Haliscomenobacter hydrossis DSM 1100 plasmid pHALHY03, complete sequence.
Bacteria; Bacteroidota; Saprospiria; Saprospirales; Haliscomenobacteraceae; Haliscomenobacter.
Complete genome sequence of Haliscomenobacter hydrossis type strain (O)
Submitted (26-APR-2011) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP002694.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4087347\nSource DNA and organism available from Hans-Peter Klenk at the\nGerman Collection of Microorganisms and Cell Cultures (DSMZ)\n(hans-peter.klenk@dsmz.de)\nContacts: Jonathan A. Eisen (jaeisen@ucdavis.edu)\n David Bruce (microbe@cuba.jgi-psf.org)\nWhole genome sequencing and draft assembly at JGI-PGF\nFinishing done by JGI-LANL\nAnnotation by JGI-ORNL and JGI-PGF\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. It is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\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##MIGS-Data-START##\ninvestigation_type :: bacteria_archaea\nproject_name :: Haliscomenobacter hydrossis O, DSM 1100\ncollection_date :: before 1973\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Netherlands\nenvironment :: Sludge\nnum_replicons :: 4\nref_biomaterial :: DSM 1100, ATCC 27775, LMG 10393\nbiotic_relationship :: Free living\ntrophic_level :: Missing\nrel_to_oxygen :: Missing\nisol_growth_condt :: 124107\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi04678\nType Strain :: Yes\nFunding Program :: DOE-GEBA 2009\nIsolation Site :: sludge (activated sludge, Oss)\nIsolation Comments :: isolated by Van Veen\nTemperature Range :: Mesophile\nDiseases :: None\n##MIGS-Data-END##\n\n##Genome-Assembly-Data-START##\nFinishing Goal :: Finished\nCurrent Finishing Status :: Finished\nAssembly Method :: Newbler v. 2.3\nGenome Coverage :: 30x\nSequencing Technology :: 454/Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/10/2023 14:19:50\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) :: 6,825\nCDSs (total) :: 6,766\nGenes (coding) :: 6,758\nCDSs (with protein) :: 6,758\nGenes (RNA) :: 59\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 51\nncRNAs :: 2\nPseudo Genes (total) :: 8\nCDSs (without protein) :: 8\nPseudo Genes (ambiguous residues) :: 0 of 8\nPseudo Genes (frameshifted) :: 2 of 8\nPseudo Genes (incomplete) :: 5 of 8\nPseudo Genes (internal stop) :: 1 of 8\nCRISPR Arrays :: 6\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Haliscomenobacter hydrossis
COORDINATES: similar to AA sequence:RefSeq:WP_020534962.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF025420.2
COORDINATES: similar to AA sequence:RefSeq:WP_014681158.1
COORDINATES: similar to AA sequence:RefSeq:WP_014217769.1
LytTR family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF018305.2
GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]
GO:0000160 - phosphorelay signal transduction system [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_010662199.1
COORDINATES: similar to AA sequence:RefSeq:WP_002110285.1
SUMF1/EgtB/PvdO family nonheme iron enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_015028209.1
COORDINATES: similar to AA sequence:RefSeq:WP_020602414.1
COORDINATES: similar to AA sequence:RefSeq:WP_020599402.1
COORDINATES: protein motif:HMM:TIGR02937.1
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:NF016648.2
COORDINATES: similar to AA sequence:RefSeq:WP_019943660.1
COORDINATES: similar to AA sequence:RefSeq:WP_020601676.1
RagB/SusD family nutrient uptake outer membrane protein
COORDINATES: similar to AA sequence:RefSeq:WP_019943658.1
COORDINATES: similar to AA sequence:RefSeq:WP_020601674.1
COORDINATES: protein motif:HMM:NF020111.2
COORDINATES: protein motif:HMM:NF012551.2
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020595507.1
COORDINATES: protein motif:HMM:NF012516.2
GO:0004650 - polygalacturonase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004311182.1
COORDINATES: protein motif:HMM:NF018038.2
COORDINATES: protein motif:HMM:NF025869.2
COORDINATES: similar to AA sequence:RefSeq:WP_019941082.1
COORDINATES: similar to AA sequence:RefSeq:WP_019943641.1
GO:0004559 - alpha-mannosidase activity [Evidence IEA]
GO:0006013 - mannose metabolic process [Evidence IEA]
glycoside hydrolase family 38 C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015027873.1
COORDINATES: similar to AA sequence:RefSeq:WP_013928555.1
COORDINATES: similar to AA sequence:RefSeq:WP_013930366.1
COORDINATES: similar to AA sequence:RefSeq:WP_013768221.1
COORDINATES: protein motif:HMM:NF024242.2
COORDINATES: similar to AA sequence:RefSeq:WP_013930350.1
COORDINATES: similar to AA sequence:RefSeq:WP_015028054.1
COORDINATES: similar to AA sequence:RefSeq:WP_015028052.1
COORDINATES: similar to AA sequence:RefSeq:WP_013930346.1
COORDINATES: similar to AA sequence:RefSeq:WP_020530065.1
COORDINATES: similar to AA sequence:RefSeq:WP_013930344.1
COORDINATES: similar to AA sequence:RefSeq:WP_019942098.1
COORDINATES: similar to AA sequence:RefSeq:WP_008624237.1
COORDINATES: protein motif:HMM:NF033590.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF026057.2
transposase DNA-binding-containing protein
COORDINATES: protein motif:HMM:NF013235.2
COORDINATES: protein motif:HMM:NF013429.2
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_009282462.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019945765.1
COORDINATES: similar to AA sequence:RefSeq:WP_002706091.1
COORDINATES: similar to AA sequence:RefSeq:WP_014803427.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_019037300.1
COORDINATES: similar to AA sequence:RefSeq:WP_012927059.1
helix-turn-helix transcriptional regulator
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015481137.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016778223.1
COORDINATES: similar to AA sequence:RefSeq:WP_018620846.1
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_020599241.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013928432.1
COORDINATES: protein motif:HMM:NF012363.2
COORDINATES: protein motif:HMM:NF012655.2
COORDINATES: similar to AA sequence:RefSeq:WP_018943051.1
sodium-dependent bicarbonate transport family permease
COORDINATES: protein motif:HMM:TIGR04183.1
T9SS type A sorting domain-containing protein
COORDINATES: protein motif:HMM:NF033545.0
COORDINATES: protein motif:HMM:NF024954.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014220089.1
COORDINATES: similar to AA sequence:RefSeq:WP_020606574.1
COORDINATES: protein motif:HMM:NF025341.2
COORDINATES: protein motif:HMM:NF013246.2
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_008628960.1
type 1 glutamine amidotransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013926036.1