Maritalea myrionectae strain HL2708#5 plasmid pHL2708X3, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Devosiaceae; Maritalea.
Genome Analysis of Maritalea myrionectae HL2708#5
Submitted (15-MAY-2017) Department of Marine-Bio Convergence Science, Pukyong National University, Hanmir Hall 1004, 365 Sinseon-ro, Nam-gu, Busan 48547, Republic of Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP021331.1.\nBacteria and source DNA available from Cotde, Inc.\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:3.0-Data-START##\nassembly :: SMRT\nbiome :: ocean\ncollection_date :: 2016-02-18\nenv_package :: missing\nfeature :: seawater\ngeo_loc_name :: South Korea: Cheju Island, Handong Lava\ninvestigation_type :: bacteria_archaea\nisol_growth_condt :: NA\nlat_lon :: 33.5327 126.8204\nmaterial :: Lava Seawater\nproject_name :: Maritalea myrionectae HL2708#5\nseq_meth :: PacBio RS II sequencing\nexperimental_factor :: NA\ndepth :: NA\nalt_elev :: NA\nnum_replicons :: NA\nref_biomaterial :: NA\nsource_mat_id :: HL2708#5\npathogenicity :: NA\nbiotic_relationship :: free-living\ntrophic_level :: chemoheterotroph\nrel_to_oxygen :: aerobe\nassembly_name :: NA\nfinishing_strategy :: Complete;303x coverage; 3 contigs\nannot_source :: NA\n##MIGS:3.0-Data-END##\n\n##Genome-Assembly-Data-START##\nAssembly Method :: SMRT Analysis v. 2.3.0\nGenome Coverage :: 303x\nSequencing Technology :: PacBioRS2\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/05/2023 01:44:00\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) :: 3,691\nCDSs (total) :: 3,641\nGenes (coding) :: 3,617\nCDSs (with protein) :: 3,617\nGenes (RNA) :: 50\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 40\nncRNAs :: 4\nPseudo Genes (total) :: 24\nCDSs (without protein) :: 24\nPseudo Genes (ambiguous residues) :: 0 of 24\nPseudo Genes (frameshifted) :: 3 of 24\nPseudo Genes (incomplete) :: 21 of 24\nPseudo Genes (internal stop) :: 2 of 24\nPseudo Genes (multiple problems) :: 1 of 24\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: similar to AA sequence:RefSeq:WP_007119830.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
ankyrin repeat domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003502109.1
COORDINATES: similar to AA sequence:RefSeq:WP_008594888.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011747452.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0000156 - phosphorelay response regulator activity [Evidence IEA]; GO:0004673 - protein histidine kinase activity [Evidence IEA]
GO:0007165 - signal transduction [Evidence IEA]
HAMP domain-containing sensor histidine kinase
COORDINATES: protein motif:HMM:NF012655.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
TetR/AcrR family transcriptional regulator
COORDINATES: protein motif:HMM:NF024092.2
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005631488.1
COORDINATES: similar to AA sequence:RefSeq:WP_008556092.1
COORDINATES: similar to AA sequence:RefSeq:WP_008883017.1
GO:0030552 - cAMP binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019953273.1
COORDINATES: protein motif:HMM:NF023568.2
COORDINATES: protein motif:HMM:NF015431.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF016200.2
GO:0005886 - plasma membrane [Evidence IEA]; GO:0031317 - tripartite ATP-independent periplasmic transporter complex [Evidence IEA]
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0015740 - C4-dicarboxylate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013332695.1
GO:0008643 - carbohydrate transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF015445.2
C4-dicarboxylate TRAP transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_018272437.1
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: protein motif:HMM:NF024498.2
GO:0015035 - protein-disulfide reductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF021897.2
type IV secretion system DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:TIGR02686.1
COORDINATES: protein motif:HMM:NF018691.2
COORDINATES: similar to AA sequence:RefSeq:WP_003501133.1
COORDINATES: similar to AA sequence:RefSeq:WP_012457145.1
COORDINATES: similar to AA sequence:RefSeq:WP_009804186.1
COORDINATES: protein motif:HMM:NF037521.2
zincin-like metallopeptidase domain-containing protein
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:NF024013.2
