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Sodium in PDB 4aci: Structure of the C. Glutamicum Acnr Crystal Form II

Protein crystallography data

The structure of Structure of the C. Glutamicum Acnr Crystal Form II, PDB code: 4aci was solved by J.Garcia-Nafria, M.Baumgart, J.P.Turkenburg, A.J.Wilkinson, M.Bott, K.S.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 72.79 / 1.65
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 34.210, 72.790, 145.570, 90.00, 90.00, 90.00
R / Rfree (%) 14.154 / 20.488

Other elements in 4aci:

The structure of Structure of the C. Glutamicum Acnr Crystal Form II also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of the C. Glutamicum Acnr Crystal Form II (pdb code 4aci). 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 Structure of the C. Glutamicum Acnr Crystal Form II, PDB code: 4aci:

Sodium binding site 1 out of 1 in 4aci

Go back to Sodium Binding Sites List in 4aci
Sodium binding site 1 out of 1 in the Structure of the C. Glutamicum Acnr Crystal Form II


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the C. Glutamicum Acnr Crystal Form II within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na1188

b:19.4
occ:1.00
O B:HOH2141 2.7 17.3 1.0
O B:HOH2052 2.7 21.4 1.0
O B:ALA126 2.8 10.0 1.0
CA B:SER75 3.4 10.1 1.0
N B:ARG130 3.4 9.3 1.0
CB B:SER75 3.5 13.6 1.0
CG1 B:VAL129 3.6 9.2 1.0
C B:ALA126 3.6 8.9 1.0
CB B:VAL129 3.7 8.5 1.0
CA B:ALA126 3.7 9.0 1.0
CB B:ARG130 3.8 9.6 1.0
N B:SER75 3.9 9.8 1.0
CA B:ARG130 3.9 9.8 1.0
CB B:ALA126 3.9 10.9 1.0
C B:VAL129 4.0 7.7 1.0
O B:HOH2106 4.2 25.3 1.0
CA B:VAL129 4.4 8.2 1.0
C B:VAL74 4.4 8.3 1.0
NH1 B:ARG133 4.4 15.5 0.5
CG1 B:VAL74 4.4 9.6 1.0
O B:VAL74 4.4 8.9 1.0
C B:SER75 4.6 8.8 1.0
O B:HOH2104 4.6 18.2 1.0
O B:HOH2049 4.7 21.8 1.0
O B:SER75 4.8 12.3 1.0
OG B:SER75 4.8 16.1 1.0
N B:VAL129 4.8 9.3 1.0
CG2 B:VAL129 4.8 10.7 1.0
N B:VAL127 4.9 11.6 1.0
O B:VAL129 4.9 9.0 1.0
O B:ALA71 5.0 11.6 1.0
CG B:ARG130 5.0 9.5 1.0

Reference:

J.Garcia-Nafria, M.Baumgart, J.P.Turkenburg, A.J.Wilkinson, M.Bott, K.S.Wilson. Crystal and Solution Studies Reveal That the Transcriptional Regulator Acnr of Corynebacterium Glutamicum Is Regulated By Citrate:MG2+ Binding to A Non- Canonical Pocket. J.Biol.Chem. V. 288 15800 2013.
ISSN: ISSN 0021-9258
PubMed: 23589369
DOI: 10.1074/JBC.M113.462440
Page generated: Tue Dec 15 06:32:40 2020

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