ARG61 4.1 19.7 1.0
CA A:ASN65 4.2 17.6 1.0
CA A:ARG73 4.3 31.7 1.0
N A:ASN74 4.3 24.5 1.0
CA A:ARG61 4.3 19.2 1.0
CA A:SER60 4.4 12.7 1.0
N A:ARG61 4.4 14.6 1.0
N A:ASN65 4.4 15.5 1.0
N A:TRP62 4.5 17.7 1.0
CA A:ASN74 4.5 20.4 1.0
N A:CYS64 4.6 12.8 1.0
CB A:ASN74 4.6 20.4 1.0
O A:HOH156 4.7 23.6 1.0
CA A:CYS64 4.8 12.5 1.0
CB A:SER60 4.8 11.8 1.0
N A:SER72 4.8 38.7 1.0
CB A:THR69 4.8 23.2 1.0
CB A:ASN65 4.9 20.6 1.0
O A:THR69 4.9 27.8 1.0
OD1 A:ASN65 4.9 28.7 1.0
C A:TRP62 4.9 15.7 1.0

Reference:

S.Noguchi, K.Miyawaki, Y.Satow. Succinimide and Isoaspartate Residues in the Crystal Structures of Hen Egg-White Lysozyme Complexed with Tri-N-Acetylchitotriose. J.Mol.Biol. V. 278 231 1998.
ISSN: ISSN 0022-2836
PubMed: 9571046
DOI: 10.1006/JMBI.1998.1674
Page generated: Tue Dec 15 05:21:50 2020

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