Maritalea myrionectae strain HL2708#5 plasmid pHL2708Y3, 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\nCP021332.1.\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: protein motif:HMM:NF024950.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012472.2
COORDINATES: protein motif:HMM:NF025072.2
COORDINATES: similar to AA sequence:RefSeq:WP_008886403.1
COORDINATES: protein motif:HMM:NF017783.2
COORDINATES: similar to AA sequence:RefSeq:WP_008886409.1
COORDINATES: similar to AA sequence:RefSeq:WP_008254323.1
GO:0016051 - carbohydrate biosynthetic process [Evidence IEA]
N-acetylneuraminate synthase family protein
COORDINATES: protein motif:HMM:NF014453.2
COORDINATES: protein motif:HMM:NF016800.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611857.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF040974.1
COORDINATES: similar to AA sequence:RefSeq:WP_006205757.1
COORDINATES: similar to AA sequence:RefSeq:WP_011505226.1
COORDINATES: similar to AA sequence:RefSeq:WP_011911028.1
sodium-dependent bicarbonate transport family permease
COORDINATES: similar to AA sequence:RefSeq:WP_011646542.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010442730.1
GO:0005515 - protein binding [Evidence IEA]
GO:0006749 - glutathione metabolic process [Evidence IEA]
glutathione S-transferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008560147.1
COORDINATES: similar to AA sequence:RefSeq:WP_008560484.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011646014.1
GO:0003674 - molecular_function [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007676363.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006384123.1
GO:0030612 - arsenate reductase (thioredoxin) activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008191997.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014889226.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014290454.1
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing [Evidence IEA]
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_008550998.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007009950.1
COORDINATES: similar to AA sequence:RefSeq:WP_010076027.1
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_014290450.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008551073.1
GO:0004177 - aminopeptidase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0070006 - metalloaminopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007292339.1
COORDINATES: similar to AA sequence:RefSeq:WP_004727825.1
GO:0016846 - carbon-sulfur lyase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012742.2
COORDINATES: protein motif:HMM:NF013256.2
GO:0004559 - alpha-mannosidase activity [Evidence IEA]
GO:0006013 - mannose metabolic process [Evidence IEA]
glycoside hydrolase family 38 C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF012692.2
COORDINATES: similar to AA sequence:RefSeq:WP_015078106.1
phosphomannose isomerase type II C-terminal cupin domain
COORDINATES: similar to AA sequence:RefSeq:WP_002536719.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]
sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC
COORDINATES: similar to AA sequence:RefSeq:WP_008597762.1
GO:0008643 - carbohydrate transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003525091.1
COORDINATES: similar to AA sequence:RefSeq:WP_007256251.1
sugar ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF019349.2
FadR/GntR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_015500693.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015499462.1
mercuric transporter MerT family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008950835.1
COORDINATES: similar to AA sequence:RefSeq:WP_018288269.1
GDCCVxC domain-containing (seleno)protein
COORDINATES: protein motif:HMM:TIGR01414.1
COORDINATES: protein motif:HMM:NF015737.2
COORDINATES: protein motif:HMM:NF023568.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010437438.1
isochorismatase family cysteine hydrolase
COORDINATES: similar to AA sequence:RefSeq:WP_007006904.1
COORDINATES: similar to AA sequence:RefSeq:WP_014875946.1
GO:0015803 - branched-chain amino acid transport [Evidence IEA]
branched-chain amino acid ABC transporter permease
COORDINATES: similar to AA sequence:RefSeq:WP_014875945.1
COORDINATES: similar to AA sequence:RefSeq:WP_008885365.1
COORDINATES: similar to AA sequence:RefSeq:WP_007006900.1
branched-chain amino acid ABC transporter ATP-binding protein/permease
COORDINATES: similar to AA sequence:RefSeq:WP_008884630.1
MurR/RpiR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007006898.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0004356 - glutamate-ammonia ligase activity [Evidence IEA]
GO:0006542 - glutamine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008875273.1
aspartate aminotransferase family protein
COORDINATES: protein motif:HMM:NF024808.2
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: protein motif:HMM:NF025885.2
sigma-54 dependent transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_004401996.1
COORDINATES: similar to AA sequence:RefSeq:WP_013169069.1
GO:0006826 - iron ion transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010394375.1
COORDINATES: protein motif:HMM:NF024811.2
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007008767.1
GO:0032559 - adenyl ribonucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008558542.1
