Calcium in PDB 6e6g: Kras G13D Bound to Gdp (K13GDP)

The structure of Kras G13D Bound to Gdp (K13GDP), PDB code: 6e6g was solved by C.W.Johnson, C.Mattos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.00 / 1.93
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	36.096, 37.829, 100.171, 90.00, 90.00, 90.00
R / Rfree (%)	16.5 / 22.5

The structure of Kras G13D Bound to Gdp (K13GDP) also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Calcium atom in the Kras G13D Bound to Gdp (K13GDP) (pdb code 6e6g). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Kras G13D Bound to Gdp (K13GDP), PDB code: 6e6g:

Calcium binding site 1 out of 1 in the Kras G13D Bound to Gdp (K13GDP)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Kras G13D Bound to Gdp (K13GDP) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca202 b:34.0 occ:1.00 OD1 A:ASN26 2.3 15.6 1.0 O A:HOH308 2.4 25.8 1.0 O A:GLN22 2.4 11.2 1.0 O A:LEU23 2.4 14.0 1.0 O A:HOH400 2.5 20.4 1.0 O A:HOH378 2.6 27.9 1.0 C A:LEU23 3.1 15.5 1.0 CA A:LEU23 3.3 13.4 1.0 CG A:ASN26 3.4 23.3 1.0 C A:GLN22 3.5 14.2 1.0 O A:HOH419 3.5 27.1 1.0 O A:HOH423 3.5 36.2 1.0 CA A:ASN26 3.8 18.2 1.0 N A:ASN26 3.8 16.8 1.0 N A:LEU23 3.8 13.4 1.0 NZ A:LYS42 4.0 19.5 1.0 CB A:ASN26 4.0 18.2 1.0 N A:ILE24 4.2 12.3 1.0 OD1 A:ASP153 4.4 27.0 1.0 ND2 A:ASN26 4.5 23.9 1.0 O A:HOH332 4.5 29.7 1.0 OE1 A:GLN22 4.5 17.8 1.0 CB A:LEU23 4.7 12.9 1.0 C A:ILE24 4.7 16.1 1.0 CA A:GLN22 4.8 15.5 1.0 O A:ILE24 4.9 15.0 1.0 CD1 A:LEU23 4.9 14.7 1.0 CA A:ILE24 4.9 14.4 1.0 N A:GLN25 4.9 14.9 1.0 C A:GLN25 5.0 18.1 1.0 CG A:LEU23 5.0 15.6 1.0

C.W.Johnson, Y.J.Lin, D.Reid, J.Parker, S.Pavlopoulos, P.Dischinger, C.Graveel, A.J.Aguirre, M.Steensma, K.M.Haigis, C.Mattos. Isoform-Specific Destabilization of the Active Site Reveals A Molecular Mechanism of Intrinsic Activation of Kras G13D. Cell Rep V. 28 1538 2019.
ISSN: ESSN 2211-1247
PubMed: 31390567
DOI: 10.1016/J.CELREP.2019.07.026