Halococcus dombrowskii strain H4 plasmid unnamed5, 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\nCP095010.1.\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: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013561.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007737706.1
COORDINATES: similar to AA sequence:RefSeq:WP_004967099.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004052689.1
COORDINATES: similar to AA sequence:RefSeq:WP_007738155.1
COORDINATES: similar to AA sequence:RefSeq:WP_007738156.1
COORDINATES: similar to AA sequence:RefSeq:WP_008426223.1
COORDINATES: similar to AA sequence:RefSeq:WP_011572752.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007740017.1
DNA-directed RNA polymerase subunit epsilon
COORDINATES: similar to AA sequence:RefSeq:WP_004052730.1
COORDINATES: similar to AA sequence:RefSeq:WP_007736997.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007738362.1
COORDINATES: similar to AA sequence:RefSeq:WP_006667259.1
COORDINATES: similar to AA sequence:RefSeq:WP_004592776.1
COORDINATES: similar to AA sequence:RefSeq:WP_012807968.1
COORDINATES: similar to AA sequence:RefSeq:WP_006078586.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013035180.1
COORDINATES: protein motif:HMM:NF013125.2
COORDINATES: similar to AA sequence:RefSeq:WP_004051518.1
COORDINATES: similar to AA sequence:RefSeq:WP_009367756.1
orc1/cdc6 family replication initiation protein
COORDINATES: similar to AA sequence:RefSeq:WP_005046567.1
COORDINATES: similar to AA sequence:RefSeq:WP_004052724.1
COORDINATES: similar to AA sequence:RefSeq:WP_007737624.1
COORDINATES: similar to AA sequence:RefSeq:WP_007738360.1
non-histone chromosomal MC1 family protein
glycine/sarcosine/betaine reductase component B subunit
COORDINATES: similar to AA sequence:RefSeq:WP_076611805.1
COORDINATES: similar to AA sequence:RefSeq:WP_007743531.1
COORDINATES: similar to AA sequence:RefSeq:WP_007743431.1
COORDINATES: similar to AA sequence:RefSeq:WP_007739972.1
GO:0046873 - metal ion transmembrane transporter activity [Evidence IEA]
GO:0030001 - metal ion transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005046276.1
GO:0032559 - adenyl ribonucleotide binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF024304.2
pyridoxamine 5'-phosphate oxidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008848099.1
COORDINATES: similar to AA sequence:RefSeq:WP_013881078.1
GO:0051920 - peroxiredoxin activity [Evidence IEA]
carboxymuconolactone decarboxylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007689600.1
phage integrase SAM-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007737431.1
COORDINATES: protein motif:HMM:NF014015.2
COORDINATES: protein motif:HMM:NF013970.2
COORDINATES: similar to AA sequence:RefSeq:WP_006078972.1
COORDINATES: similar to AA sequence:RefSeq:WP_007738223.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014031033.1
COORDINATES: similar to AA sequence:RefSeq:WP_008523571.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004051302.1
COORDINATES: similar to AA sequence:RefSeq:WP_008584109.1
winged helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007737389.1