Haladaptatus pallidirubidus strain YIM 93656 plasmid unnamed3, complete sequence.
Archaea; Euryarchaeota; Stenosarchaea group; Halobacteria; Halobacteriales; Haladaptataceae; Haladaptatus.
Halophilic archaea isolated from solar salterns and salt lakes
Submitted (18-OCT-2021) School of Food and Biological Engineering, Jiangsu University, No 301 Xuefu Road, Jingkou District, Zhenjiang, Zhenjiang, Jiangsu 212013, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP085304.1.\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. 4\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 658.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 07/30/2023 12:44:07\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) :: 6,555\nCDSs (total) :: 6,488\nGenes (coding) :: 6,279\nCDSs (with protein) :: 6,279\nGenes (RNA) :: 67\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 56\nncRNAs :: 2\nPseudo Genes (total) :: 209\nCDSs (without protein) :: 209\nPseudo Genes (ambiguous residues) :: 0 of 209\nPseudo Genes (frameshifted) :: 83 of 209\nPseudo Genes (incomplete) :: 138 of 209\nPseudo Genes (internal stop) :: 62 of 209\nPseudo Genes (multiple problems) :: 59 of 209\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Haladaptatus pallidirubidus
COORDINATES: similar to AA sequence:RefSeq:WP_007981367.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007981365.1
COORDINATES: similar to AA sequence:RefSeq:WP_008387723.1
COORDINATES: similar to AA sequence:RefSeq:WP_006092954.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004216270.1
COORDINATES: similar to AA sequence:RefSeq:WP_006883821.1
COORDINATES: similar to AA sequence:RefSeq:WP_008452493.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007981519.1
COORDINATES: similar to AA sequence:RefSeq:WP_008422870.1
GO:0016783 - sulfurtransferase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_006630570.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_009375481.1
COORDINATES: similar to AA sequence:RefSeq:WP_007981003.1
GO:0016765 - transferase activity, transferring alkyl or aryl (other than methyl) groups [Evidence IEA]
geranylgeranylglyceryl/heptaprenylglyceryl phosphate synthase
COORDINATES: similar to AA sequence:RefSeq:WP_086557942.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024627.2
right-handed parallel beta-helix repeat-containing protein
COORDINATES: protein motif:HMM:NF016831.2
COORDINATES: similar to AA sequence:RefSeq:WP_007981008.1
COORDINATES: similar to AA sequence:RefSeq:WP_008427010.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
bacterio-opsin activator domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012943256.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004517883.1
GO:0032559 - adenyl ribonucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018257474.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006813 - potassium ion transport [Evidence IEA]
TrkA C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007695055.1
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:1902600 - proton transmembrane transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004055882.1
GO:0015079 - potassium ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006600484.1
COORDINATES: protein motif:HMM:NF012791.2
COORDINATES: similar to AA sequence:RefSeq:WP_011321748.1
COORDINATES: similar to AA sequence:RefSeq:WP_007999278.1
COORDINATES: similar to AA sequence:RefSeq:WP_005533514.1
COORDINATES: similar to AA sequence:RefSeq:WP_007276461.1
orc1/cdc6 family replication initiation protein
COORDINATES: similar to AA sequence:RefSeq:WP_006825909.1
COORDINATES: similar to AA sequence:RefSeq:WP_007975914.1
COORDINATES: similar to AA sequence:RefSeq:WP_008528530.1
COORDINATES: similar to AA sequence:RefSeq:WP_011322572.1
COORDINATES: similar to AA sequence:RefSeq:WP_007975915.1
COORDINATES: protein motif:HMM:NF012364.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
DNA polymerase domain-containing protein
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: similar to AA sequence:RefSeq:WP_006828030.1
GO:0016301 - kinase activity [Evidence IEA]
type II toxin-antitoxin system death-on-curing family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_012258315.1
COORDINATES: similar to AA sequence:RefSeq:WP_012893413.1
COORDINATES: similar to AA sequence:RefSeq:WP_005040320.1
COORDINATES: protein motif:HMM:NF019928.2
COORDINATES: similar to AA sequence:RefSeq:WP_009357017.1
NAD(P)-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006107450.1
COORDINATES: similar to AA sequence:RefSeq:WP_009376824.1
COORDINATES: similar to AA sequence:RefSeq:WP_007975920.1
COORDINATES: similar to AA sequence:RefSeq:WP_008385063.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008385061.1
COORDINATES: similar to AA sequence:RefSeq:WP_008000442.1
COORDINATES: similar to AA sequence:RefSeq:WP_007980979.1
COORDINATES: similar to AA sequence:RefSeq:WP_017344585.1
COORDINATES: protein motif:HMM:NF014021.2
GO:0046872 - metal ion binding [Evidence IEA]; GO:0016779 - nucleotidyltransferase activity [Evidence IEA]
nucleotidyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008097115.1
COORDINATES: similar to AA sequence:RefSeq:WP_006601497.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_004060471.1
