Manganese in PDB 1fgg: Crystal Structure of 1,3-Glucuronyltransferase I (Glcat-I) Complexed with Gal-Gal-Xyl, Udp, and MN2+

The structure of Crystal Structure of 1,3-Glucuronyltransferase I (Glcat-I) Complexed with Gal-Gal-Xyl, Udp, and MN2+, PDB code: 1fgg was solved by L.C.Pedersen, K.Tsuchida, H.Kitagawa, K.Sugahara, T.A.Darden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.78 / 2.30
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	57.842, 48.219, 102.204, 90.00, 92.79, 90.00
R / Rfree (%)	18.8 / 21.5

The binding sites of Manganese atom in the Crystal Structure of 1,3-Glucuronyltransferase I (Glcat-I) Complexed with Gal-Gal-Xyl, Udp, and MN2+ (pdb code 1fgg). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of 1,3-Glucuronyltransferase I (Glcat-I) Complexed with Gal-Gal-Xyl, Udp, and MN2+, PDB code: 1fgg:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Crystal Structure of 1,3-Glucuronyltransferase I (Glcat-I) Complexed with Gal-Gal-Xyl, Udp, and MN2+


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of 1,3-Glucuronyltransferase I (Glcat-I) Complexed with Gal-Gal-Xyl, Udp, and MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn336 b:15.9 occ:1.00 O A:HOH339 2.1 13.7 1.0 O2A A:UDP337 2.1 19.9 1.0 O A:HOH340 2.1 19.3 1.0 O3B A:UDP337 2.1 26.5 1.0 OD1 A:ASP196 2.2 17.8 1.0 OD2 A:ASP196 2.2 16.4 1.0 CG A:ASP196 2.4 12.8 1.0 PB A:UDP337 3.2 23.0 1.0 PA A:UDP337 3.2 21.8 1.0 O3A A:UDP337 3.4 23.3 1.0 NH1 A:ARG310 3.9 42.8 1.0 CB A:ASP196 3.9 16.8 1.0 O A:HOH357 4.0 12.2 1.0 O1A A:UDP337 4.0 21.8 1.0 O1B A:UDP337 4.0 29.0 1.0 OD1 A:ASN197 4.1 20.2 1.0 NE2 A:HIS308 4.1 19.3 1.0 CG A:ARG310 4.2 26.9 1.0 O A:THR309 4.3 14.4 1.0 CE1 A:HIS308 4.3 19.0 1.0 OD1 A:ASP194 4.3 15.0 1.0 UNK A:UNX338 4.4 38.3 1.0 O2B A:UDP337 4.4 30.1 1.0 CB A:ASP194 4.4 14.6 1.0 O5' A:UDP337 4.5 22.2 1.0 CD2 A:HIS308 4.8 15.6 1.0 CA A:ASP196 4.8 16.3 1.0 CG A:ASP194 4.8 16.5 1.0 C5' A:UDP337 4.9 21.0 1.0 CD A:ARG310 4.9 31.6 1.0 CG A:ASN197 4.9 20.2 1.0 N A:ASP196 4.9 15.6 1.0 C A:ASP196 5.0 16.8 1.0 O A:HOH354 5.0 10.0 1.0

Manganese binding site 2 out of 2 in the Crystal Structure of 1,3-Glucuronyltransferase I (Glcat-I) Complexed with Gal-Gal-Xyl, Udp, and MN2+


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of 1,3-Glucuronyltransferase I (Glcat-I) Complexed with Gal-Gal-Xyl, Udp, and MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn336 b:19.3 occ:1.00 O B:HOH340 2.1 13.5 1.0 O3B B:UDP337 2.1 20.2 1.0 O2A B:UDP337 2.1 19.9 1.0 O B:HOH339 2.1 10.0 1.0 OD2 B:ASP196 2.1 15.2 1.0 OD1 B:ASP196 2.4 16.4 1.0 CG B:ASP196 2.6 16.7 1.0 PB B:UDP337 3.1 21.7 1.0 PA B:UDP337 3.2 21.1 1.0 O3A B:UDP337 3.3 20.2 1.0 O B:HOH350 3.9 13.9 1.0 NH1 B:ARG310 3.9 36.6 1.0 O1A B:UDP337 4.0 23.4 1.0 O1B B:UDP337 4.0 22.8 1.0 CB B:ASP196 4.1 17.6 1.0 CG B:ARG310 4.1 23.9 1.0 NE2 B:HIS308 4.1 23.8 1.0 OD1 B:ASN197 4.2 15.2 1.0 OD1 B:ASP194 4.3 21.7 1.0 O2B B:UDP337 4.3 24.0 1.0 CE1 B:HIS308 4.3 21.9 1.0 UNK B:UNX338 4.3 40.5 1.0 O B:THR309 4.4 20.0 1.0 CB B:ASP194 4.4 17.4 1.0 O5' B:UDP337 4.5 21.1 1.0 CD B:ARG310 4.7 27.2 1.0 O B:HOH346 4.8 17.7 1.0 C5' B:UDP337 4.8 16.0 1.0 CD2 B:HIS308 4.8 19.8 1.0 CG B:ASP194 4.9 19.8 1.0 CA B:ASP196 4.9 17.8 1.0 CG B:ASN197 4.9 17.4 1.0 N B:ASP196 4.9 17.4 1.0

L.C.Pedersen, K.Tsuchida, H.Kitagawa, K.Sugahara, T.A.Darden, M.Negishi. Heparan/Chondroitin Sulfate Biosynthesis. Structure and Mechanism of Human Glucuronyltransferase I. J.Biol.Chem. V. 275 34580 2000.
ISSN: ISSN 0021-9258
PubMed: 10946001
DOI: 10.1074/JBC.M007399200