SMTL ID : 2a8w.2 (1 other biounit)

Crystal Structure of Human N-acetylgalactosaminyltransferase (GTA) Complexed with Beta-Methyllactoside

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

homo-dimer

Ligands

10 x HG: MERCURY (II) ION(Non-covalent)

HG.1: 4 residues within 4Å: Chain A: L.219, C.223, D.241, L.245 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.223, H2O.9 HG.2: 5 residues within 4Å: Chain A: T.58, F.60, C.148 Ligands: HG.3, CL.6 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.58 HG.3: 3 residues within 4Å: Chain A: T.58, C.148 Ligands: HG.2 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.58, A:C.148, H2O.8 HG.4: 2 residues within 4Å: Chain A: C.19, G.37 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.19, A:G.37, H2O.9 HG.5: 4 residues within 4Å: Chain A: A.222, C.223, H.244, Y.248 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.223, H2O.9 HG.9: 4 residues within 4Å: Chain B: L.219, C.223, D.241, L.245 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.223, H2O.17 HG.10: 5 residues within 4Å: Chain B: T.58, F.60, C.148 Ligands: HG.11, CL.14 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.58 HG.11: 3 residues within 4Å: Chain B: T.58, C.148 Ligands: HG.10 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.58, B:C.148, H2O.17 HG.12: 2 residues within 4Å: Chain B: C.19, G.37 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.19, B:G.37, H2O.18 HG.13: 4 residues within 4Å: Chain B: A.222, C.223, H.244, Y.248 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.223, H2O.17

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 3 residues within 4Å: Chain A: C.148, V.149 Ligands: HG.2 Ligand excluded by PLIP CL.14: 3 residues within 4Å: Chain B: C.148, V.149 Ligands: HG.10 Ligand excluded by PLIP

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.7: 4 residues within 4Å: Chain A: D.150, D.152, M.153 Ligands: UDP.8 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.152, A:D.152 MN.15: 4 residues within 4Å: Chain B: D.150, D.152, M.153 Ligands: UDP.16 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.152, B:D.152

2 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)

UDP.8: 8 residues within 4Å: Chain A: F.60, A.61, I.62, Y.65, D.150, V.151, D.152 Ligands: MN.7 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:F.60, A:I.62, A:Y.65, A:Y.65, A:V.151 Water bridges: A:F.60 pi-Stacking: A:Y.65 UDP.16: 8 residues within 4Å: Chain B: F.60, A.61, I.62, Y.65, D.150, V.151, D.152 Ligands: MN.15 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:F.60, B:I.62, B:Y.65, B:Y.65, B:D.150, B:D.150, B:V.151 Water bridges: B:F.60 pi-Stacking: B:Y.65

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Letts, J.A. et al., Differential Recognition of the Type I and II H Antigen Acceptors by the Human ABO(H) Blood Group A and B Glycosyltransferases. J.Biol.Chem. (2006)

Release Date

2005-12-13

Peptides

Histo-blood group ABO system transferase (NAGAT) [Includes: Glycoprotein-fucosylgalactoside alpha-N- acetylgalactosaminyltransferase (EC 2.4.1.40) (Fucosylglycoprotein alpha-N-acetylgalactosaminyltransferase) (Histo-blood group A transferase) (A transferase); Glycoprotein-fucosylgalactoside alpha- galactosyltransferase (EC 2.4.1.37) (Fucosylglycoprotein 3-alpha- galactosyltransferase) (Histo-blood group B transferase) (B transferase)] [Contains: Fucosylglycoprotein alpha-N- acetylgalactosaminyltransferase, soluble form]: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Histo-blood group ABO system transferase (NAGAT) [Includes: Glycoprotein-fucosylgalactoside alpha-N- acetylgalactosaminyltransferase (EC 2.4.1.40) (Fucosylglycoprotein alpha-N-acetylgalactosaminyltransferase) (Histo-blood group A transferase) (A transferase); Glycoprotein-fucosylgalactoside alpha- galactosyltransferase (EC 2.4.1.37) (Fucosylglycoprotein 3-alpha- galactosyltransferase) (Histo-blood group B transferase) (B transferase)] [Contains: Fucosylglycoprotein alpha-N- acetylgalactosaminyltransferase, soluble form]

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