Methylocystis heyeri strain H2 plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Methylocystaceae; Methylocystis.
The genome sequence of Methylocystis heyeri
Submitted (12-NOV-2019) Laboratory of Wetland Microbiology, Federal Research Centre 'Fundamentals of Biotechnology' of RAS, Leninsky prospect, Moscow 119071, Russian Federation
Submitted (19-MAR-2019) Laboratory of Wetland Microbiology, Federal Research Centre 'Fundamentals of Biotechnology' of Ras, Leninsky Prospect, Moscow 119071, Russian Federation
REFSEQ INFORMATION: The reference sequence is identical to\nCP046053.1.\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 :: SPAdes v. june-2019\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 292.0x\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/06/2023 01:19:18\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) :: 4,295\nCDSs (total) :: 4,229\nGenes (coding) :: 4,180\nCDSs (with protein) :: 4,180\nGenes (RNA) :: 66\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 53\nncRNAs :: 4\nPseudo Genes (total) :: 49\nCDSs (without protein) :: 49\nPseudo Genes (ambiguous residues) :: 0 of 49\nPseudo Genes (frameshifted) :: 17 of 49\nPseudo Genes (incomplete) :: 39 of 49\nPseudo Genes (internal stop) :: 8 of 49\nPseudo Genes (multiple problems) :: 13 of 49\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_012631032.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017969311.1
COORDINATES: similar to AA sequence:RefSeq:WP_018268287.1
COORDINATES: similar to AA sequence:RefSeq:WP_011578805.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007706637.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013293436.1
type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009859457.1
COORDINATES: similar to AA sequence:RefSeq:WP_016919321.1
COORDINATES: similar to AA sequence:RefSeq:WP_014891809.1
COORDINATES: similar to AA sequence:RefSeq:WP_018409334.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016844791.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_018409333.1
COORDINATES: protein motif:HMM:NF024864.2
COORDINATES: similar to AA sequence:RefSeq:WP_010684649.1
GO:0004359 - glutaminase activity [Evidence IEA]
GO:0006541 - glutamine metabolic process [Evidence IEA]
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: protein motif:HMM:NF023398.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008105956.1
GO:0008199 - ferric iron binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF019351.2
GO:0005507 - copper ion binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
multicopper oxidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009030770.1
GO:0017013 - protein flavinylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009030769.1
COORDINATES: similar to AA sequence:RefSeq:WP_012042783.1
COORDINATES: similar to AA sequence:RefSeq:WP_013039168.1
COORDINATES: similar to AA sequence:RefSeq:WP_015867569.1
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_018267718.1
GO:0004587 - ornithine-oxo-acid transaminase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012115479.1
COORDINATES: similar to AA sequence:RefSeq:WP_014892219.1
COORDINATES: similar to AA sequence:RefSeq:WP_018707508.1
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_018407219.1
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_018407220.1
GO:0019346 - transsulfuration [Evidence IEA]
cystathionine gamma-synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007022928.1
COORDINATES: protein motif:HMM:NF024989.2
COORDINATES: similar to AA sequence:RefSeq:WP_010530341.1
COORDINATES: protein motif:HMM:NF017758.2
COORDINATES: similar to AA sequence:RefSeq:WP_014889719.1
COORDINATES: protein motif:HMM:NF025137.2
COORDINATES: similar to AA sequence:RefSeq:WP_014762459.1
4a-hydroxytetrahydrobiopterin dehydratase
COORDINATES: similar to AA sequence:RefSeq:WP_008877160.1
GO:0051287 - NAD binding [Evidence IEA]; GO:0016651 - oxidoreductase activity, acting on NAD(P)H [Evidence IEA]; GO:0048038 - quinone binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018405944.1
GO:0042314 - bacteriochlorophyll binding [Evidence IEA]
GO:0019684 - photosynthesis, light reaction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011567936.1
COORDINATES: similar to AA sequence:RefSeq:WP_012384305.1
COORDINATES: similar to AA sequence:RefSeq:WP_016921610.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0004174 - electron-transferring-flavoprotein dehydrogenase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
GO:0022900 - electron transport chain [Evidence IEA]
