Sodium in PDB 7v6j: Lccomt in Complex with Sam

The structure of Lccomt in Complex with Sam, PDB code: 7v6j was solved by Y.Yu, Q.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.70 / 1.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	46.96, 60.124, 132.192, 90, 96.07, 90
R / Rfree (%)	17.1 / 21.1

The binding sites of Sodium atom in the Lccomt in Complex with Sam (pdb code 7v6j). 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 Lccomt in Complex with Sam, PDB code: 7v6j:

Sodium binding site 1 out of 1 in the Lccomt in Complex with Sam


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Lccomt in Complex with Sam within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1002 b:30.0 occ:1.00 H B:LEU31 2.1 15.2 1.0 HA B:ALA28 2.7 10.8 1.0 HB B:VAL30 2.8 18.1 1.0 N B:LEU31 2.9 12.6 1.0 HE1 A:HIS314 2.9 20.2 1.0 HB2 B:LEU31 3.0 14.0 1.0 O B:HOH1199 3.0 27.7 1.0 CE1 A:HIS314 3.1 16.8 1.0 H B:VAL30 3.1 13.9 1.0 O B:ALA28 3.1 13.4 1.0 O B:SER27 3.2 10.7 1.0 NE2 A:HIS314 3.2 12.9 1.0 HB3 B:LEU31 3.2 14.0 1.0 C B:ALA28 3.4 13.7 1.0 CB B:LEU31 3.4 11.6 1.0 CA B:ALA28 3.4 9.0 1.0 N B:VAL30 3.5 11.6 1.0 CB B:VAL30 3.7 15.1 1.0 CA B:LEU31 3.7 13.9 1.0 C B:VAL30 3.7 12.4 1.0 CA B:VAL30 3.8 11.3 1.0 ND1 A:HIS314 3.9 15.1 1.0 HD2 B:PRO32 3.9 13.6 1.0 OH B:TYR86 3.9 14.5 1.0 CD2 A:HIS314 4.1 12.7 1.0 C B:SER27 4.1 11.7 1.0 O B:HOH1159 4.1 28.8 1.0 HA B:LEU31 4.1 16.8 1.0 N B:SER29 4.2 11.8 1.0 N B:ALA28 4.3 10.1 1.0 C B:SER29 4.3 9.9 1.0 HD11 B:LEU82 4.3 15.6 1.0 HG12 B:VAL30 4.3 25.0 1.0 HH B:TYR86 4.3 17.4 1.0 CG A:HIS314 4.4 11.7 1.0 HB1 B:ALA28 4.4 15.8 1.0 HG23 B:VAL30 4.4 16.8 1.0 HE2 B:TYR86 4.4 11.7 1.0 CZ B:TYR86 4.4 12.5 1.0 CB B:ALA28 4.5 13.2 1.0 CG1 B:VAL30 4.6 20.8 1.0 HD2 A:HIS314 4.6 15.2 1.0 CG2 B:VAL30 4.6 13.9 1.0 CE2 B:TYR86 4.6 9.7 1.0 CD B:PRO32 4.7 11.3 1.0 HD3 B:PRO32 4.7 13.6 1.0 H B:SER29 4.7 14.2 1.0 HD22 B:LEU31 4.7 20.2 1.0 HA B:VAL30 4.8 13.6 1.0 CA B:SER29 4.8 11.0 1.0 CG B:LEU31 4.9 12.1 1.0 HB2 B:ALA28 4.9 15.8 1.0 O B:VAL30 4.9 12.9 1.0 HG B:SER27 4.9 13.3 1.0 HG21 B:VAL30 4.9 16.8 1.0 HG11 B:VAL30 5.0 25.0 1.0 HD21 B:LEU82 5.0 20.8 1.0 C B:LEU31 5.0 11.0 1.0

S.Song, A.Chen, J.Zhu, Z.Yan, Q.An, J.Zhou, H.Liao, Y.Yu. Structure Basis of the Caffeic Acid O-Methyltransferase From Ligusiticum Chuanxiong to Understand Its Selective Mechanism. Int.J.Biol.Macromol. V. 194 317 2022.
ISSN: ISSN 0141-8130
PubMed: 34838855
DOI: 10.1016/J.IJBIOMAC.2021.11.135