Sodium in PDB 3fp4: Crystal Structure of TOM71 Complexed with SSA1 C-Terminal Fragment

The structure of Crystal Structure of TOM71 Complexed with SSA1 C-Terminal Fragment, PDB code: 3fp4 was solved by J.Li, X.Qian, J.Hu, B.Sha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 2.14
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	47.820, 116.025, 150.649, 90.00, 90.00, 90.00
R / Rfree (%)	20.8 / 26.1

The structure of Crystal Structure of TOM71 Complexed with SSA1 C-Terminal Fragment also contains other interesting chemical elements:

Chlorine

(Cl)

11 atoms

The binding sites of Sodium atom in the Crystal Structure of TOM71 Complexed with SSA1 C-Terminal Fragment (pdb code 3fp4). 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 TOM71 Complexed with SSA1 C-Terminal Fragment, PDB code: 3fp4:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of TOM71 Complexed with SSA1 C-Terminal Fragment


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 TOM71 Complexed with SSA1 C-Terminal Fragment within 5.0Å range: probe atom residue distance (Å) B Occ A:Na643 b:17.3 occ:1.00 O A:LEU252 2.6 39.3 1.0 C A:LEU252 2.7 38.8 1.0 O A:GLU250 3.7 35.0 1.0 CA A:LEU252 4.1 38.2 0.5 CA A:LEU252 4.1 38.2 0.5 O A:ASN249 4.3 31.0 1.0 O A:ASN251 4.4 37.9 1.0 N A:LEU252 4.5 37.7 1.0 C A:ASN251 4.5 37.1 1.0 C A:GLU250 4.6 34.3 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of TOM71 Complexed with SSA1 C-Terminal Fragment


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 TOM71 Complexed with SSA1 C-Terminal Fragment within 5.0Å range: probe atom residue distance (Å) B Occ A:Na644 b:4.3 occ:1.00 OG A:SER563 3.0 12.1 1.0 O A:HOH747 3.2 2.0 1.0 OG A:SER265 3.5 3.2 0.5 CB A:SER563 3.8 14.4 1.0 OE1 A:GLN565 4.0 33.9 1.0 CB A:SER265 4.0 9.9 0.5 CB A:SER265 4.0 11.8 0.5 OG A:SER265 4.1 14.6 0.5 CB A:THR267 4.1 13.4 1.0 CD1 A:ILE524 4.3 14.7 1.0 OG A:SER268 4.3 15.6 0.5 CD1 A:ILE520 4.4 14.2 1.0 CB A:GLN565 4.5 21.6 1.0 CG2 A:THR267 4.5 10.7 1.0 CG1 A:ILE520 4.5 10.9 1.0 CA A:SER563 4.6 16.1 1.0 O A:HOH746 4.6 2.0 1.0 OG1 A:THR267 4.6 10.7 1.0 CD A:GLN565 4.9 33.5 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of TOM71 Complexed with SSA1 C-Terminal Fragment


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 TOM71 Complexed with SSA1 C-Terminal Fragment within 5.0Å range: probe atom residue distance (Å) B Occ A:Na645 b:2.0 occ:1.00 O A:HOH879 2.3 2.0 1.0 O A:HOH877 2.8 2.0 1.0 O A:LYS515 3.4 18.8 1.0 C A:LYS515 3.6 19.7 1.0 N A:ILE516 3.7 17.6 1.0 CA A:ILE516 4.0 17.3 1.0 CG1 A:ILE516 4.0 18.2 1.0 O A:GLN513 4.1 23.6 1.0 OE2 A:GLU510 4.3 19.9 1.0 O A:GLU514 4.5 27.9 1.0 O A:HOH807 4.5 2.0 1.0 O A:GLU510 4.5 13.7 1.0 CA A:LYS515 4.5 22.1 1.0 CB A:ILE516 4.6 17.5 1.0 C A:GLU514 4.6 26.1 1.0 N A:LYS515 4.7 24.8 1.0 C A:GLN513 4.9 23.6 1.0 CD A:GLU510 5.0 18.3 1.0

J.Li, X.Qian, J.Hu, B.Sha. Molecular Chaperone HSP70/HSP90 Prepares the Mitochondrial Outer Membrane Translocon Receptor TOM71 For Preprotein Loading. J.Biol.Chem. V. 284 23852 2009.
ISSN: ISSN 0021-9258
PubMed: 19581297
DOI: 10.1074/JBC.M109.023986