Sodium in PDB 6l4p: Crystal Structure of the Complex Between the Axonemal Outer-Arm Dynein Light Chain-1 and Microtubule Binding Domain of Gamma Heavy Chain

The structure of Crystal Structure of the Complex Between the Axonemal Outer-Arm Dynein Light Chain-1 and Microtubule Binding Domain of Gamma Heavy Chain, PDB code: 6l4p was solved by A.Toda, Y.Nishikawa, H.Tanaka, T.Yagi, G.Kurisu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.69 / 1.70
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	44.550, 73.028, 94.564, 90.00, 90.00, 90.00
R / Rfree (%)	17.3 / 21.4

The binding sites of Sodium atom in the Crystal Structure of the Complex Between the Axonemal Outer-Arm Dynein Light Chain-1 and Microtubule Binding Domain of Gamma Heavy Chain (pdb code 6l4p). 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 Crystal Structure of the Complex Between the Axonemal Outer-Arm Dynein Light Chain-1 and Microtubule Binding Domain of Gamma Heavy Chain, PDB code: 6l4p:

Sodium binding site 1 out of 1 in the Crystal Structure of the Complex Between the Axonemal Outer-Arm Dynein Light Chain-1 and Microtubule Binding Domain of Gamma Heavy Chain


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 Complex Between the Axonemal Outer-Arm Dynein Light Chain-1 and Microtubule Binding Domain of Gamma Heavy Chain within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1801 b:29.5 occ:1.00 O B:HOH1934 2.6 26.9 1.0 O B:ASP1662 2.8 19.9 1.0 C B:ASP1662 3.6 19.0 1.0 N B:LEU1666 3.7 21.2 1.0 CA B:ASP1662 3.8 22.3 1.0 CB B:LEU1666 3.9 22.1 1.0 O B:SER1759 3.9 27.9 1.0 O B:HOH1904 4.0 29.4 1.0 CB B:ASP1662 4.0 22.6 1.0 CB B:ASN1665 4.1 21.5 1.0 CA B:LEU1666 4.1 21.1 1.0 CG2 B:VAL1762 4.2 6.1 0.4 C B:ASN1665 4.3 22.4 1.0 O B:HOH1956 4.6 21.3 1.0 OD1 B:ASP1662 4.6 33.3 1.0 CA B:ASN1665 4.7 24.8 1.0 CG1 B:VAL1762 4.8 12.8 0.6 CG B:ASP1662 4.8 29.3 1.0 CB B:VAL1762 4.8 16.6 0.4 N B:ILE1663 4.9 19.5 1.0 CB B:VAL1762 4.9 16.3 0.6 CG B:LEU1666 5.0 20.9 1.0

A.Toda, Y.Nishikawa, H.Tanaka, T.Yagi, G.Kurisu. The Complex of Outer-Arm Dynein Light Chain-1 and the Microtubule-Binding Domain of the Gamma Heavy Chain Shows How Axonemal Dynein Tunes Ciliary Beating. J.Biol.Chem. 2020.
ISSN: ESSN 1083-351X
PubMed: 32014992
DOI: 10.1074/JBC.RA119.011541