Zinc in PDB 5xn9: Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample)

The structure of Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample), PDB code: 5xn9 was solved by Y.Fukuda, Y.Miura, E.Mizohata, T.Inoue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.26 / 1.45
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	53.866, 57.505, 111.723, 90.00, 90.00, 90.00
R / Rfree (%)	14.5 / 17.2

The structure of Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample) also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Zinc atom in the Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample) (pdb code 5xn9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample), PDB code: 5xn9:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn202 b:16.8 occ:1.00 NE2 A:HIS138 1.9 13.3 0.3 OE2 A:GLU127 2.0 17.9 1.0 NE2 B:HIS138 2.0 16.6 1.0 OE2 B:GLU127 2.0 17.2 1.0 NE2 A:HIS138 2.0 21.3 0.7 CD A:GLU127 2.7 19.6 1.0 OE1 A:GLU127 2.7 19.3 1.0 CD B:GLU127 2.8 15.8 1.0 CD2 A:HIS138 2.8 14.3 0.3 OE1 B:GLU127 2.9 16.6 1.0 CE1 B:HIS138 2.9 22.6 1.0 CE1 A:HIS138 3.0 22.8 0.7 CE1 A:HIS138 3.0 15.3 0.3 CD2 B:HIS138 3.0 17.1 1.0 CD2 A:HIS138 3.1 19.8 0.7 CG1 B:VAL136 3.8 20.8 1.0 CG A:HIS138 4.0 15.8 0.3 ND1 B:HIS138 4.0 23.6 1.0 ND1 A:HIS138 4.1 16.4 0.3 ND1 A:HIS138 4.1 22.9 0.7 CG B:HIS138 4.1 17.6 1.0 CG1 A:VAL136 4.1 25.4 1.0 CG A:GLU127 4.1 21.0 1.0 CG A:HIS138 4.2 20.1 0.7 CG B:GLU127 4.2 19.1 1.0 NE2 B:HIS129 4.2 18.9 1.0 CE1 B:HIS129 4.8 19.2 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn202 b:21.0 occ:0.86 OE1 B:GLU77 2.0 21.7 1.0 N B:SER30 2.0 25.1 1.0 OG B:SER30 2.9 29.6 1.0 CD B:GLU77 2.9 20.9 1.0 CA B:SER30 3.0 23.2 1.0 OE2 B:GLU77 3.2 23.2 1.0 CB B:SER30 3.5 27.1 1.0 O B:HOH389 4.3 43.0 1.0 CG B:GLU77 4.3 21.2 1.0 C B:SER30 4.3 24.9 1.0 CB B:GLU77 4.7 22.4 1.0 CA B:GLU77 4.8 20.4 1.0 O B:SER30 4.9 28.7 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn203 b:24.9 occ:1.00 NE2 B:HIS82 2.0 26.8 1.0 NE2 B:HIS80 2.1 22.9 1.0 ND2 B:ASN97 2.7 36.3 0.5 CE1 B:HIS82 2.9 33.4 1.0 CE1 B:HIS80 3.0 23.1 1.0 CD2 B:HIS82 3.0 23.9 1.0 CD2 B:HIS80 3.1 23.2 1.0 CG B:ASN97 3.9 35.4 0.5 ND2 B:ASN97 4.0 28.9 0.5 ND1 B:HIS82 4.0 31.1 1.0 CB B:GLU77 4.1 22.4 1.0 CG B:HIS82 4.1 24.8 1.0 ND1 B:HIS80 4.1 23.3 1.0 CG B:HIS80 4.2 21.6 1.0 OD1 B:ASN97 4.3 38.8 0.5 CG B:GLU77 4.3 21.2 1.0 CG B:ASN97 4.6 28.7 0.5

Zinc binding site 4 out of 4 in the Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of A Secretary Abundant Heat Soluble (Sahs) Protein From Ramazzottius Varieornatus (From Monomer Sample) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn204 b:18.8 occ:0.83 NE2 A:HIS129 2.0 21.9 1.0 ND1 B:HIS129 2.0 18.9 1.0 CL B:CL205 2.2 21.4 0.9 CL A:CL203 2.3 27.1 0.8 CE1 B:HIS129 3.0 19.2 1.0 CD2 A:HIS129 3.0 20.9 1.0 CE1 A:HIS129 3.0 23.9 1.0 CG B:HIS129 3.0 17.9 1.0 CB B:HIS129 3.4 19.5 1.0 CG2 B:VAL136 4.0 20.9 1.0 ND1 A:HIS129 4.1 22.5 1.0 NE2 B:HIS129 4.1 18.9 1.0 CG A:HIS129 4.1 21.5 1.0 CD2 B:HIS129 4.2 19.5 1.0 O B:HOH325 4.2 56.8 1.0 O A:HOH364 4.2 60.1 1.0 CA B:HIS129 4.6 16.5 1.0 CG2 A:VAL136 5.0 25.2 1.0

Y.Fukuda, Y.Miura, E.Mizohata, T.Inoue. Structural Insights Into A Secretory Abundant Heat-Soluble Protein From An Anhydrobiotic Tardigrade, Ramazzottius Varieornatus Febs Lett. V. 591 2458 2017.
ISSN: ISSN 1873-3468
PubMed: 28703282
DOI: 10.1002/1873-3468.12752