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Putative alternative oxidase identified in Chalara fraxinea
Contributors: Benjamin May, Mary Albury, Julia Shearman, Luke Young and Tony Moore University of Sussex
Material : We used the ‘Chalara_fraxinea_ass_s1v1_ann_v1.1.protein.faa’ &‘Chalara_fraxinea_ass_s1v1_ann_v1.1.gene.gff’ data within the ash dieback crowdsource github respository. URL: https://github.com/ash-dieback-crowdsource/data/tree/master/ash_dieback/chalara_fraxinea/Kenninghall_wood_KW1/annotations/Gene_predictions/TGAC_Chalara_fraxinea_ass_s1v1_ann_v1.1)
Analysis: NCBI ORF finder blastp search MitoProtII SWISS-MODEL
Interpretation: ORF identified
ATGTATGTGGCAAGAGTATCCACGAGGGTACAGTTCTCCAAACAGACTGCTTCGCATCTTTCCAAGGTCGTAGCAGCCAACTTTTCACAATCATGTTCTGGCTCCCTCCA TCGCGTTGGTCTTGGTGCGAGTCCAGTACTTCATACTTCACAATCTCATCGTGAGTTCTCTACGACGCCCCGAGCAGCGTTGAGAGATTTCTTCCCTCAGAAGGAAACGG AACTGATCCGGAAAACCAAACCAGCATGGGAACATCCCGACTTCAGCTACGAAGACATGAAAACCAAGGTCTTCTATGCCCACCGCGAACCAGCCGATTTCTCAGATCGT GTCGCATTATGGATGGTTCGCCTTTTAAGATGGGGAACCGACCTAGCAACGGGCTACAAACACGATGTAGAAGTGCCAAAGAAAATCGGTGATGCCAATGCCGTTGCAGA GACGAAGCCATATGGTATGAGTGAGCGAAAATGGTTGATTCGAATTATATTTTTGGAATCTGTTGCGGGTGTGCCAGGGATGGTTGCGGCTATGTTGAGGCATTTGCATT CGATGAGGAGGTTGAAGAGGGATAATGGATGGATTGAGACGCTTTTGGAGGAGAGTCAGAATGAGAGGATGCATCTCCTCACCTTCCTCAAAATGGCCGAACCAGGCTGG TTCATGAAATTCATGCTCCTGGGCGCCCAAGGCGTCTTCTTCAACAGCATGTTCATCTCCTACCTCATCTCCCCACGAACCTGCCACCGCTTCGTCGGCTACCTCGAAGA AGAAGCCGTCTTCACGTACACGCTCGCCATCCAAGACCTGGAAGCGGGCAAGCTGCCCCAATGGACGCACCCGGACTTCCGCGTCCCAGACATCGCCGTCGATTACTGGA AGATGCCCGAGGACAAACGCACCATGAGGGATCTCATGCTCTATGTGAGAGCGGATGAGGCGAAACATCGTGAGGTTAATCATACCCTGGGGAATCTGGATCAGGATGAG GATCCGAATCCGTTTGTTTCCGAGTATAAGGATGTGGGGAGGCCGCATCCTGGGAAGGGGATTGAGCATGTGCAGCCGATTGGGTGGGAGAGGAAGGATGTTATTTGA
A blastp search of the amino acid code using the FASTA sequence of Trypanosomal alternative oxidase (TAO) as a template found significant alignment with an E value of 6e-62.
MitoProt II identified a putative mitochondrial targeting sequence.
SWISS-MODEL was used to model the putative C. fraxinea AOX protein using trypanosomal alternative oxidase as a template (PDB 3VV9), with a QMEAN Z-score of -5.119, which is consistent with monotopic membrane proteins.