Sodium in PDB 4d40: High-Resolution Structure of A Type IV Pilin From Shewanella Oneidensis

The structure of High-Resolution Structure of A Type IV Pilin From Shewanella Oneidensis, PDB code: 4d40 was solved by M.Gorgel, J.Jensenulstrup, A.Boeggild, P.Nissen, T.Boesen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.713 / 1.67
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	48.910, 96.460, 110.330, 90.00, 90.00, 90.00
R / Rfree (%)	17.98 / 20.75

The binding sites of Sodium atom in the High-Resolution Structure of A Type IV Pilin From Shewanella Oneidensis (pdb code 4d40). 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 High-Resolution Structure of A Type IV Pilin From Shewanella Oneidensis, PDB code: 4d40:

Sodium binding site 1 out of 1 in the High-Resolution Structure of A Type IV Pilin From Shewanella Oneidensis


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of High-Resolution Structure of A Type IV Pilin From Shewanella Oneidensis within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1091 b:30.5 occ:1.00 O B:HOH2039 2.4 38.8 1.0 O B:PHE44 2.5 22.6 1.0 O B:HOH2037 2.5 33.8 1.0 O B:LEU36 2.6 28.6 1.0 O B:HOH2036 2.6 26.8 1.0 OD1 B:ASN38 2.6 27.5 1.0 HD22 B:ASN38 3.2 39.7 1.0 CG B:ASN38 3.3 28.0 1.0 H B:LEU36 3.3 25.2 1.0 HB2 B:LEU36 3.4 22.8 1.0 H B:PHE44 3.5 26.1 1.0 ND2 B:ASN38 3.5 33.1 1.0 C B:LEU36 3.6 27.6 1.0 C B:PHE44 3.6 18.5 1.0 HB2 B:PHE44 3.9 25.7 1.0 N B:LEU36 4.0 21.0 1.0 N B:PHE44 4.1 21.8 1.0 CA B:LEU36 4.1 21.6 1.0 CB B:LEU36 4.2 19.0 1.0 HA B:SER45 4.2 26.8 1.0 O B:HOH2038 4.2 39.7 1.0 CA B:PHE44 4.3 18.8 1.0 HD21 B:ASN38 4.3 39.7 1.0 O B:HOH2035 4.3 34.8 1.0 H B:ASN38 4.3 30.8 1.0 N B:ASN38 4.5 25.6 1.0 CB B:PHE44 4.6 21.4 1.0 CB B:ASN38 4.6 28.2 1.0 HB3 B:LEU36 4.6 22.8 1.0 N B:ALA37 4.7 22.1 1.0 N B:SER45 4.7 21.1 1.0 HA B:ASN38 4.8 34.0 1.0 HA B:ALA37 4.8 30.7 1.0 C B:ALA37 4.8 28.1 1.0 HB2 B:ASN38 4.8 33.9 1.0 O B:HOH2033 4.8 22.2 1.0 HB3 B:SER43 4.9 30.5 1.0 CA B:ASN38 4.9 28.3 1.0 HB3 B:SER45 4.9 33.5 1.0 CA B:SER45 4.9 22.4 1.0 HA B:SER43 4.9 27.1 1.0 HA B:SER35 5.0 27.1 0.6 HB3 B:PHE44 5.0 25.7 1.0 HA B:SER35 5.0 27.3 0.4

M.Gorgel, J.J.Ulstrup, A.Boggild, N.C.Jones, S.V.Hoffmann, P.Nissen, T.Boesen. High-Resolution Structure of A Type IV Pilin From the Metal- Reducing Bacterium Shewanella Oneidensis. Bmc Struct.Biol. V. 15 4 2015.
ISSN: ISSN 1472-6807
PubMed: 25886849
DOI: 10.1186/S12900-015-0031-7