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Fig. 1 | BMC Biochemistry

Fig. 1

From: Structure and function of a lignostilbene-α,β-dioxygenase orthologue from Pseudomonas brassicacearum

Fig. 1

Evolutionary relationships and functional summary of select microbial homologs of carotenoid cleavage oxygenases, including plant and mammalian references. The evolutionary history was inferred using the Neighbor-Joining method [35]. The optimal tree with the sum of branch length = 8.88 is shown. The tree is drawn to scale, with branch lengths in the same units as those of the evolutionary distances used to infer the phylogenetic tree. The evolutionary distances were computed using the Poisson correction method [41] and are in the units of the number of amino acid substitutions per site. The analysis involved 21 amino acid sequences. All positions containing gaps and missing data were eliminated. There were a total of 346 residues in the final dataset. Evolutionary analyses were conducted in MEGA6 [42]. The notations are as follows: α - α-proteobacteria, δ - δ –proteobacteria, γ - γ-proteobacteria, C - cyanobacteria, A - Actinobacteria, P - plants, and M - mammal. The right most column highlights information about known substrates and cleavage sites. ACO refers to apocarontenoids substrates (mono-cyclic). If no substrate is indicated, C40 carotenoid substrates (either acyclic or bicyclic) can be assumed. Sequence sources: P. brassicacearum PbLSD (WP_025212951), S. paucimobilis SpaLSD-I (AAC60447) & SpaLSD-III (AAB35856); N. aromaticivorans NOV1 (WP_011444461) and NOV2 (WP_011446449); R. palustris RpsCCO (WP_011156772); B. japonicum BRA-J (NP_772430); M. tuberculosis MtCCO (P9WPR4), S. alaskensis SaCCO (WP_011541991), Nostoc sp. PCC 7120 NSC1 (WP_010995279), NSC2 (WP_010998422) and NSC3 (WP_010999021); Synechocystis sp. PCC 6803 SynACO (WP_010873049); A. thaliana AtCCD1 (NP_191911), AtNCED3 (NP_188062), Z. mais ZmVP14 (NP_001105902), P. pacifica PpCCO (ZP_01913312), M. musculus MmBCDO2 (Q99NF1), MmBCDO1 (Q9JJS6) and MmRPE65 (Q91ZQ5), B. taurus BtRPE65 (NP_776878)

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