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Sodium in PDB 3tp2: Crystal Structure of the Splicing Factor CWC2 From Yeast

Protein crystallography data

The structure of Crystal Structure of the Splicing Factor CWC2 From Yeast, PDB code: 3tp2 was solved by J.Schmitzova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.26 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 58.700, 79.700, 113.800, 90.00, 90.00, 90.00
R / Rfree (%) 22.1 / 25.6

Other elements in 3tp2:

The structure of Crystal Structure of the Splicing Factor CWC2 From Yeast also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Splicing Factor CWC2 From Yeast (pdb code 3tp2). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of the Splicing Factor CWC2 From Yeast, PDB code: 3tp2:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3tp2

Go back to Sodium Binding Sites List in 3tp2
Sodium binding site 1 out of 2 in the Crystal Structure of the Splicing Factor CWC2 From Yeast


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 Splicing Factor CWC2 From Yeast within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na228

b:2.0
occ:1.00
OG1 A:THR29 3.3 30.6 1.0
CA A:GLY27 3.9 28.5 1.0
O A:HOH311 4.0 17.0 1.0
CB A:THR29 4.1 29.6 1.0
N A:LEU28 4.4 29.2 1.0
N A:THR29 4.4 28.8 1.0
C A:GLY27 4.5 28.2 1.0
N A:GLY27 4.6 27.5 1.0
CA A:THR29 4.9 28.7 1.0

Sodium binding site 2 out of 2 in 3tp2

Go back to Sodium Binding Sites List in 3tp2
Sodium binding site 2 out of 2 in the Crystal Structure of the Splicing Factor CWC2 From Yeast


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of the Splicing Factor CWC2 From Yeast within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na228

b:16.8
occ:1.00
O B:HOH285 2.7 34.2 1.0
O B:HOH296 3.1 37.6 1.0
OG1 B:THR29 3.3 34.3 1.0
CB B:THR29 4.0 32.6 1.0
N B:ALA24 4.1 30.2 1.0
CB B:ALA24 4.2 29.5 1.0
O B:ALA24 4.7 28.1 1.0
CA B:ALA24 4.7 29.2 1.0
CA B:GLY27 4.8 31.9 1.0
N B:THR29 4.8 32.0 1.0
CA B:PRO23 4.9 32.4 1.0
CB B:PRO23 4.9 32.0 1.0
CG2 B:THR29 5.0 33.7 1.0
N B:GLY27 5.0 31.2 1.0

Reference:

J.Schmitzova, N.Rasche, O.Dybkov, K.Kramer, P.Fabrizio, H.Urlaub, R.Luhrmann, V.Pena. Crystal Structure of CWC2 Reveals A Novel Architecture of A Multipartite Rna-Binding Protein. Embo J. V. 31 2222 2012.
ISSN: ISSN 0261-4189
PubMed: 22407296
DOI: 10.1038/EMBOJ.2012.58
Page generated: Tue Dec 15 06:26:29 2020

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