title: Annotation and analysis of malic enzyme genes encoding for multiple isoforms in the fungus Mucor circinelloides CBS 277.49.
abstract: Based on the newly-released genomic data of Mucor circinelloides CBS 277.49, we have annotated five genes encoding for malic enzyme: all code for proteins that contain conserved domains/motifs for malic acid binding, NAD(+) binding and NAD(P)(+) binding. Phylogenetic analysis for malic enzyme genes showed that genes ID 78524 and 11639 share ~80% amino acid identity and are grouped in cluster 1; genes ID 182779, 186772 and 116127 share ~66% amino acid identity are grouped in cluster 2. Genes ID 78524, 11639 and 166127 produce proteins that are localized in the mitochondrion, while the products from genes 182779 and 186772 are localized in the cytosol. Based on the comparative analysis published previously by Song et al. (Microbiology 147:1507-1515, 2001), we propose that malic enzyme genes ID 78524, 166127, 182779, 186772, 11639, respectively, represent protein isoforms I, II, III/IV, V, and VI.
authors.affiliation: Center for Systems Biology, Soochow University, Suzhou, 215006, People's Republic of China. wanwipa@suda.edu.cn
authors.forename: Wanwipa
authors.initials: W
authors.lastname: Vongsangnak
authors.forename: Yingtong
authors.initials: Y
authors.lastname: Zhang
authors.forename: Wei
authors.initials: W
authors.lastname: Chen
authors.forename: Colin
authors.initials: C
authors.lastname: Ratledge
authors.forename: Yuanda
authors.initials: Y
authors.lastname: Song
mesh_terms: D020816:Amino Acid Motifs; D001665:Binding Sites; D003067:Coenzymes / Q000378:metabolism; D017124:Conserved Sequence; D005800:Genes, Fungal; D008291:Malate Dehydrogenase / Q000235:genetics* / Q000378:metabolism*; D008293:Malates / Q000378:metabolism; D009089:Mucor / Q000201:enzymology* / Q000235:genetics*; D009243:NAD / Q000378:metabolism; D009249:NADP / Q000378:metabolism; D010802:Phylogeny; D011485:Protein Binding; D020033:Protein Isoforms; D017386:Sequence Homology, Amino Acid
chemical_list: D003067:Coenzymes; D008293:Malates; D020033:Protein Isoforms; D009243:NAD; D009249:NADP; C030298:malic acid; D008291:Malate Dehydrogenase