Module description

The nrps_pks_domains module annotates domains with poly keytide synthase (PKS) and non-ribosomal peptide synthase (NRPS) related functions.

Annotated domains

Domain name Icon Description Source
ACP Acyl-carrier protein domain Medema et al. 2011
ACP_beta Beta-branching acyl-carrier protein domain SMART
ACPS 4'-phosphopantetheinyl transferase Pfam
Aminotran_1_2 Aminotransferase class I and II Pfam
Aminotran_3 Aminotransferase class III Pfam
Aminotran_4 Aminotransferase class IV Pfam
Aminotran_5 Aminotransferase class V Pfam
AMP-binding A Adenylation domain Pfam
A-OX A Adenylation domain with integrated oxidase Medema et al. 2011
B B Branching domain Blin et al. 2017
CAL_domain CAL Co-enzyme A ligase domain Medema et al. 2011
Cglyc C Glycopeptide condensation domain Medema et al. 2011
cMT cMT Carbon methyltransferase Ansari et al. 2008
Condensation C Condensation domain Pfam
Condensation_DCL C Condensation domain linking a L-amino acid to a peptide ending with a D-amino acid Rausch et al. 2007
Condensation_Dual C Dual condensation/epimerisation domain Rausch et al. 2007
Condensation_LCL C Condensation domain linking a L-amino acid to a peptide ending with a L-amino acid Rausch et al. 2007
Condensation_Starter C Starter condensation domain Rausch et al. 2007
ECH ECH Enoyl-CoA hydratase/isomerase Pfam
Ene_KS KS Enediyine ketosynthase Yadav et al. 2009
Epimerization domain E Epimerization domain Weber et al. 2009
F F Formylation domain Blin et al. 2017
FkbH FkbH FkbH-like domain Blin et al. 2017
GNAT GNAT GNAT domain Blin et al. 2017
Hal Hal Halogenase domain Blin et al. 2017
Heterocyclization C Heterocyclization domain Medema et al. 2011
Hyb_KS KS Hybrid ketosynthase Yadav et al. 2009
Itr_KS KS Iterative ketosynthase Yadav et al. 2009
Mod_KS KS Modular ketosynthase Yadav et al. 2009
NAD_binding_4 NAD Male sterility protein Pfam
nMT nMT Nitrogen methyltransferase Ansari et al. 2008
NRPS-COM_Cterm NRPS COM domain C-terminal Medema et al. 2011
NRPS-COM_Nterm NRPS COM domain N-terminal Medema et al. 2011
oMT oMT Oxygen methyltransferase Ansari et al. 2008
PCP Peptidyl-carrier protein domain Medema et al. 2011
PKS_AT AT Acyltransferase domain SMART
PKS_DH DH Dehydrogenase domain SMART
PKS_DH2 DH Dehydrogenase domain (avoids false positive PS domains)
PKS_DHt DHt Dehydratase domain
PKS_Docking_Cterm PKS C-terminal docking domain Medema et al. 2011
PKS_Docking_Nterm PKS N-terminal docking domain Medema et al. 2011
PKS_ER ER Enoylreductase domain SMART
PKS_KR KR Ketoreductase domain SMART
PKS_KS KS Ketosynthase domain SMART
Polyketide_cyc2 Polyketide cyclase/dehydratase Pfam
Polyketide_cyc Polyketide cyclase Pfam
PS PS Pyran synthase domain Blin et al. 2017
SAT SAT Starter unit:ACP transacylase in aflatoxin biosynthesis Pfam
TD TD Terminal reductase domain Medema et al. 2011
Thioesterase TE Thioesterase domain Pfam
TIGR01720 NRPS domain of unknown function TIGRFams
TIGR02353 NRPS terminal domain of unknown function TIGRFams
Tra_KS KS Trans-acyltransferase ketosynthase Yadav et al. 2009
Trans-AT_docking Trans-acyltransferase docking domain Medema et al. 2011
X X Putatively inactive glycopeptide condensation-like domain Medema et al. 2011

1. Rausch, C., Hoof, I., Weber, T., Wohlleben, W. and Huson, D.H. (2007) Phylogenetic analysis of condensation domains in NRPS sheds light on their functional evolution. BMC Evol. Biol., vol. 7, 78.

2. Medema, M.H., Blin, K., Cimermancic, P., de Jager, V., Zakrzewski, P., Fischbach, M.A., Weber, T., Takano, E., and Breitling, R. (2011) antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucl. Acids Research, vol. 39, W339-W346.

3. Weber, T., Rausch, C., Lopez, P., Hoof, I., Gaykova, V., Huson, DH., Wohlleben, W. (2009) CLUSEAN: a computer-based framework for the automated analysis of bacterial secondary metabolite biosynthetic gene clusters. J. Biotechnol., vol. 140 13-17.

4. Yadav, G., Gokhale, R.S. and Mohanty, D. (2009) Towards prediction of metabolic products of polyketide synthases: an in silico analysis. PLoS Comput. Biol., vol. 5, e1000351.

5. Blin,K., Wolf,T., Chevrette,M.G., Lu,X., Schwalen,C.J., Kautsar,S.A., Suarez Duran,H.G., de Los Santos,E.L.C., Kim,H.U., Nave,M., et al. (2017) antiSMASH 4.0-improvements in chemistry prediction and gene cluster boundary identification. Nucleic Acids Res., vol. 45, W36–W41.

6. Ansari, M.Z., Sharma, J., Gokhale, R.S. and Mohanty, D. (2008) In silico analysis of methyltransferase domains involved in biosynthesis of secondary metabolites. BMC Bioinformatics, vol. 9, 454