Calcium in PDB 6z2p: Crystal Structure of Catalytic Inactive Ogpa From Akkermansia Muciniphila in Complex with An O-Glycopeptide (Glycodrosocin) Substrate

The structure of Crystal Structure of Catalytic Inactive Ogpa From Akkermansia Muciniphila in Complex with An O-Glycopeptide (Glycodrosocin) Substrate, PDB code: 6z2p was solved by B.Trastoy, A.Naegali, I.Anso, J.Sjogren, M.E.Guerin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.87 / 2.16
Space group	I 4
Cell size a, b, c (Å), α, β, γ (°)	126.920, 126.920, 65.540, 90.00, 90.00, 90.00
R / Rfree (%)	19.9 / 23.2

The binding sites of Calcium atom in the Crystal Structure of Catalytic Inactive Ogpa From Akkermansia Muciniphila in Complex with An O-Glycopeptide (Glycodrosocin) Substrate (pdb code 6z2p). 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 Crystal Structure of Catalytic Inactive Ogpa From Akkermansia Muciniphila in Complex with An O-Glycopeptide (Glycodrosocin) Substrate, PDB code: 6z2p:

Calcium binding site 1 out of 1 in the Crystal Structure of Catalytic Inactive Ogpa From Akkermansia Muciniphila in Complex with An O-Glycopeptide (Glycodrosocin) Substrate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Catalytic Inactive Ogpa From Akkermansia Muciniphila in Complex with An O-Glycopeptide (Glycodrosocin) Substrate within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:71.1 occ:1.00 OE1 A:GLN308 2.4 51.1 1.0 O A:ASP309 2.4 58.3 1.0 O A:HOH535 2.5 58.7 1.0 O A:GLN316 2.5 58.7 1.0 O A:PRO311 2.6 55.4 1.0 OD2 A:ASP319 2.6 57.4 1.0 CG A:ASP319 3.4 61.5 1.0 OD1 A:ASP319 3.5 63.2 1.0 CD A:GLN308 3.5 57.0 1.0 C A:GLN316 3.6 64.4 1.0 C A:ASP309 3.6 65.0 1.0 C A:PRO311 3.8 57.1 1.0 CA A:ASP317 4.0 53.5 1.0 CB A:GLN308 4.0 48.8 1.0 CG A:GLN308 4.1 48.4 1.0 C A:PRO310 4.2 53.4 1.0 N A:ASP317 4.2 56.3 1.0 N A:ASP309 4.3 60.4 1.0 N A:PRO311 4.4 56.7 1.0 CA A:PRO310 4.4 57.4 1.0 O A:HOH534 4.4 56.3 1.0 N A:PRO310 4.5 65.6 1.0 O A:PRO310 4.5 58.5 1.0 CA A:TYR312 4.5 60.0 1.0 CA A:ASP309 4.5 57.2 1.0 CB A:GLN316 4.5 56.7 1.0 N A:TYR312 4.6 52.2 1.0 NE2 A:GLN308 4.7 56.3 1.0 CA A:PRO311 4.7 52.9 1.0 CA A:GLN316 4.7 65.6 1.0 CB A:ASP317 4.7 50.7 1.0 CD1 A:TYR312 4.8 57.1 1.0 CB A:ASP319 4.9 58.4 1.0 C A:GLN308 4.9 57.7 1.0 CD A:PRO311 4.9 47.5 1.0 C A:ASP317 5.0 53.5 1.0 CB A:ASP309 5.0 55.8 1.0

B.Trastoy, A.Naegali, I.Anso, J.Sjogren, M.E.Guerin. Crystal Structure of Catalytic Inactive Ogpa From Akkermansia Muciniphila in Complex with An O-Glycopeptide (Glycodrosocin) Substrate Nat Commun 2020.
ISSN: ESSN 2041-1723