Clavibacter michiganensis subsp. michiganensis strain UF1 plasmid pCM2U-F1, complete sequence.
Clavibacter michiganensis subsp. michiganensis
Bacteria; Actinomycetota; Actinomycetes; Micrococcales; Microbacteriaceae; Clavibacter.
Submitted (09-NOV-2018) Plant Pathology, University of Florida, 1444 Fifield Hall, Gainesville, FL 32611, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP033726.1.\nBacteria and source DNA available from Frank F White.\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 Date :: 01-JAN-2018\nAssembly Method :: Canu v. 1.5\nAssembly Name :: UF1\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 396.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/23/2022 03:26:47\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) :: 3,198\nCDSs (total) :: 3,143\nGenes (coding) :: 3,115\nCDSs (with protein) :: 3,115\nGenes (RNA) :: 55\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 45\nncRNAs :: 4\nPseudo Genes (total) :: 28\nCDSs (without protein) :: 28\nPseudo Genes (ambiguous residues) :: 0 of 28\nPseudo Genes (frameshifted) :: 4 of 28\nPseudo Genes (incomplete) :: 25 of 28\nPseudo Genes (internal stop) :: 4 of 28\nPseudo Genes (multiple problems) :: 4 of 28\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF020387.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012836485.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931187.1
COORDINATES: similar to AA sequence:RefSeq:WP_012879723.1
COORDINATES: similar to AA sequence:RefSeq:WP_012300327.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011931185.1
RHS repeat-associated core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011931184.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931183.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931182.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011931180.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931179.1
COORDINATES: protein motif:HMM:NF024109.2
COORDINATES: similar to AA sequence:RefSeq:WP_011931177.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931174.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931173.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931172.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931171.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931170.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931168.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931167.1
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:NF027584.2
COORDINATES: similar to AA sequence:RefSeq:WP_011931165.1
COORDINATES: similar to AA sequence:RefSeq:WP_017833775.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF021471.2
COORDINATES: similar to AA sequence:RefSeq:WP_011931209.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931208.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931257.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931274.1
type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011931205.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: protein motif:HMM:NF012318.2
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016996059.1
COORDINATES: similar to AA sequence:RefSeq:WP_012299064.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012299065.1
rhodanese-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012299066.1
metal-sensitive transcriptional regulator
COORDINATES: protein motif:HMM:NF012791.2
COORDINATES: similar to AA sequence:RefSeq:WP_002854164.1
GO:0004619 - phosphoglycerate mutase activity [Evidence IEA]
GO:0006096 - glycolytic process [Evidence IEA]
2,3-bisphosphoglycerate-dependent phosphoglycerate mutase
COORDINATES: similar to AA sequence:RefSeq:WP_002854165.1
COORDINATES: similar to AA sequence:RefSeq:WP_002854166.1
COORDINATES: similar to AA sequence:RefSeq:WP_007166590.1
COORDINATES: similar to AA sequence:RefSeq:WP_017885696.1
GO:0004634 - phosphopyruvate hydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017888840.1
GO:0004160 - dihydroxy-acid dehydratase activity [Evidence IEA]
GO:0009097 - isoleucine biosynthetic process [Evidence IEA]; GO:0009099 - valine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013586539.1
GO:0004356 - glutamate-ammonia ligase activity [Evidence IEA]
GO:0006542 - glutamine biosynthetic process [Evidence IEA]
COORDINATES: nucleotide motif:Rfam:14.4:RF01734
Fluoride riboswitches increase expression of downstream genes that help mitigate the toxic effects of very high levels of fluoride; They are found in a wide variety of bacteria and archaea; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_017885697.1
COORDINATES: similar to AA sequence:RefSeq:WP_018134355.1
COORDINATES: similar to AA sequence:RefSeq:WP_003939268.1
COORDINATES: similar to AA sequence:RefSeq:WP_011931149.1