Sodium in PDB 2pn5: Crystal Structure of TEP1R

The structure of Crystal Structure of TEP1R, PDB code: 2pn5 was solved by R.H.G.Baxter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.88 / 2.70
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	150.515, 150.515, 226.315, 90.00, 90.00, 90.00
R / Rfree (%)	23.9 / 27.5

The binding sites of Sodium atom in the Crystal Structure of TEP1R (pdb code 2pn5). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of TEP1R, PDB code: 2pn5:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of TEP1R


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 TEP1R within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1331 b:21.9 occ:1.00 N A:VAL901 3.2 35.6 1.0 OG A:SER900 3.2 33.0 1.0 OE1 A:GLN955 3.2 33.3 1.0 N A:PHE902 3.3 35.0 1.0 N A:ALA946 3.5 37.0 1.0 CA A:LYS945 3.7 36.5 1.0 O A:ALA946 3.8 37.3 1.0 CB A:PHE902 3.8 34.3 1.0 CB A:LYS945 3.9 36.1 1.0 C A:SER900 3.9 35.4 1.0 CB A:SER900 3.9 34.1 1.0 CA A:SER900 4.0 35.3 1.0 CA A:VAL901 4.0 36.1 1.0 CD A:GLN955 4.0 33.0 1.0 CG A:GLN955 4.0 32.5 1.0 C A:LYS945 4.1 37.8 1.0 C A:VAL901 4.2 35.3 1.0 CA A:PHE902 4.2 34.5 1.0 CG2 A:VAL901 4.2 35.9 1.0 CD2 A:LEU964 4.3 32.7 1.0 CB A:VAL901 4.4 36.9 1.0 CG1 A:VAL901 4.4 37.1 1.0 CA A:ALA946 4.5 38.0 1.0 C A:ALA946 4.6 37.9 1.0 O A:HOH1417 4.6 37.7 1.0 CD1 A:LEU964 4.7 30.6 1.0 CB A:GLN955 4.7 34.6 1.0 N A:LYS945 4.9 37.5 1.0 O A:SER900 4.9 35.4 1.0 CB A:ALA946 4.9 37.9 1.0 OH A:TYR950 5.0 32.3 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of TEP1R


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 TEP1R within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1332 b:44.0 occ:1.00 OE1 A:GLU1040 3.1 50.0 1.0 OE2 A:GLU1040 3.3 49.2 1.0 CD A:GLU1040 3.6 48.7 1.0 ND2 A:ASN1077 3.7 45.5 1.0 NZ A:LYS1038 3.8 66.1 1.0 NE2 A:GLN1078 3.9 41.1 1.0 CD A:LYS1038 4.2 62.0 1.0 CD1 A:TRP1074 4.4 36.5 1.0 NE1 A:TRP1074 4.5 36.1 1.0 CE A:LYS1038 4.5 66.0 1.0 CG A:ASN1077 4.9 45.2 1.0 CD A:GLN1078 4.9 40.3 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of TEP1R


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of TEP1R within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1333 b:53.6 occ:1.00 N A:GLN1302 3.0 75.3 1.0 N A:LYS1276 3.2 45.5 1.0 NZ A:LYS1276 3.2 44.9 1.0 N A:LEU1275 3.3 45.4 1.0 O A:GLN1302 3.3 78.2 1.0 CA A:LYS1301 3.3 74.1 1.0 CG A:LYS1276 3.4 43.2 1.0 C A:LYS1301 3.5 74.9 1.0 CG A:LYS1301 3.6 76.3 1.0 CB A:LYS1301 3.6 75.3 1.0 C A:ALA1274 3.8 44.6 1.0 O A:VAL1273 3.8 40.5 1.0 CA A:ALA1274 3.8 43.5 1.0 CA A:GLN1302 3.9 76.2 1.0 C A:GLN1302 4.0 77.9 1.0 CA A:LEU1275 4.0 46.3 1.0 CB A:GLN1302 4.1 75.4 1.0 C A:LEU1275 4.1 46.0 1.0 CB A:LYS1276 4.2 44.2 1.0 CA A:LYS1276 4.2 45.2 1.0 CE A:LYS1276 4.2 43.1 1.0 CD A:LYS1276 4.2 41.7 1.0 N A:LYS1301 4.6 72.1 1.0 C A:VAL1273 4.6 41.0 1.0 O A:LYS1301 4.6 75.8 1.0 CD A:LYS1301 4.6 79.1 1.0 O A:ASP1300 4.6 69.4 1.0 N A:ALA1274 4.6 42.3 1.0 O A:ALA1274 4.7 44.9 1.0 CB A:ALA1274 4.8 43.9 1.0 O A:LYS1276 4.9 46.5 1.0 CG A:GLN1302 5.0 75.0 1.0

R.H.G.Baxter, C.I.Chang, Y.Chelliah, S.Blandin, E.A.Levashina, J.Deisenhofer. Structural Basis For Conserved Complement Factor-Like Function in the Antimalarial Protein TEP1 Proc.Natl.Acad.Sci.Usa V. 104 11615 2007.
ISSN: ISSN 0027-8424
PubMed: 17606907
DOI: 10.1073/PNAS.0704967104