Calcium in PDB 3ikw: Structure of Heparinase I From Bacteroides Thetaiotaomicron

All present enzymatic activity of Structure of Heparinase I From Bacteroides Thetaiotaomicron:
4.2.2.7;

The structure of Structure of Heparinase I From Bacteroides Thetaiotaomicron, PDB code: 3ikw was solved by M.L.Garron, M.Cygler, D.Shaya, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.72 / 1.30
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	76.263, 110.494, 44.158, 90.00, 90.00, 90.00
R / Rfree (%)	18.7 / 21

The binding sites of Calcium atom in the Structure of Heparinase I From Bacteroides Thetaiotaomicron (pdb code 3ikw). 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 Structure of Heparinase I From Bacteroides Thetaiotaomicron, PDB code: 3ikw:

Calcium binding site 1 out of 1 in the Structure of Heparinase I From Bacteroides Thetaiotaomicron


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Heparinase I From Bacteroides Thetaiotaomicron within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1 b:12.4 occ:1.00 O A:TRP248 2.3 13.0 1.0 OD1 A:ASP346 2.3 12.8 1.0 O A:HOH384 2.4 13.2 1.0 OE2 A:GLU222 2.4 12.9 1.0 O A:HOH392 2.4 14.3 1.0 O A:ASN345 2.4 11.8 1.0 OE1 A:GLU222 2.5 13.0 1.0 CD A:GLU222 2.8 13.8 1.0 C A:ASN345 3.4 11.7 1.0 C A:TRP248 3.5 12.7 1.0 CG A:ASP346 3.5 12.6 1.0 CA A:ASP346 3.8 11.8 1.0 NH2 A:ARG344 3.9 19.2 1.0 N A:ASP346 4.0 11.8 1.0 O A:LYS247 4.0 12.5 0.4 O A:LYS247 4.1 11.9 0.6 CB A:ASP346 4.2 11.8 1.0 CA A:TRP248 4.3 12.5 1.0 CG A:GLU222 4.3 12.2 1.0 N A:LEU249 4.4 13.0 1.0 CD2 A:LEU158 4.4 16.2 1.0 CA A:LEU249 4.4 13.4 1.0 N A:THR250 4.5 13.1 1.0 OD2 A:ASP346 4.5 14.4 1.0 OG1 A:THR250 4.6 13.1 1.0 O A:HOH386 4.6 13.7 1.0 CE3 A:TRP248 4.6 15.2 1.0 O A:HOH415 4.6 15.3 1.0 CA A:ASN345 4.6 12.1 1.0 CZ A:ARG344 4.9 16.2 1.0 CB A:ASN345 4.9 11.5 1.0 C A:LEU249 4.9 13.2 1.0 CD2 A:TRP248 5.0 13.8 1.0 N A:ASN345 5.0 11.8 1.0 CZ3 A:TRP248 5.0 14.2 1.0

Y.H.Han, M.L.Garron, H.Y.Kim, W.S.Kim, Z.Zhang, K.S.Ryu, D.Shaya, Z.Xiao, C.Cheong, Y.S.Kim, R.J.Linhardt, Y.H.Jeon, M.Cygler. Structural Snapshots of Heparin Depolymerization By Heparin Lyase I. J.Biol.Chem. V. 284 34019 2009.
ISSN: ISSN 0021-9258
PubMed: 19801541
DOI: 10.1074/JBC.M109.025338