Calcium in PDB 2ygp: Wif Domain-Egf-Like Domain 1 MET77TRP of Human Wnt Inhibitory Factor 1 in Complex with 1,2-Dipalmitoylphosphatidylcholine

The structure of Wif Domain-Egf-Like Domain 1 MET77TRP of Human Wnt Inhibitory Factor 1 in Complex with 1,2-Dipalmitoylphosphatidylcholine, PDB code: 2ygp was solved by T.Malinauskas, A.R.Aricescu, W.Lu, C.Siebold, E.Y.Jones, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.316 / 2.22
Space group	C 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	50.760, 134.241, 60.193, 90.00, 90.00, 90.00
R / Rfree (%)	18.55 / 22.89

The binding sites of Calcium atom in the Wif Domain-Egf-Like Domain 1 MET77TRP of Human Wnt Inhibitory Factor 1 in Complex with 1,2-Dipalmitoylphosphatidylcholine (pdb code 2ygp). 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 Wif Domain-Egf-Like Domain 1 MET77TRP of Human Wnt Inhibitory Factor 1 in Complex with 1,2-Dipalmitoylphosphatidylcholine, PDB code: 2ygp:

Calcium binding site 1 out of 1 in the Wif Domain-Egf-Like Domain 1 MET77TRP of Human Wnt Inhibitory Factor 1 in Complex with 1,2-Dipalmitoylphosphatidylcholine


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Wif Domain-Egf-Like Domain 1 MET77TRP of Human Wnt Inhibitory Factor 1 in Complex with 1,2-Dipalmitoylphosphatidylcholine within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1215 b:0.5 occ:1.00 CB A:CYS192 3.5 0.5 1.0 N A:CYS182 3.8 0.7 1.0 CA A:GLY185 3.8 0.5 1.0 CB A:CYS182 3.9 0.2 1.0 N A:CYS186 3.9 0.2 1.0 O A:HOH2104 3.9 71.3 1.0 O A:HOH2105 4.1 94.9 1.0 CA A:CYS182 4.4 0.8 1.0 C A:GLY185 4.4 0.9 1.0 SG A:CYS192 4.4 88.4 1.0 O A:CYS182 4.5 0.7 1.0 SG A:CYS186 4.5 88.0 1.0 O A:ALA180 4.6 68.9 1.0 CA A:GLU181 4.7 0.7 1.0 CA A:CYS192 4.7 0.3 1.0 N A:CYS192 4.7 0.9 1.0 C A:GLU181 4.7 0.7 1.0 N A:GLY185 4.8 0.0 1.0 SG A:CYS182 4.8 100.0 1.0 CB A:CYS186 4.9 0.7 1.0 C A:CYS182 4.9 0.3 1.0

T.Malinauskas, A.R.Aricescu, W.Lu, C.Siebold, E.Y.Jones. Modular Mechanism of Wnt Signaling Inhibition By Wnt Inhibitory Factor 1 Nat.Struct.Mol.Biol. V. 18 886 2011.
ISSN: ISSN 1545-9993
PubMed: 21743455
DOI: 10.1038/NSMB.2081