COORDINATES: similar to AA sequence:RefSeq:WP_009179364.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009179450.1
COORDINATES: protein motif:HMM:NF014626.2
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006974 - cellular response to DNA damage stimulus [Evidence IEA]; GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]
SOS response-associated peptidase family protein
COORDINATES: protein motif:HMM:NF014442.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF019310.2
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: protein motif:HMM:NF013077.2
COORDINATES: similar to AA sequence:RefSeq:WP_018897448.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_008834278.1
GO:0004540 - ribonuclease activity [Evidence IEA]
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_012152086.1
COORDINATES: similar to AA sequence:RefSeq:WP_007606460.1
COORDINATES: similar to AA sequence:RefSeq:WP_008040748.1
COORDINATES: protein motif:HMM:NF037660.2
GO:0009975 - cyclase activity [Evidence IEA]
GO:0009966 - regulation of signal transduction [Evidence IEA]
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: protein motif:HMM:TIGR00254.1
GO:0052621 - diguanylate cyclase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
sensor domain-containing diguanylate cyclase
COORDINATES: similar to AA sequence:RefSeq:WP_076611759.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024252.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF015824.2
COORDINATES: similar to AA sequence:RefSeq:WP_009381671.1
COORDINATES: similar to AA sequence:RefSeq:WP_008621575.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019998889.1
COORDINATES: similar to AA sequence:RefSeq:WP_009827309.1
COORDINATES: protein motif:HMM:NF012464.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR02762.1
type IV conjugative transfer system protein TraL
COORDINATES: protein motif:HMM:NF017152.2
TraE/TraK family type IV conjugative transfer system protein
COORDINATES: protein motif:HMM:NF018311.2
type-F conjugative transfer system secretin TraK
COORDINATES: protein motif:HMM:NF015688.2
COORDINATES: protein motif:HMM:TIGR02747.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: protein motif:HMM:NF021981.2
COORDINATES: similar to AA sequence:RefSeq:WP_011331481.1
type-F conjugative transfer system protein TraW
COORDINATES: similar to AA sequence:RefSeq:WP_011331482.1
COORDINATES: protein motif:HMM:TIGR02742.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: protein motif:HMM:NF018666.2
COORDINATES: protein motif:HMM:NF025105.2
COORDINATES: similar to AA sequence:RefSeq:WP_017140543.1
COORDINATES: protein motif:HMM:NF019530.2
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011993110.1
COORDINATES: similar to AA sequence:RefSeq:WP_008838806.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_005221591.1
COORDINATES: protein motif:HMM:NF024829.2
HlyD family efflux transporter periplasmic adaptor subunit
COORDINATES: protein motif:HMM:NF019958.2
COORDINATES: similar to AA sequence:RefSeq:WP_086558279.1
GO:0015074 - DNA integration [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.
integrase core domain-containing protein
COORDINATES: protein motif:HMM:NF021520.2
COORDINATES: similar to AA sequence:RefSeq:WP_008839836.1
COORDINATES: protein motif:HMM:TIGR02376.1
GO:0050421 - nitrite reductase (NO-forming) activity [Evidence IEA]
GO:0006807 - nitrogen compound metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015316373.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0009055 - electron transfer activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018460192.1
COORDINATES: similar to AA sequence:RefSeq:WP_019198790.1
COORDINATES: similar to AA sequence:RefSeq:WP_015497758.1
COORDINATES: similar to AA sequence:RefSeq:WP_015501197.1
GO:0005506 - iron ion binding [Evidence IEA]; GO:0051536 - iron-sulfur cluster binding [Evidence IEA]
GO:0016226 - iron-sulfur cluster assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017053543.1
COORDINATES: protein motif:HMM:NF017691.2
excalibur calcium-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009159810.1
COORDINATES: protein motif:HMM:NF012376.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014516.2
COORDINATES: protein motif:HMM:NF024565.2
COORDINATES: similar to AA sequence:RefSeq:WP_014293576.1
tripartite tricarboxylate transporter permease
COORDINATES: protein motif:HMM:NF018979.2
