Candidatus Mycobacterium methanotrophicum isolate Sulfur Cave plasmid unnamed, complete sequence.
Candidatus Mycobacterium methanotrophicum
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Mycobacteriaceae; Mycobacterium.
A methanotrophic Mycobacterium dominates a cave microbial ecosystem
Submitted (13-MAY-2022) Department of Organismal Biology, ULB, Avenue F.D. Roosevelt 50, Brussels 1050, Belgium
REFSEQ INFORMATION: The reference sequence is identical to\nCP097321.1.\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 :: Unicycler v. 0.5.0\nAssembly Name :: ULB_Mmet_1.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 1580.0x\nSequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 08/02/2022 04:39:25\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 5,243\nCDSs (total) :: 5,185\nGenes (coding) :: 4,419\nCDSs (with protein) :: 4,419\nGenes (RNA) :: 58\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 3\nPseudo Genes (total) :: 766\nCDSs (without protein) :: 766\nPseudo Genes (ambiguous residues) :: 0 of 766\nPseudo Genes (frameshifted) :: 305 of 766\nPseudo Genes (incomplete) :: 609 of 766\nPseudo Genes (internal stop) :: 60 of 766\nPseudo Genes (multiple problems) :: 196 of 766\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_005100839.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005100988.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_015298263.1
COORDINATES: similar to AA sequence:RefSeq:WP_011562787.1
COORDINATES: protein motif:HMM:NF024776.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011562798.1
COORDINATES: similar to AA sequence:RefSeq:WP_014358741.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011562799.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113450.1
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011562801.1
COORDINATES: similar to AA sequence:RefSeq:WP_014211262.1
COORDINATES: similar to AA sequence:RefSeq:WP_014211260.1
COORDINATES: similar to AA sequence:RefSeq:WP_011896166.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113455.1
RAMP superfamily CRISPR-associated protein
COORDINATES: similar to AA sequence:RefSeq:WP_005113456.1
COORDINATES: protein motif:HMM:NF040570.1
RNA-guided endonuclease TnpB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014814302.1
COORDINATES: similar to AA sequence:RefSeq:WP_003917834.1
COORDINATES: similar to AA sequence:RefSeq:WP_007168182.1
COORDINATES: similar to AA sequence:RefSeq:WP_007534909.1
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_006338001.1
GO:0051536 - iron-sulfur cluster binding [Evidence IEA]
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
AmmeMemoRadiSam system radical SAM enzyme
COORDINATES: protein motif:HMM:NF023043.2
COORDINATES: similar to AA sequence:RefSeq:WP_011689697.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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_076611430.1
COORDINATES: protein motif:HMM:NF033516.0
COORDINATES: protein motif:HMM:NF022388.2
COORDINATES: similar to AA sequence:RefSeq:WP_014985834.1
COORDINATES: similar to AA sequence:RefSeq:WP_005125329.1
GO:0009306 - protein secretion [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005113469.1
GO:0008236 - serine-type peptidase activity [Evidence IEA]
type VII secretion-associated serine protease mycosin
COORDINATES: similar to AA sequence:RefSeq:WP_011896188.1
GO:0003674 - molecular_function [Evidence IEA]
type VII secretion integral membrane protein EccD
COORDINATES: similar to AA sequence:RefSeq:WP_011896189.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113472.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113473.1
COORDINATES: similar to AA sequence:RefSeq:WP_011896192.1
COORDINATES: similar to AA sequence:RefSeq:WP_005114938.1
COORDINATES: similar to AA sequence:RefSeq:WP_011896194.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113477.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113478.1
GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005113479.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113480.1
bacterial transcriptional activator domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005113481.1
COORDINATES: similar to AA sequence:RefSeq:WP_005114936.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113483.1
COORDINATES: similar to AA sequence:RefSeq:WP_006243966.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019735586.1
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013076079.1
COORDINATES: similar to AA sequence:RefSeq:WP_003912326.1
Rv3717 family N-acetylmuramoyl-L-alanine amidase
COORDINATES: protein motif:HMM:NF012318.2
COORDINATES: similar to AA sequence:RefSeq:WP_003410651.1
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: protein motif:HMM:NF012383.2
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_013731335.1
COORDINATES: protein motif:HMM:NF013691.2
COORDINATES: similar to AA sequence:RefSeq:WP_007467324.1
COORDINATES: similar to AA sequence:RefSeq:WP_016888863.1
COORDINATES: similar to AA sequence:RefSeq:WP_005117362.1
COORDINATES: protein motif:HMM:NF019544.2
