Massilia violaceinigra strain B2 plasmid unnamed, complete sequence.
Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales; Oxalobacteraceae; Massilia group; Massilia.
Massilia psychrophilum sp. nov., a novel purple-pigmented bacterium isolated from Tianshan glacier, Xinjiang Municipality, China
Submitted (17-OCT-2017) Graduate School, Chinese Academy of Agricultural Sciences, 12 Zhongguancunnandajie street, Beijing 100081, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP024609.1.\nBacteria and source DNA available from Haisheng Wang Lab.\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 :: SOAPdenovo v. Jul-2017\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 80.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/07/2022 04:38:41\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 6,569\nCDSs (total) :: 6,461\nGenes (coding) :: 6,344\nCDSs (with protein) :: 6,344\nGenes (RNA) :: 108\nrRNAs :: 5, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 6, 5 (5S, 16S, 23S)\npartial rRNAs :: 1 (23S)\ntRNAs :: 87\nncRNAs :: 4\nPseudo Genes (total) :: 117\nCDSs (without protein) :: 117\nPseudo Genes (ambiguous residues) :: 0 of 117\nPseudo Genes (frameshifted) :: 30 of 117\nPseudo Genes (incomplete) :: 91 of 117\nPseudo Genes (internal stop) :: 11 of 117\nPseudo Genes (multiple problems) :: 14 of 117\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:NF039533.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015140.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017879724.1
COORDINATES: similar to AA sequence:RefSeq:WP_018315006.1
GO:0019028 - viral capsid [Evidence IEA]
COORDINATES: protein motif:HMM:NF012301.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF019126.2
COORDINATES: similar to AA sequence:RefSeq:WP_010396988.1
COORDINATES: similar to AA sequence:RefSeq:WP_003377424.1
COORDINATES: protein motif:HMM:NF020885.2
COORDINATES: protein motif:HMM:NF016974.2
GO:0018193 - peptidyl-amino acid modification [Evidence IEA]
aspartyl/asparaginyl beta-hydroxylase domain-containing protein
COORDINATES: protein motif:HMM:NF032893.0
COORDINATES: protein motif:HMM:NF013014.2
COORDINATES: similar to AA sequence:RefSeq:WP_004549415.1
PDDEXK nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF040127.1
COORDINATES: protein motif:HMM:TIGR03696.1
COORDINATES: similar to AA sequence:RefSeq:WP_017879703.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011236696.1
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_005664133.1
COORDINATES: similar to AA sequence:RefSeq:WP_009551418.1
PEP-CTERM proteins occur, often in large numbers, in the proteomes of bacteria that also encode an exosortase, a predicted intramembrane cysteine proteinase. The presence of a PEP-CTERM domain at a protein's C-terminus predicts cleavage within the sorting domain, followed by covalent anchoring to some some component of the (usually Gram-negative) cell surface. Many PEP-CTERM proteins exhibit an unusual sequence composition that includes large numbers of potential glycosylation sites. Expression of one such protein has been shown restore the ability of a bacterium to form floc, a type of biofilm; Derived by automated computational analysis using gene prediction method: Protein Homology.
PEP-CTERM sorting domain-containing protein
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF018290.2
COORDINATES: protein motif:HMM:NF015437.2
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF027273.2
COORDINATES: protein motif:HMM:NF025107.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017040303.1
COORDINATES: similar to AA sequence:RefSeq:WP_011120198.1
COORDINATES: protein motif:HMM:NF020037.2
HAMP domain-containing sensor histidine kinase
COORDINATES: protein motif:HMM:NF012722.2