Xanthobacter dioxanivorans strain YN2 plasmid unnamed3, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Xanthobacteraceae; Xanthobacter.
Degradation of 1,4-Dioxane by Xanthobacter sp. YN2
Submitted (23-OCT-2020) Environment, Harbin Institute of Technology, No. 73 Huanghe Road, Harbin, Heilongjiang 150090, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP063365.1.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Assembly-Data-START##\nAssembly Method :: HGAP v. Feb-2018\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 220.97x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 01/04/2023 02:42:34\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 6,351\nCDSs (total) :: 6,292\nGenes (coding) :: 5,987\nCDSs (with protein) :: 5,987\nGenes (RNA) :: 59\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 4\nPseudo Genes (total) :: 305\nCDSs (without protein) :: 305\nPseudo Genes (ambiguous residues) :: 0 of 305\nPseudo Genes (frameshifted) :: 196 of 305\nPseudo Genes (incomplete) :: 144 of 305\nPseudo Genes (internal stop) :: 20 of 305\nPseudo Genes (multiple problems) :: 50 of 305\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Xanthobacter dioxanivorans
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_012041843.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009030995.1
GO:0004497 - monooxygenase activity [Evidence IEA]
GO:0006725 - cellular aromatic compound metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006614267.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_009030997.1
toluene-4-monooxygenase system B family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019735504.1
aromatic/alkene/methane monooxygenase hydroxylase/oxygenase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_011997539.1
IS1380-like element ISPme1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_018634431.1
4-hydroxyphenylacetate 3-hydroxylase N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF013757.2
COORDINATES: similar to AA sequence:RefSeq:WP_011888288.1
COORDINATES: similar to AA sequence:RefSeq:WP_018271051.1
COORDINATES: similar to AA sequence:RefSeq:WP_008281990.1
GO:0018576 - catechol 1,2-dioxygenase activity [Evidence IEA]; GO:0005506 - iron ion binding [Evidence IEA]
GO:0009712 - catechol-containing compound metabolic process [Evidence IEA]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024771.2
COORDINATES: similar to AA sequence:RefSeq:WP_009807815.1
COORDINATES: similar to AA sequence:RefSeq:WP_012226833.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
winged helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF014626.2
COORDINATES: protein motif:HMM:NF024108.2
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:NF024252.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF019428.2
TadE/TadG family type IV pilus assembly protein
COORDINATES: protein motif:HMM:NF025014.2
pilus assembly protein N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF013632.2
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR03177.1
COORDINATES: protein motif:HMM:NF012485.2
type II and III secretion system protein family protein
COORDINATES: protein motif:HMM:TIGR02522.1
COORDINATES: similar to AA sequence:RefSeq:WP_019199866.1
COORDINATES: protein motif:HMM:NF012694.2
type II secretion system F family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018964223.1
COORDINATES: protein motif:HMM:NF024792.2
pilus assembly protein TadG-related protein
COORDINATES: protein motif:HMM:NF024821.2
COORDINATES: protein motif:HMM:NF027994.2
COORDINATES: protein motif:HMM:NF017128.2
COORDINATES: protein motif:HMM:NF024642.2
COORDINATES: similar to AA sequence:RefSeq:WP_008759481.1