COORDINATES: similar to AA sequence:RefSeq:WP_005113559.1
COORDINATES: similar to AA sequence:RefSeq:WP_020425492.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113577.1
COORDINATES: similar to AA sequence:RefSeq:WP_011896234.1
COORDINATES: similar to AA sequence:RefSeq:WP_003410654.1
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: protein motif:HMM:NF039700.1
COORDINATES: protein motif:HMM:NF033517.1
COORDINATES: similar to AA sequence:RefSeq:WP_003872870.1
COORDINATES: similar to AA sequence:RefSeq:WP_003872871.1
COORDINATES: similar to AA sequence:RefSeq:WP_006436430.1
nitroreductase/quinone reductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_041241516.1
COORDINATES: protein motif:HMM:NF014273.2
ParB/Srx family N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF014898.2
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: protein motif:HMM:NF028293.2
COORDINATES: similar to AA sequence:RefSeq:WP_015302691.1
MogA/MoaB family molybdenum cofactor biosynthesis protein
COORDINATES: similar to AA sequence:RefSeq:WP_006241509.1
GO:0003824 - catalytic activity [Evidence IEA]
GO:0006777 - Mo-molybdopterin cofactor biosynthetic process [Evidence IEA]
cyclic pyranopterin monophosphate synthase MoaC
COORDINATES: similar to AA sequence:RefSeq:WP_015289039.1
COORDINATES: similar to AA sequence:RefSeq:NP_215381.1
molybdenum cofactor biosynthesis protein MoaE
COORDINATES: similar to AA sequence:RefSeq:WP_003404559.1
COORDINATES: similar to AA sequence:RefSeq:WP_014588142.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008258197.1
COORDINATES: similar to AA sequence:RefSeq:WP_020729963.1
COORDINATES: protein motif:HMM:NF012517.2
LLM class flavin-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:NP_214802.1
COORDINATES: similar to AA sequence:RefSeq:NP_214801.1
COORDINATES: protein motif:HMM:NF039174.1
COORDINATES: similar to AA sequence:RefSeq:WP_003401488.1
COORDINATES: similar to AA sequence:RefSeq:YP_177710.1
COORDINATES: similar to AA sequence:RefSeq:WP_015292158.1
pyridoxamine 5'-phosphate oxidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012833248.1
bifunctional nitrate reductase/sulfite reductase flavoprotein subunit alpha
COORDINATES: protein motif:HMM:NF015418.2
NTP transferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018180868.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0050661 - NADP binding [Evidence IEA]; GO:0008942 - nitrite reductase [NAD(P)H] activity [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0042128 - nitrate assimilation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007317363.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]; GO:0008942 - nitrite reductase [NAD(P)H] activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003906680.1
COORDINATES: similar to AA sequence:RefSeq:WP_007771425.1
COORDINATES: similar to AA sequence:RefSeq:WP_014381866.1
COORDINATES: similar to AA sequence:RefSeq:WP_003874865.1
COORDINATES: similar to AA sequence:RefSeq:WP_006240981.1
COORDINATES: similar to AA sequence:RefSeq:WP_003891750.1
CbiX/SirB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018180872.1
GO:0004852 - uroporphyrinogen-III synthase activity [Evidence IEA]
GO:0006780 - uroporphyrinogen III biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:NP_214775.1
COORDINATES: similar to AA sequence:RefSeq:WP_005627443.1
COORDINATES: similar to AA sequence:RefSeq:WP_005204072.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007510997.1
COORDINATES: similar to AA sequence:RefSeq:WP_011560613.1
COORDINATES: similar to AA sequence:RefSeq:WP_020646403.1
molybdopterin oxidoreductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003889413.1
COORDINATES: similar to AA sequence:RefSeq:WP_011726198.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113652.1
COORDINATES: similar to AA sequence:RefSeq:WP_005114897.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113659.1
COORDINATES: similar to AA sequence:RefSeq:WP_015739658.1
COORDINATES: similar to AA sequence:RefSeq:WP_007264320.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113660.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113661.1
COORDINATES: similar to AA sequence:RefSeq:WP_003934208.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113671.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113673.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113675.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113676.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005113681.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113683.1
COORDINATES: similar to AA sequence:RefSeq:WP_005114892.1
COORDINATES: similar to AA sequence:RefSeq:WP_005114891.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113687.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113688.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113689.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113690.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113691.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113692.1
COORDINATES: similar to AA sequence:RefSeq:WP_005115661.1
