Manganese in PDB 3u2x: Crystal Structure of Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose

All present enzymatic activity of Crystal Structure of Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose:
2.4.1.186;

The structure of Crystal Structure of Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose, PDB code: 3u2x was solved by A.Chaikuad, D.S.Froese, E.Krysztofinska, F.Von Delft, J.Weigelt, C.H.Arrowsmith, A.M.Edwards, C.Bountra, U.Oppermann, W.W.Yue, Structuralgenomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.77
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	46.700, 46.860, 69.700, 79.57, 88.96, 77.25
R / Rfree (%)	19.8 / 24.7

The binding sites of Manganese atom in the Crystal Structure of Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose (pdb code 3u2x). 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 Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose, PDB code: 3u2x:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Crystal Structure of Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose


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 Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn263 b:15.4 occ:1.00 O1B A:UDP264 2.0 17.6 1.0 O1A A:UDP264 2.0 17.3 1.0 OD1 A:ASP104 2.0 15.6 1.0 OD2 A:ASP102 2.0 13.9 1.0 NE2 A:HIS212 2.1 17.1 1.0 OD2 A:ASP104 2.5 16.9 1.0 CG A:ASP104 2.6 13.5 1.0 CE1 A:HIS212 3.1 19.5 1.0 CD2 A:HIS212 3.1 17.9 1.0 CG A:ASP102 3.2 12.8 1.0 PB A:UDP264 3.3 17.9 1.0 PA A:UDP264 3.4 17.3 1.0 CB A:ASP102 3.5 14.1 1.0 O3A A:UDP264 3.6 18.4 1.0 O2 A:ASO265 3.6 27.2 0.6 O3B A:UDP264 3.8 16.2 1.0 O3' A:UDP264 3.9 14.2 1.0 CB A:ASP104 4.2 15.5 1.0 ND1 A:HIS212 4.3 17.5 1.0 C5' A:UDP264 4.3 14.0 1.0 NZ A:LYS218 4.3 16.8 1.0 CG A:HIS212 4.3 15.6 1.0 OD1 A:ASP102 4.3 15.2 1.0 O5' A:UDP264 4.4 15.9 1.0 O3 A:ASO265 4.4 32.8 0.6 C3 A:ASO265 4.5 33.9 0.6 O2A A:UDP264 4.5 17.9 1.0 O2B A:UDP264 4.5 18.3 1.0 CA A:LEU214 4.6 29.3 1.0 C2 A:ASO265 4.6 32.8 0.6 C3' A:UDP264 4.7 15.1 1.0 C4' A:UDP264 4.8 14.2 1.0 CB A:LEU214 4.9 32.0 1.0 N A:LEU214 4.9 26.7 1.0 N A:ASP104 5.0 14.1 1.0

Manganese binding site 2 out of 2 in the Crystal Structure of Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose


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 Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn263 b:14.6 occ:1.00 OD2 B:ASP102 2.0 14.0 1.0 O3B B:UDP264 2.0 18.5 1.0 O2A B:UDP264 2.0 17.7 1.0 OD1 B:ASP104 2.0 17.0 1.0 OD2 B:ASP104 2.1 18.8 1.0 NE2 B:HIS212 2.1 16.1 1.0 CG B:ASP104 2.5 13.3 1.0 CG B:ASP102 3.1 13.9 1.0 CE1 B:HIS212 3.1 19.0 1.0 CD2 B:HIS212 3.1 16.4 1.0 PB B:UDP264 3.3 17.6 1.0 PA B:UDP264 3.3 17.3 1.0 CB B:ASP102 3.5 15.2 1.0 O3A B:UDP264 3.6 18.3 1.0 O3' B:UDP264 3.8 14.5 1.0 O2B B:UDP264 3.8 17.7 1.0 O2 B:ASO265 4.0 39.4 0.7 CB B:ASP104 4.1 14.4 1.0 NZ B:LYS218 4.2 15.9 1.0 OD1 B:ASP102 4.2 16.7 1.0 ND1 B:HIS212 4.2 18.7 1.0 C5' B:UDP264 4.3 13.7 1.0 CG B:HIS212 4.3 17.7 1.0 O5' B:UDP264 4.4 15.5 1.0 O3 B:ASO265 4.4 39.9 0.7 O1A B:UDP264 4.5 17.2 1.0 O1B B:UDP264 4.6 18.2 1.0 CA B:LEU214 4.6 27.4 1.0 C3 B:ASO265 4.7 40.5 0.7 C3' B:UDP264 4.7 14.4 1.0 C4' B:UDP264 4.9 14.5 1.0 CA B:ASP102 5.0 14.2 1.0 N B:ASP104 5.0 15.0 1.0 CA B:ASP104 5.0 14.6 1.0 N B:LEU214 5.0 25.0 1.0

A.Chaikuad, D.S.Froese, E.Krysztofinska, F.Von Delft, J.Weigelt, C.H.Arrowsmith, A.M.Edwards, C.Bountra, U.Oppermann, W.W.Yue, Structural Genomics Consortium (Sgc). Crystal Structure of Human Glycogenin-1 (GYG1) Complexed with Manganese, Udp and 1'-Deoxyglucose To Be Published.