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Sodium in PDB 4pig: Crystal Structure of the Ubiquitin K11S Mutant

Protein crystallography data

The structure of Crystal Structure of the Ubiquitin K11S Mutant, PDB code: 4pig was solved by P.J.Loll, P.J.Xu, J.Schmidt, S.L.Melideo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.76 / 1.95
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.700, 61.820, 91.500, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / 21.8

Other elements in 4pig:

The structure of Crystal Structure of the Ubiquitin K11S Mutant also contains other interesting chemical elements:

Chlorine (Cl) 8 atoms
Calcium (Ca) 4 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Ubiquitin K11S Mutant (pdb code 4pig). 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 Crystal Structure of the Ubiquitin K11S Mutant, PDB code: 4pig:

Sodium binding site 1 out of 1 in 4pig

Go back to Sodium Binding Sites List in 4pig
Sodium binding site 1 out of 1 in the Crystal Structure of the Ubiquitin K11S Mutant


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the Ubiquitin K11S Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na102

b:25.2
occ:1.00
OH B:TYR59 2.6 10.8 1.0
CZ B:TYR59 3.3 9.1 1.0
CE1 B:TYR59 3.4 7.5 1.0
CG B:GLU51 3.9 17.2 1.0
CG B:ARG54 4.3 16.4 1.0
CB B:GLU51 4.4 9.9 1.0
CE2 B:TYR59 4.5 8.4 1.0
CD1 B:TYR59 4.6 4.7 1.0
NE B:ARG54 4.7 14.3 1.0
CD B:ARG54 4.8 13.9 1.0
N B:GLU51 4.8 9.4 1.0

Reference:

P.J.Loll, P.Xu, J.T.Schmidt, S.L.Melideo. Enhancing Ubiquitin Crystallization Through Surface-Entropy Reduction. Acta Crystallogr.,Sect.F V. 70 1434 2014.
ISSN: ESSN 2053-230X
PubMed: 25286958
DOI: 10.1107/S2053230X14019244
Page generated: Tue Dec 15 06:58:17 2020

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