COORDINATES: protein motif:HMM:NF014520.2
COORDINATES: similar to AA sequence:RefSeq:WP_005113696.1
COORDINATES: protein motif:HMM:NF019416.2
COORDINATES: protein motif:HMM:NF024109.2
COORDINATES: similar to AA sequence:RefSeq:WP_011562939.1
COORDINATES: similar to AA sequence:RefSeq:WP_011211157.1
COORDINATES: similar to AA sequence:RefSeq:WP_011562943.1
COORDINATES: similar to AA sequence:RefSeq:WP_009612652.1
COORDINATES: protein motif:HMM:NF016724.2
COORDINATES: similar to AA sequence:RefSeq:WP_016894288.1
COORDINATES: similar to AA sequence:RefSeq:WP_005113700.1
COORDINATES: protein motif:HMM:NF019146.2
COORDINATES: similar to AA sequence:RefSeq:WP_018513759.1
GO:0009007 - site-specific DNA-methyltransferase (adenine-specific) activity [Evidence IEA]
GO:0032775 - DNA methylation on adenine [Evidence IEA]
COORDINATES: protein motif:HMM:NF013704.2
COORDINATES: protein motif:HMM:TIGR00665.1
GO:0003678 - DNA helicase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005113498.1
COORDINATES: similar to AA sequence:RefSeq:WP_017555355.1
GO:0004527 - exonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015298233.1
COORDINATES: similar to AA sequence:RefSeq:WP_011562810.1
COORDINATES: similar to AA sequence:RefSeq:WP_011562809.1
COORDINATES: protein motif:HMM:NF025577.2
COORDINATES: similar to AA sequence:RefSeq:WP_011731505.1
COORDINATES: similar to AA sequence:RefSeq:WP_013827177.1
COORDINATES: protein motif:HMM:NF025120.2
COORDINATES: protein motif:HMM:NF024935.2
COORDINATES: similar to AA sequence:RefSeq:WP_019972665.1
COORDINATES: similar to AA sequence:RefSeq:WP_020638857.1
COORDINATES: similar to AA sequence:RefSeq:WP_010924580.1
COORDINATES: protein motif:HMM:NF017148.2
COORDINATES: similar to AA sequence:RefSeq:WP_005241298.1
COORDINATES: protein motif:HMM:NF024910.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002615122.1
COORDINATES: similar to AA sequence:RefSeq:WP_011937052.1
frameshifted; 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:NP_217436.1
COORDINATES: similar to AA sequence:RefSeq:WP_007241104.1
COORDINATES: similar to AA sequence:RefSeq:WP_006361115.1
dimethylamine monooxygenase subunit DmmA family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007170038.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611236.1
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_014001811.1
GO:0003964 - RNA-directed DNA polymerase activity [Evidence IEA]
GO:0000373 - Group II intron splicing [Evidence IEA]
group II intron reverse transcriptase/maturase
COORDINATES: protein motif:HMM:NF024673.2
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: similar to AA sequence:RefSeq:WP_014805315.1
COORDINATES: similar to AA sequence:RefSeq:WP_011780469.1
COORDINATES: protein motif:HMM:NF012870.2
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_020104872.1
COORDINATES: similar to AA sequence:RefSeq:WP_018786900.1
COORDINATES: similar to AA sequence:RefSeq:WP_018804005.1
COORDINATES: similar to AA sequence:RefSeq:WP_003920682.1
COORDINATES: similar to AA sequence:RefSeq:WP_011593731.1
COORDINATES: protein motif:HMM:NF019984.2
COORDINATES: similar to AA sequence:RefSeq:WP_032491516.1
COORDINATES: similar to AA sequence:RefSeq:WP_020460566.1
COORDINATES: similar to AA sequence:RefSeq:WP_010149348.1
COORDINATES: similar to AA sequence:RefSeq:WP_006368555.1
COORDINATES: similar to AA sequence:RefSeq:WP_007241102.1
COORDINATES: similar to AA sequence:RefSeq:WP_006438061.1
COORDINATES: similar to AA sequence:RefSeq:WP_013427744.1
COORDINATES: similar to AA sequence:RefSeq:WP_012836398.1
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF024908.2
COORDINATES: similar to AA sequence:RefSeq:WP_015747176.1
COORDINATES: protein motif:HMM:NF025063.2
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009935621.1
COORDINATES: similar to AA sequence:RefSeq:WP_013491709.1
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.
COORDINATES: protein motif:HMM:NF013828.2
COORDINATES: similar to AA sequence:RefSeq:WP_011777794.1
COORDINATES: similar to AA sequence:RefSeq:WP_005265299.1
COORDINATES: similar to AA sequence:RefSeq:WP_013476016.1
COORDINATES: similar to AA sequence:RefSeq:WP_015620709.1
COORDINATES: similar to AA sequence:RefSeq:WP_018255068.1
COORDINATES: similar to AA sequence:RefSeq:WP_011777792.1
COORDINATES: similar to AA sequence:RefSeq:WP_007241106.1
GO:0004356 - glutamate-ammonia ligase activity [Evidence IEA]
GO:0006542 - glutamine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004021064.1
COORDINATES: similar to AA sequence:RefSeq:WP_011782630.1
COORDINATES: similar to AA sequence:RefSeq:WP_005138467.1
FMN-binding glutamate synthase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020172889.1
COORDINATES: protein motif:HMM:NF013753.2
COORDINATES: similar to AA sequence:RefSeq:WP_076612361.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611168.1
COORDINATES: similar to AA sequence:RefSeq:WP_007170035.1
COORDINATES: protein motif:HMM:NF015038.2
COORDINATES: similar to AA sequence:RefSeq:WP_003887539.1
COORDINATES: similar to AA sequence:RefSeq:WP_005245523.1