electron transfer flavoprotein-ubiquinone oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_003611264.1
COORDINATES: similar to AA sequence:RefSeq:WP_020180403.1
GO:0008863 - formate dehydrogenase (NAD+) activity [Evidence IEA]; GO:0051287 - NAD binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010961180.1
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_020174428.1
GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds [Evidence IEA]
formylmethanofuran dehydrogenase subunit A
COORDINATES: similar to AA sequence:RefSeq:WP_015343352.1
GO:0004096 - catalase activity [Evidence IEA]; GO:0004601 - peroxidase activity [Evidence IEA]
GO:0006979 - response to oxidative stress [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003596877.1
COORDINATES: similar to AA sequence:RefSeq:WP_008495791.1
COORDINATES: similar to AA sequence:RefSeq:WP_012455878.1
COORDINATES: similar to AA sequence:RefSeq:WP_003596865.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016919231.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: protein motif:HMM:NF013970.2
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_003615620.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011504040.1
COORDINATES: similar to AA sequence:RefSeq:WP_011433321.1
COORDINATES: similar to AA sequence:RefSeq:WP_011500447.1
COORDINATES: similar to AA sequence:RefSeq:WP_011509869.1
COORDINATES: similar to AA sequence:RefSeq:WP_011500445.1
phospholipase D-like domain-containing protein
COORDINATES: protein motif:HMM:NF015210.2
COORDINATES: protein motif:HMM:NF019151.2
COORDINATES: protein motif:HMM:NF016159.2
COORDINATES: similar to AA sequence:RefSeq:WP_015597239.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012554554.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_006023701.1
COORDINATES: similar to AA sequence:RefSeq:WP_014745736.1
COORDINATES: similar to AA sequence:RefSeq:WP_018318992.1
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_016510927.1
COORDINATES: similar to AA sequence:RefSeq:WP_010408889.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831884.1
COORDINATES: similar to AA sequence:RefSeq:WP_011665428.1
strawberry notch C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011091007.1
COORDINATES: similar to AA sequence:RefSeq:WP_014891314.1
COORDINATES: similar to AA sequence:RefSeq:WP_012564801.1
COORDINATES: similar to AA sequence:RefSeq:WP_011473987.1
COORDINATES: similar to AA sequence:RefSeq:WP_011502704.1
COORDINATES: similar to AA sequence:RefSeq:WP_008828166.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0004386 - helicase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020184231.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010398844.1
COORDINATES: similar to AA sequence:RefSeq:WP_007636161.1
COORDINATES: similar to AA sequence:RefSeq:WP_016919205.1
COORDINATES: protein motif:HMM:NF017524.2
plasmid mobilization relaxosome protein MobC
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: similar to AA sequence:RefSeq:WP_003596853.1
COORDINATES: similar to AA sequence:RefSeq:WP_003596672.1
COORDINATES: protein motif:HMM:NF025813.2
COORDINATES: similar to AA sequence:RefSeq:WP_012753790.1
COORDINATES: similar to AA sequence:RefSeq:WP_012080593.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF017885.2
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010915833.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012653142.1
COORDINATES: similar to AA sequence:RefSeq:WP_016919185.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_016919184.1
COORDINATES: protein motif:HMM:NF016491.2
COORDINATES: similar to AA sequence:RefSeq:WP_016919183.1
COORDINATES: similar to AA sequence:RefSeq:WP_016919181.1
VirB4 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_004129409.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_004129414.1
COORDINATES: similar to AA sequence:RefSeq:WP_009762575.1
GO:0016798 - hydrolase activity, acting on glycosyl bonds [Evidence IEA]
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009762581.1
COORDINATES: protein motif:HMM:NF024755.2
COORDINATES: similar to AA sequence:RefSeq:WP_014892447.1
GO:0030552 - cAMP binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013648605.1
COORDINATES: protein motif:HMM:NF024491.2
COORDINATES: protein motif:HMM:NF025107.2
COORDINATES: protein motif:HMM:NF013884.2
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016919211.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]; GO:0006351 - DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016919196.1
GO:0004386 - helicase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF019997.2