Aluminium in PDB 6jim: Viral Helicase Protein

The structure of Viral Helicase Protein, PDB code: 6jim was solved by Y.S.Law, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.32 / 2.00
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	53.888, 53.905, 100.718, 96.93, 94.07, 97.04
R / Rfree (%)	17.7 / 21.5

The structure of Viral Helicase Protein also contains other interesting chemical elements:

Fluorine	(F)	8 atoms
Magnesium	(Mg)	2 atoms
Chlorine	(Cl)	5 atoms

The binding sites of Aluminium atom in the Viral Helicase Protein (pdb code 6jim). This binding sites where shown within 5.0 Angstroms radius around Aluminium atom.
In total 2 binding sites of Aluminium where determined in the Viral Helicase Protein, PDB code: 6jim:
Jump to Aluminium binding site number: 1; 2;

Aluminium binding site 1 out of 2 in the Viral Helicase Protein


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 1 of Viral Helicase Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Al2003 b:25.5 occ:1.00 F A:F2005 1.7 29.0 1.0 F A:F2007 1.7 27.9 1.0 F A:F2004 1.8 28.4 1.0 O1B A:ADP2001 1.8 27.4 1.0 F A:F2006 1.9 26.8 1.0 O A:HOH2126 2.0 25.3 1.0 PB A:ADP2001 3.1 27.8 1.0 MG A:MG2002 3.5 29.2 1.0 O3B A:ADP2001 3.6 28.1 1.0 O A:HOH2107 3.8 27.5 1.0 OE2 A:GLU253 3.8 28.3 1.0 N A:GLY189 3.9 27.4 1.0 NH2 A:ARG312 3.9 33.4 1.0 NE2 A:GLN283 4.0 27.2 1.0 O A:HOH2139 4.0 32.2 1.0 NH2 A:ARG416 4.0 28.4 1.0 OE1 A:GLN283 4.0 30.2 1.0 O A:HOH2106 4.0 28.9 1.0 NH1 A:ARG416 4.1 24.7 1.0 O2B A:ADP2001 4.1 29.2 1.0 NH1 A:ARG312 4.2 30.1 1.0 O3A A:ADP2001 4.2 28.2 1.0 CA A:GLY384 4.2 25.1 1.0 NZ A:LYS192 4.2 23.8 1.0 CA A:PRO188 4.4 31.8 1.0 O A:HOH2123 4.4 26.5 1.0 CD A:GLN283 4.4 33.7 1.0 CZ A:ARG416 4.5 29.9 1.0 CZ A:ARG312 4.5 34.0 1.0 N A:GLY384 4.6 26.2 1.0 C A:PRO188 4.7 29.7 1.0 CA A:GLY189 4.8 25.3 1.0 CB A:PRO188 4.8 25.7 1.0 C A:GLY384 4.9 33.7 1.0 O A:GLY384 4.9 34.3 1.0 CE A:LYS192 4.9 28.2 1.0 CD A:GLU253 4.9 34.4 1.0 O1A A:ADP2001 5.0 30.5 1.0

Aluminium binding site 2 out of 2 in the Viral Helicase Protein


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 2 of Viral Helicase Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Al2003 b:28.6 occ:1.00 F B:F2004 1.7 29.8 1.0 F B:F2006 1.8 30.4 1.0 F B:F2007 1.8 29.4 1.0 O3B B:ADP2001 1.9 27.5 1.0 F B:F2005 1.9 30.3 1.0 O B:HOH2113 2.1 26.3 1.0 PB B:ADP2001 3.1 29.2 1.0 MG B:MG2002 3.5 26.5 1.0 O1B B:ADP2001 3.5 25.0 1.0 O B:HOH2114 3.8 24.9 1.0 NH2 B:ARG312 3.8 32.9 1.0 N B:GLY189 3.9 30.9 1.0 OE2 B:GLU253 3.9 35.1 1.0 O B:HOH2128 3.9 33.5 1.0 NH2 B:ARG416 4.0 26.2 1.0 OE1 B:GLN283 4.0 32.7 1.0 NH1 B:ARG416 4.0 30.8 1.0 NE2 B:GLN283 4.0 25.6 1.0 O2B B:ADP2001 4.1 33.8 1.0 NH1 B:ARG312 4.2 33.3 1.0 O3A B:ADP2001 4.2 30.6 1.0 O B:HOH2136 4.2 30.9 1.0 CA B:GLY384 4.2 25.1 1.0 NZ B:LYS192 4.3 30.2 1.0 O B:HOH2117 4.3 28.2 1.0 CA B:PRO188 4.3 31.4 1.0 CD B:GLN283 4.4 32.5 1.0 CZ B:ARG416 4.5 31.3 1.0 CZ B:ARG312 4.5 38.6 1.0 N B:GLY384 4.5 28.3 1.0 C B:PRO188 4.7 34.4 1.0 CA B:GLY189 4.8 28.1 1.0 O B:GLY384 4.8 32.4 1.0 C B:GLY384 4.8 32.2 1.0 CB B:PRO188 4.9 31.2 1.0 O2A B:ADP2001 4.9 39.0 1.0 CE B:LYS192 4.9 27.8 1.0 CD B:GLU253 5.0 30.5 1.0

Y.S.Law, A.Utt, Y.B.Tan, J.Zheng, S.Wang, M.W.Chen, P.R.Griffin, A.Merits, D.Luo. Structural Insights Into Rna Recognition By the Chikungunya Virus NSP2 Helicase. Proc.Natl.Acad.Sci.Usa V. 116 9558 2019.
ISSN: ESSN 1091-6490
PubMed: 31000599
DOI: 10.1073/PNAS.1900656116