GO:0005215 - transporter activity [Evidence IEA]
tripartite tricarboxylate transporter TctB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020682800.1
tripartite tricarboxylate transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_012072092.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF020110.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]; GO:0004673 - protein histidine kinase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024921.2
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_020590839.1
COORDINATES: similar to AA sequence:RefSeq:WP_010139021.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012428130.1
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_011001822.1
ATP-binding cassette domain-containing protein
COORDINATES: protein motif:HMM:NF012706.2
COORDINATES: protein motif:HMM:TIGR00976.1
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF019349.2
COORDINATES: similar to AA sequence:RefSeq:WP_011042103.1
COORDINATES: similar to AA sequence:RefSeq:WP_008549002.1
TRAP transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF025042.2
COORDINATES: protein motif:HMM:NF024640.2
GO:0003824 - catalytic activity [Evidence IEA]
prenyltransferase/squalene oxidase repeat-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008889002.1
COORDINATES: similar to AA sequence:RefSeq:WP_009773464.1
COORDINATES: similar to AA sequence:RefSeq:WP_009773462.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0005215 - transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009773461.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009773460.1
GO:0010181 - FMN binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
This protein belongs to a clade of FMN-dependent monooxygenases, within a broader family of flavin-dependent oxidoreductases, the luciferase-like monooxygenase (LMM) family, some of whose members use coenzyme F420 rather than FMN; Derived by automated computational analysis using gene prediction method: Protein Homology.
NtaA/DmoA family FMN-dependent monooxygenase
COORDINATES: protein motif:HMM:NF012515.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0019200 - carbohydrate kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009773459.1
COORDINATES: similar to AA sequence:RefSeq:WP_014446615.1
COORDINATES: protein motif:HMM:NF013821.2
COORDINATES: similar to AA sequence:RefSeq:WP_008197099.1
GO:0016832 - aldehyde-lyase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008208658.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
LysR substrate-binding domain-containing protein
COORDINATES: protein motif:HMM:NF012235.2
COORDINATES: protein motif:HMM:NF012738.2
COORDINATES: similar to AA sequence:RefSeq:WP_007009943.1
COORDINATES: similar to AA sequence:RefSeq:WP_004216305.1
COORDINATES: protein motif:HMM:NF017868.2
gamma-glutamylcyclotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010410073.1
GO:0008535 - respiratory chain complex IV assembly [Evidence IEA]
cbb3-type cytochrome oxidase assembly protein CcoS
COORDINATES: similar to AA sequence:RefSeq:WP_009819781.1
COORDINATES: protein motif:HMM:TIGR00782.1
GO:0004129 - cytochrome-c oxidase activity [Evidence IEA]
cytochrome-c oxidase, cbb3-type subunit III
COORDINATES: protein motif:HMM:NF017366.2
cbb3-type cytochrome c oxidase subunit 3
COORDINATES: similar to AA sequence:RefSeq:WP_009819777.1
cytochrome-c oxidase, cbb3-type subunit II
COORDINATES: similar to AA sequence:RefSeq:WP_006021859.1
cytochrome-c oxidase, cbb3-type subunit I
COORDINATES: similar to AA sequence:RefSeq:WP_011646552.1
COORDINATES: protein motif:HMM:NF004396.0
GO:0003677 - DNA binding [Evidence IEA]; GO:0070063 - RNA polymerase binding [Evidence IEA]
GO:0032784 - regulation of DNA-templated transcription elongation [Evidence IEA]
COORDINATES: protein motif:HMM:NF014641.2
GO:0004852 - uroporphyrinogen-III synthase activity [Evidence IEA]
GO:0006782 - protoporphyrinogen IX biosynthetic process [Evidence IEA]; GO:0006780 - uroporphyrinogen III biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF012579.2
COORDINATES: similar to AA sequence:RefSeq:WP_011647464.1
COORDINATES: similar to AA sequence:RefSeq:WP_008595373.1
COORDINATES: protein motif:HMM:NF012321.2
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF016843.2
COORDINATES: protein motif:HMM:NF012780.2
COORDINATES: protein motif:HMM:NF013180.2