Sodium in PDB 6hrl: Crystal Structure of the Kelch Domain of Human KLHL17

The structure of Crystal Structure of the Kelch Domain of Human KLHL17, PDB code: 6hrl was solved by Z.Chen, E.Williams, F.J.Sorrell, J.A.Newman, L.Shrestha, N.Burgess-Brown, F.Von Delft, F.Arrowsmith, C.H.Edwards, C.Bountra, A.N.Bullock, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	62.50 / 2.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	67.353, 118.774, 124.991, 90.00, 90.00, 90.00
R / Rfree (%)	22.7 / 26.9

The structure of Crystal Structure of the Kelch Domain of Human KLHL17 also contains other interesting chemical elements:

Chlorine

(Cl)

11 atoms

The binding sites of Sodium atom in the Crystal Structure of the Kelch Domain of Human KLHL17 (pdb code 6hrl). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal Structure of the Kelch Domain of Human KLHL17, PDB code: 6hrl:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of the Kelch Domain of Human KLHL17


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 the Kelch Domain of Human KLHL17 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na713 b:40.0 occ:1.00 NH2 A:ARG453 3.4 40.7 1.0 O A:SER463 3.5 40.1 1.0 NE A:ARG453 3.9 39.8 1.0 ND2 A:ASN506 4.1 41.4 1.0 CZ A:ARG453 4.1 40.5 1.0 CG A:ASN506 4.2 41.3 1.0 OD1 A:ASN506 4.3 41.0 1.0 CG1 A:VAL464 4.3 38.4 1.0 CA A:VAL464 4.3 39.5 1.0 CG2 A:THR462 4.5 41.4 1.0 C A:SER463 4.6 40.1 1.0 CB A:VAL464 4.6 38.9 1.0 OH A:TYR501 4.8 40.5 1.0 O A:HOH886 4.9 34.2 1.0 N A:VAL464 4.9 39.3 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of the Kelch Domain of Human KLHL17


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 the Kelch Domain of Human KLHL17 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na714 b:57.4 occ:1.00 OH A:TYR578 3.3 49.9 1.0 NE1 A:TRP576 3.5 49.3 1.0 CD1 A:TRP576 3.5 49.2 1.0 NZ A:LYS594 3.7 41.5 1.0 CE2 A:TRP576 3.7 48.4 1.0 CG A:TRP576 3.8 48.0 1.0 CD2 A:TRP576 3.9 47.6 1.0 CD A:LYS594 4.3 40.9 1.0 CZ2 A:TRP576 4.4 48.0 1.0 CZ A:TYR578 4.4 47.7 1.0 OG1 A:THR362 4.5 58.1 1.0 CE A:LYS594 4.6 41.5 1.0 CB A:TRP576 4.6 46.8 1.0 CE3 A:TRP576 4.7 46.0 1.0 OD2 A:ASP574 4.7 55.1 1.0 CE1 A:TYR578 4.8 45.2 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of the Kelch Domain of Human KLHL17


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 the Kelch Domain of Human KLHL17 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na715 b:45.5 occ:1.00 O A:PRO550 3.9 44.2 1.0 CA A:GLY553 4.4 40.4 1.0 N A:GLY553 4.6 42.6 1.0 O A:ALA552 4.8 41.3 1.0 O A:LYS551 4.8 50.5 1.0 C A:ALA552 4.9 41.8 1.0 O A:HOH819 4.9 39.7 1.0 OH A:TYR548 4.9 35.1 1.0

Sodium binding site 4 out of 4 in the Crystal Structure of the Kelch Domain of Human KLHL17


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of the Kelch Domain of Human KLHL17 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na708 b:49.7 occ:1.00 O B:ALA552 3.6 55.3 1.0 O B:GLY553 4.4 53.2 1.0 C B:GLY553 4.8 53.6 1.0 C B:ALA552 4.8 54.6 1.0 O B:HOH885 5.0 59.3 1.0

Z.Chen, E.Williams, F.J.Sorrell, J.A.Newman, L.Shrestha, N.Burgess-Brown, F.Von Delft, F.Arrowsmith, C.H.Edwards, C.Bountra, A.N.Bullock. Crystal Structure of the Kelch Domain of Human KLHL17 To Be Published.