COORDINATES: similar to AA sequence:RefSeq:WP_006648454.1
frameshifted; internal stop; 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_007975838.1
COORDINATES: protein motif:HMM:NF028342.2
COORDINATES: similar to AA sequence:RefSeq:WP_004061058.1
COORDINATES: similar to AA sequence:RefSeq:WP_007975928.1
COORDINATES: similar to AA sequence:RefSeq:WP_007975929.1
COORDINATES: similar to AA sequence:RefSeq:WP_007975931.1
COORDINATES: similar to AA sequence:RefSeq:WP_007975933.1
COORDINATES: similar to AA sequence:RefSeq:WP_006167228.1
COORDINATES: protein motif:HMM:NF024117.2
COORDINATES: protein motif:HMM:NF016362.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015762108.1
COORDINATES: similar to AA sequence:RefSeq:WP_007979292.1
COORDINATES: similar to AA sequence:RefSeq:WP_018332567.1
GO:0070967 - coenzyme F420 binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0008150 - biological_process [Evidence IEA]
PPOX class F420-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_006667604.1
COORDINATES: similar to AA sequence:RefSeq:WP_006667603.1
COORDINATES: similar to AA sequence:RefSeq:WP_018621516.1
COORDINATES: protein motif:HMM:NF018180.2
epoxide hydrolase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010695610.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015323237.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
VapC toxin family PIN domain ribonuclease
COORDINATES: similar to AA sequence:RefSeq:WP_007981501.1
COORDINATES: similar to AA sequence:RefSeq:WP_008417125.1
GO:0004181 - metallocarboxypeptidase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF015338.2
endonuclease/exonuclease/phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006066862.1
COORDINATES: similar to AA sequence:RefSeq:WP_006600187.1
COORDINATES: similar to AA sequence:RefSeq:WP_007981530.1
COORDINATES: similar to AA sequence:RefSeq:WP_007695020.1
GO:0008381 - mechanosensitive monoatomic ion channel activity [Evidence IEA]
mechanosensitive ion channel family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007983032.1
COORDINATES: similar to AA sequence:RefSeq:WP_009761783.1
COORDINATES: similar to AA sequence:RefSeq:WP_005538292.1
COORDINATES: similar to AA sequence:RefSeq:WP_004051033.1
COORDINATES: similar to AA sequence:RefSeq:WP_006433205.1
GO:0015137 - citrate transmembrane transporter activity [Evidence IEA]
GO:0015746 - citrate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017641190.1
acyclic terpene utilization AtuA family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013428790.1
COORDINATES: similar to AA sequence:RefSeq:WP_020222877.1
COORDINATES: similar to AA sequence:RefSeq:WP_004044250.1
COORDINATES: similar to AA sequence:RefSeq:WP_008092052.1
COORDINATES: similar to AA sequence:RefSeq:WP_007694200.1
GO:0004180 - carboxypeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006076443.1
COORDINATES: similar to AA sequence:RefSeq:WP_007736995.1
COORDINATES: similar to AA sequence:RefSeq:WP_006432512.1
COORDINATES: similar to AA sequence:RefSeq:WP_005045735.1
COORDINATES: protein motif:HMM:NF027245.2
COORDINATES: protein motif:HMM:NF036897.2
COORDINATES: similar to AA sequence:RefSeq:WP_009367612.1
COORDINATES: similar to AA sequence:RefSeq:WP_004216170.1
COORDINATES: similar to AA sequence:RefSeq:WP_006068071.1
Lrp/AsnC family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007696895.1
COORDINATES: similar to AA sequence:RefSeq:WP_007983572.1
COORDINATES: protein motif:HMM:TIGR00414.1
GO:0004828 - serine-tRNA ligase activity [Evidence IEA]
GO:0006434 - seryl-tRNA aminoacylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF024108.2
TraM recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014865427.1
winged helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007979252.1
COORDINATES: similar to AA sequence:RefSeq:WP_006885836.1
COORDINATES: similar to AA sequence:RefSeq:WP_006883289.1
GO:0016491 - oxidoreductase activity [Evidence IEA]; GO:0016651 - oxidoreductase activity, acting on NAD(P)H [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007130170.1
GO:0003824 - catalytic activity [Evidence IEA]
sugar phosphate isomerase/epimerase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006667827.1
internal stop; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006650010.1
COORDINATES: similar to AA sequence:RefSeq:WP_006884092.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF017174.2
GO:0016857 - racemase and epimerase activity, acting on carbohydrates and derivatives [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005536378.1
COORDINATES: similar to AA sequence:RefSeq:WP_018258933.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006600063.1
COORDINATES: similar to AA sequence:RefSeq:WP_007977617.1
COORDINATES: similar to AA sequence:RefSeq:WP_012547346.1
COORDINATES: similar to AA sequence:RefSeq:WP_008385421.1
COORDINATES: protein motif:HMM:NF013400.2
COORDINATES: protein motif:HMM:NF013429.2
COORDINATES: similar to AA sequence:RefSeq:WP_008418071.1
GO:0000166 - nucleotide binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008008437.1
internal stop; 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: protein motif:HMM:NF027224.2
