ASMC method

Family PF02274

Amidinotransferase: This family contains glycine (EC:2.1.4.1) and inosamine (EC:2.1.4.2) amidinotransferases, enzymes involved in creatine and streptomycin biosynthesis respectively. This family also includes arginine deiminases, EC:3.5.3.6. These enzymes catalyse the reaction: arginine + H2O <=> citrulline + NH3.

Data used

Protein sequences selected from Pfam database: 671.

Protein sequences modeled (%Id with at least one template > 30): 294

Templates used for Homology Modeling (PDBcode-chain): 2JAI-B, 2ABR-C, 1LXY-A, 1BWD-A, 1H70-A

SDPs & CPs

Amino-acids in the the linear profile are :

  • CPs (Conserved Positions): 5, 6, 7, 8, 9, 10, 11, 19, 37, 38, 40
  • SDPs (Specific Determining Positions): 2, 4, 12, 15, 18, 23, 25, 26, 31, 32, 33, 34, 35, 36, 39

Validation

Holo structure used: 2A9G, with ligand: Arginine

Residues in contact with the ligand are: 1, 4, 5, 6, 7, 8, 9, 10, 11, 12, 19, 35, 36, 37, 40

The ASMC tree

Our ASMC defines 3 main groups higlighted above with different colors. We checked the coherence of these three main clusters using known (with experimental data avalaible).

"Yellow" group: EC: 2.1.4.1

"Orange" group: EC: 2.1.4.2

"Green" group: EC: 3.5.3.6

ASMC tree