Sodium in PDB 2qmw: The Crystal Structure of the Prephenate Dehydratase (Pdt) From Staphylococcus Aureus Subsp. Aureus MU50

The structure of The Crystal Structure of the Prephenate Dehydratase (Pdt) From Staphylococcus Aureus Subsp. Aureus MU50, PDB code: 2qmw was solved by K.Tan, R.Zhang, H.Li, M.Gu, A.Joachimiak, Midwest Center For Structuralgenomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.88 / 2.30
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	60.859, 87.406, 107.744, 90.00, 90.00, 90.00
R / Rfree (%)	22.5 / 27.6

The binding sites of Sodium atom in the The Crystal Structure of the Prephenate Dehydratase (Pdt) From Staphylococcus Aureus Subsp. Aureus MU50 (pdb code 2qmw). 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 The Crystal Structure of the Prephenate Dehydratase (Pdt) From Staphylococcus Aureus Subsp. Aureus MU50, PDB code: 2qmw:

Sodium binding site 1 out of 1 in the The Crystal Structure of the Prephenate Dehydratase (Pdt) From Staphylococcus Aureus Subsp. Aureus MU50


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Crystal Structure of the Prephenate Dehydratase (Pdt) From Staphylococcus Aureus Subsp. Aureus MU50 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:42.8 occ:1.00 OD1 A:ASN84 2.2 30.3 1.0 O A:HOH389 2.3 33.9 1.0 O A:HOH383 2.4 30.4 1.0 O A:PRO164 2.6 42.2 1.0 O A:HOH363 2.8 46.0 1.0 CG A:ASN84 3.2 35.5 1.0 C A:PRO164 3.5 41.6 1.0 ND2 A:ASN84 3.5 36.6 1.0 O A:ILE83 4.0 34.6 1.0 CA A:PRO164 4.1 41.1 1.0 OE1 A:GLU161 4.1 42.4 1.0 CB A:ASP82 4.3 39.1 1.0 N A:HIS165 4.3 42.2 1.0 N A:ASN166 4.3 38.4 1.0 O A:HOH353 4.4 51.2 1.0 O A:TYR163 4.4 36.3 1.0 O A:ASN166 4.4 38.1 1.0 C A:ILE83 4.5 34.6 1.0 CA A:HIS165 4.5 42.2 1.0 CG A:ASP82 4.5 45.1 1.0 CB A:ASN84 4.6 34.0 1.0 N A:ILE83 4.6 35.3 1.0 CG A:GLU161 4.8 45.0 1.0 CD A:GLU161 4.8 39.9 1.0 OD1 A:ASP82 4.9 46.7 1.0 CA A:ASP82 4.9 38.4 1.0 OD2 A:ASP82 4.9 54.6 1.0 CA A:ASN84 4.9 33.7 1.0 C A:HIS165 4.9 40.8 1.0 N A:ASN84 4.9 32.7 1.0 C A:ASP82 5.0 36.2 1.0

K.Tan, H.Li, R.Zhang, M.Gu, S.T.Clancy, A.Joachimiak. Structures of Open (R) and Close (T) States of Prephenate Dehydratase (Pdt) - Implication of Allosteric Regulation By L-Phenylalanine. J.Struct.Biol. V. 162 94 2008.
ISSN: ISSN 1047-8477
PubMed: 18171624
DOI: 10.1016/J.JSB.2007.11.009