COORDINATES: protein motif:HMM:NF019908.2
COORDINATES: protein motif:HMM:NF027814.2
COORDINATES: similar to AA sequence:RefSeq:WP_015788904.1
COORDINATES: similar to AA sequence:RefSeq:WP_013035180.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013875779.1
COORDINATES: similar to AA sequence:RefSeq:WP_004052580.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008524923.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007983095.1
COORDINATES: protein motif:HMM:NF019310.2
COORDINATES: similar to AA sequence:RefSeq:WP_013881284.1
COORDINATES: protein motif:HMM:NF012706.2
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_010903204.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - DNA transposition [Evidence IEA]
frameshifted; internal stop; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
internal stop; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
GO:0016853 - isomerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006885219.1
COORDINATES: similar to AA sequence:RefSeq:WP_014555168.1
frameshifted; 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_007274249.1
COORDINATES: similar to AA sequence:RefSeq:WP_006649472.1
COORDINATES: similar to AA sequence:RefSeq:WP_015408486.1
COORDINATES: protein motif:HMM:NF013752.2
COORDINATES: similar to AA sequence:RefSeq:WP_012945131.1
DDE-type integrase/transposase/recombinase
COORDINATES: protein motif:HMM:NF033559.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611240.1
COORDINATES: similar to AA sequence:RefSeq:WP_008385433.1
COORDINATES: similar to AA sequence:RefSeq:WP_008385432.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006106793.1
COORDINATES: similar to AA sequence:RefSeq:WP_015408940.1
COORDINATES: similar to AA sequence:RefSeq:WP_006055369.1
lysylphosphatidylglycerol synthase transmembrane domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009367134.1
COORDINATES: similar to AA sequence:RefSeq:WP_006886080.1
COORDINATES: protein motif:HMM:NF016906.2
COORDINATES: similar to AA sequence:RefSeq:WP_007982575.1
COORDINATES: similar to AA sequence:RefSeq:WP_005577871.1
COORDINATES: protein motif:HMM:NF016232.2
COORDINATES: protein motif:HMM:NF018028.2
COORDINATES: similar to AA sequence:RefSeq:WP_011322443.1
GO:0016020 - membrane [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
GO:0000271 - polysaccharide biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF012745.2
GO:0016757 - glycosyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006628468.1
GO:0008446 - GDP-mannose 4,6-dehydratase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF016228.2
COORDINATES: similar to AA sequence:RefSeq:WP_006628466.1
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme
COORDINATES: protein motif:HMM:NF015587.2
YihY/virulence factor BrkB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015910598.1
COORDINATES: protein motif:HMM:NF012311.2
GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012780.2
COORDINATES: protein motif:HMM:NF014244.2
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015147.2
COORDINATES: similar to AA sequence:RefSeq:WP_005578914.1
COORDINATES: similar to AA sequence:RefSeq:WP_009762156.1
COORDINATES: similar to AA sequence:RefSeq:WP_009762155.1
COORDINATES: similar to AA sequence:RefSeq:WP_006092732.1
COORDINATES: similar to AA sequence:RefSeq:WP_009762153.1
COORDINATES: similar to AA sequence:RefSeq:WP_009762152.1
COORDINATES: similar to AA sequence:RefSeq:WP_009762150.1
COORDINATES: similar to AA sequence:RefSeq:WP_006076425.1
COORDINATES: similar to AA sequence:RefSeq:WP_004048645.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0019829 - ATPase-coupled monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008455938.1
winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006183483.1
GO:0046872 - metal ion binding [Evidence IEA]
heavy metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004599809.1
COORDINATES: similar to AA sequence:RefSeq:WP_009378252.1
COORDINATES: similar to AA sequence:RefSeq:WP_012945391.1
COORDINATES: similar to AA sequence:RefSeq:WP_006091804.1
COORDINATES: similar to AA sequence:RefSeq:WP_008847149.1
low molecular weight phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006107319.1
COORDINATES: similar to AA sequence:RefSeq:WP_006107318.1
GO:0004020 - adenylylsulfate kinase activity [Evidence IEA]
GO:0006790 - sulfur compound metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006107317.1
COORDINATES: similar to AA sequence:RefSeq:WP_005039491.1
COORDINATES: similar to AA sequence:RefSeq:WP_012945406.1
COORDINATES: similar to AA sequence:RefSeq:WP_004595047.1
COORDINATES: protein motif:HMM:NF014171.2
COORDINATES: similar to AA sequence:RefSeq:WP_006107297.1
COORDINATES: similar to AA sequence:RefSeq:WP_018258583.1
COORDINATES: similar to AA sequence:RefSeq:WP_008895186.1
COORDINATES: similar to AA sequence:RefSeq:WP_006053390.1
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: protein motif:HMM:NF014000.2
COORDINATES: similar to AA sequence:RefSeq:WP_006664901.1
COORDINATES: similar to AA sequence:RefSeq:WP_012944254.1
COORDINATES: protein motif:HMM:NF024793.2
COORDINATES: protein motif:HMM:NF024589.2
COORDINATES: protein motif:HMM:NF014080.2