GO:0005886 - plasma membrane [Evidence IEA]; GO:0031317 - tripartite ATP-independent periplasmic transporter complex [Evidence IEA]
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0008643 - carbohydrate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018063137.1
GO:0015740 - C4-dicarboxylate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008599184.1
TRAP transporter substrate-binding protein DctP
COORDINATES: similar to AA sequence:RefSeq:WP_018897804.1
GO:0009436 - glyoxylate catabolic process [Evidence IEA]; GO:0071704 - organic substance metabolic process [Evidence IEA]
dihydrodipicolinate synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018897805.1
COORDINATES: similar to AA sequence:RefSeq:WP_018897806.1
aspartate/glutamate racemase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018897807.1
COORDINATES: similar to AA sequence:RefSeq:WP_020591878.1
GO:0003676 - nucleic acid binding [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]; GO:0001072 - transcription antitermination factor activity, RNA binding [Evidence IEA]
autotransporter outer membrane beta-barrel domain-containing protein
COORDINATES: protein motif:HMM:NF015437.2
autoinducer binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019403147.1
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_008954178.1
COORDINATES: protein motif:HMM:NF014608.2
COORDINATES: similar to AA sequence:RefSeq:WP_015500269.1
COORDINATES: similar to AA sequence:RefSeq:WP_014871334.1
COORDINATES: nucleotide motif:Rfam:14.4:RF03058
sul1 is cis-regulatory element that is thought to sense ions involved in sulfur or methionine metabolism; They are found in Alphaproteobacteria; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_007816715.1
GO:0015103 - inorganic anion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009570509.1
GO:0016208 - AMP binding [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF018037.2
COORDINATES: similar to AA sequence:RefSeq:WP_011046481.1
GO:0009331 - glycerol-3-phosphate dehydrogenase complex [Evidence IEA]
GO:0004368 - glycerol-3-phosphate dehydrogenase (quinone) activity [Evidence IEA]
GO:0006072 - glycerol-3-phosphate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010547775.1
DeoR/GlpR family DNA-binding transcription regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013960320.1
COORDINATES: similar to AA sequence:RefSeq:WP_009177388.1
COORDINATES: similar to AA sequence:RefSeq:WP_011046366.1
COORDINATES: similar to AA sequence:RefSeq:WP_005983941.1
COORDINATES: similar to AA sequence:RefSeq:WP_011046368.1
COORDINATES: similar to AA sequence:RefSeq:WP_011046369.1
COORDINATES: similar to AA sequence:RefSeq:WP_019645227.1
GO:0004370 - glycerol kinase activity [Evidence IEA]
GO:0006071 - glycerol metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009159462.1
GO:0045892 - negative regulation of DNA-templated transcription [Evidence IEA]
BlaI/MecI/CopY family transcriptional regulator
COORDINATES: protein motif:HMM:NF017390.2
COORDINATES: similar to AA sequence:RefSeq:WP_009467837.1
substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009572469.1
COORDINATES: similar to AA sequence:RefSeq:WP_011454408.1
COORDINATES: similar to AA sequence:RefSeq:WP_009467833.1
COORDINATES: similar to AA sequence:RefSeq:WP_010442348.1
COORDINATES: similar to AA sequence:RefSeq:WP_017003121.1
COORDINATES: similar to AA sequence:RefSeq:WP_008229829.1
COORDINATES: similar to AA sequence:RefSeq:WP_005857214.1
COORDINATES: similar to AA sequence:RefSeq:WP_011909371.1
GO:0008880 - glucuronate isomerase activity [Evidence IEA]
GO:0006064 - glucuronate catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011841463.1
TRAP transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_005857220.1
COORDINATES: similar to AA sequence:RefSeq:WP_002720648.1
COORDINATES: similar to AA sequence:RefSeq:WP_009808819.1
COORDINATES: similar to AA sequence:RefSeq:WP_009566027.1
GO:0008697 - 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase activity [Evidence IEA]
GO:0045490 - pectin catabolic process [Evidence IEA]
5-dehydro-4-deoxy-D-glucuronate isomerase
COORDINATES: similar to AA sequence:RefSeq:WP_007090681.1
GO:0008678 - 2-deoxy-D-gluconate 3-dehydrogenase activity [Evidence IEA]; GO:0051287 - NAD binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0000272 - polysaccharide catabolic process [Evidence IEA]
2-dehydro-3-deoxy-D-gluconate 5-dehydrogenase KduD
COORDINATES: similar to AA sequence:RefSeq:WP_015917224.1
GO:0016616 - oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018303515.1
GO:0008927 - mannonate dehydratase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012649969.1
COORDINATES: similar to AA sequence:RefSeq:WP_002725006.1
COORDINATES: protein motif:HMM:NF013245.2
COORDINATES: similar to AA sequence:RefSeq:WP_009831442.1
COORDINATES: similar to AA sequence:RefSeq:WP_012761341.1
UDP-N-acetylglucosamine 4,6-dehydratase (inverting)
COORDINATES: similar to AA sequence:RefSeq:WP_011446892.1
UDP-glucose/GDP-mannose dehydrogenase family protein
COORDINATES: protein motif:HMM:NF013530.2
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: protein motif:HMM:TIGR01686.1
COORDINATES: protein motif:HMM:NF012334.2
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_009829880.1
COORDINATES: similar to AA sequence:RefSeq:WP_009830319.1
COORDINATES: protein motif:HMM:NF012745.2
GO:0016757 - glycosyltransferase activity [Evidence IEA]