Halococcus dombrowskii strain H4 plasmid unnamed3, complete sequence.
Archaea; Euryarchaeota; Stenosarchaea group; Halobacteria; Halobacteriales; Halococcaceae; Halococcus.
Sequencing and genomic assembly of Halococcus dombrowskii
Submitted (04-APR-2022) Research, Binomica Labs, 4301 22nd St 3FL Studio 342, Long Island City, NY 11101, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP095008.1.\nBacteria and source DNA available from MacLea 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 Date :: 21-JAN-2022\nAssembly Method :: Trycycler v. v0.5.3\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 1529.0x\nSequencing Technology :: Oxford Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/27/2023 06:11:16\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,056\nCDSs (total) :: 3,990\nGenes (coding) :: 3,871\nCDSs (with protein) :: 3,871\nGenes (RNA) :: 66\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 55\nncRNAs :: 2\nPseudo Genes (total) :: 119\nCDSs (without protein) :: 119\nPseudo Genes (ambiguous residues) :: 0 of 119\nPseudo Genes (frameshifted) :: 46 of 119\nPseudo Genes (incomplete) :: 91 of 119\nPseudo Genes (internal stop) :: 21 of 119\nPseudo Genes (multiple problems) :: 33 of 119\nCRISPR Arrays :: 5\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_015909728.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005040407.1
COORDINATES: similar to AA sequence:RefSeq:WP_004052077.1
COORDINATES: similar to AA sequence:RefSeq:WP_007737493.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0009898 - cytoplasmic side of plasma membrane [Evidence IEA]
GO:0005524 - ATP binding [Evidence IEA]; GO:0015415 - ATPase-coupled phosphate ion transmembrane transporter activity [Evidence IEA]
phosphate ABC transporter ATP-binding protein PstB
COORDINATES: similar to AA sequence:RefSeq:WP_006600941.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0015415 - ATPase-coupled phosphate ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007736737.1
phosphate ABC transporter permease subunit PstC
COORDINATES: similar to AA sequence:RefSeq:WP_006078444.1
substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007739711.1
PGF-CTERM sorting domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_049912812.1
IS4-like element ISHth3 family transposase
COORDINATES: protein motif:HMM:NF014237.2
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004052676.1
COORDINATES: similar to AA sequence:RefSeq:WP_007694352.1
COORDINATES: similar to AA sequence:RefSeq:WP_007695814.1
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_007737336.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000014 - single-stranded DNA endodeoxyribonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006827876.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004055202.1
COORDINATES: similar to AA sequence:RefSeq:WP_004055212.1
COORDINATES: similar to AA sequence:RefSeq:WP_004055210.1
COORDINATES: similar to AA sequence:RefSeq:WP_007737465.1
COORDINATES: similar to AA sequence:RefSeq:WP_006053329.1
COORDINATES: similar to AA sequence:RefSeq:WP_008439993.1
COORDINATES: similar to AA sequence:RefSeq:WP_005039560.1
COORDINATES: similar to AA sequence:RefSeq:WP_004054244.1
COORDINATES: similar to AA sequence:RefSeq:WP_006076813.1
winged helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004059859.1
COORDINATES: similar to AA sequence:RefSeq:WP_014050605.1
GO:0046872 - metal ion binding [Evidence IEA]
heavy metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008414056.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
frameshifted; 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_012807507.1
COORDINATES: similar to AA sequence:RefSeq:WP_004055380.1
COORDINATES: similar to AA sequence:RefSeq:WP_005538583.1
COORDINATES: similar to AA sequence:RefSeq:WP_012807510.1
arsenite efflux transporter metallochaperone ArsD
COORDINATES: similar to AA sequence:RefSeq:WP_006077802.1
low molecular weight phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006106759.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006077804.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_006183161.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004053343.1
GO:0005886 - plasma membrane [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006180714.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005047121.1
COORDINATES: protein motif:HMM:NF016214.2
COORDINATES: protein motif:HMM:NF014080.2
COORDINATES: similar to AA sequence:RefSeq:WP_005040768.1
COORDINATES: protein motif:HMM:NF014044.2
helix-hairpin-helix domain-containing protein
type IV secretion system DNA-binding domain-containing protein
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005040530.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890515.1
COORDINATES: similar to AA sequence:RefSeq:WP_007740313.1
COORDINATES: similar to AA sequence:RefSeq:WP_007736413.1
COORDINATES: similar to AA sequence:RefSeq:WP_005040544.1
COORDINATES: similar to AA sequence:RefSeq:WP_012289568.1
COORDINATES: protein motif:HMM:NF025873.2
COORDINATES: protein motif:HMM:NF025577.2
COORDINATES: similar to AA sequence:RefSeq:WP_006078556.1
COORDINATES: similar to AA sequence:RefSeq:WP_007736425.1
COORDINATES: similar to AA sequence:RefSeq:WP_007738108.1
COORDINATES: similar to AA sequence:RefSeq:WP_005047066.1
GO:0003729 - mRNA binding [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
type II toxin-antitoxin system HicA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_005047063.1
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_005047084.1
COORDINATES: similar to AA sequence:RefSeq:WP_009378136.1
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: similar to AA sequence:RefSeq:WP_005043615.1
COORDINATES: similar to AA sequence:RefSeq:WP_007738659.1
COORDINATES: similar to AA sequence:RefSeq:WP_007979306.1
GO:0020037 - heme binding [Evidence IEA]; GO:0005506 - iron ion binding [Evidence IEA]; GO:0016705 - oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007737546.1
COORDINATES: similar to AA sequence:RefSeq:WP_007737005.1
COORDINATES: protein motif:HMM:NF038145.1
COORDINATES: protein motif:HMM:NF040013.1
COORDINATES: similar to AA sequence:RefSeq:WP_007737004.1
COORDINATES: similar to AA sequence:RefSeq:WP_012289077.1
COORDINATES: similar to AA sequence:RefSeq:WP_007738356.1
COORDINATES: similar to AA sequence:RefSeq:WP_007737000.1
COORDINATES: similar to AA sequence:RefSeq:WP_007740578.1
non-histone chromosomal MC1 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004052730.1
COORDINATES: similar to AA sequence:RefSeq:WP_007737563.1
COORDINATES: similar to AA sequence:RefSeq:WP_006054225.1
COORDINATES: protein motif:HMM:NF013720.2
COORDINATES: similar to AA sequence:RefSeq:WP_006078574.1
COORDINATES: similar to AA sequence:RefSeq:WP_006078575.1
TaqI-like C-terminal specificity domain-containing protein
COORDINATES: protein motif:HMM:NF019310.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007737587.1
COORDINATES: similar to AA sequence:RefSeq:WP_004052080.1
COORDINATES: similar to AA sequence:RefSeq:WP_013881788.1