Aromatoleum aromaticum EbN1 plasmid 2, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Rhodocyclales; Rhodocyclaceae; Aromatoleum.
The genome sequence of an anaerobic aromatic-degrading denitrifying bacterium, strain EbN1
Submitted (16-NOV-2004) Max Planck Institut Fuer Molekulare Genetik, proScience Ihnestrasse 73, Berlin, 14195 Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCR555308.1.\n-------------- Genome Center\nCenter: Max-Planck-Institute for Molecular Genetics Center code:\nMPIMG\nsee http://www.micro-genomes.mpg.de/ebn1/ for detailed gene\nannotation annotation of the genome was performed by MPI Bremen,\nMPI Berlin and University of Freiburg.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/05/2023 01:28:20\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) :: 4,580\nCDSs (total) :: 4,509\nGenes (coding) :: 4,398\nCDSs (with protein) :: 4,398\nGenes (RNA) :: 71\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 56\nncRNAs :: 3\nPseudo Genes (total) :: 111\nCDSs (without protein) :: 111\nPseudo Genes (ambiguous residues) :: 0 of 111\nPseudo Genes (frameshifted) :: 21 of 111\nPseudo Genes (incomplete) :: 101 of 111\nPseudo Genes (internal stop) :: 12 of 111\nPseudo Genes (multiple problems) :: 23 of 111\nCRISPR Arrays :: 5\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_004338722.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011299682.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008905404.1
GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012780.2
COORDINATES: similar to AA sequence:RefSeq:WP_015435293.1
COORDINATES: similar to AA sequence:RefSeq:WP_015435294.1
2-oxoacid:acceptor oxidoreductase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_018989693.1
2-oxoacid:ferredoxin oxidoreductase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_003819290.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
electron transfer flavoprotein subunit beta/FixA family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015436355.1
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: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_011235906.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF018714.2
COORDINATES: similar to AA sequence:RefSeq:WP_000283041.1
COORDINATES: similar to AA sequence:RefSeq:WP_012806830.1
COORDINATES: protein motif:HMM:NF010467.0
COORDINATES: similar to AA sequence:RefSeq:WP_010676131.1
COORDINATES: similar to AA sequence:RefSeq:WP_011013264.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_012806826.1
COORDINATES: similar to AA sequence:RefSeq:WP_020308570.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_011798704.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114050.1
COORDINATES: similar to AA sequence:RefSeq:WP_000802794.1
P-type conjugative transfer protein TrbJ
COORDINATES: similar to AA sequence:RefSeq:WP_000644148.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009292 - horizontal gene transfer [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012806821.1
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_010890138.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_011255139.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798696.1
COORDINATES: similar to AA sequence:RefSeq:WP_014161169.1
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: similar to AA sequence:RefSeq:WP_013294665.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013294664.1
COORDINATES: protein motif:HMM:NF013579.2
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019577260.1
COORDINATES: similar to AA sequence:RefSeq:WP_015767685.1
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007396268.1
GO:0004521 - endoribonuclease activity [Evidence IEA]; GO:0005515 - protein binding [Evidence IEA]
putative toxin-antitoxin system toxin component, PIN family
COORDINATES: similar to AA sequence:RefSeq:WP_020817756.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011491341.1
COORDINATES: similar to AA sequence:RefSeq:WP_004341342.1
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_006451607.1
COORDINATES: protein motif:HMM:NF037660.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_018990646.1
COORDINATES: similar to AA sequence:RefSeq:WP_002926033.1
COORDINATES: similar to AA sequence:RefSeq:WP_015434119.1
COORDINATES: similar to AA sequence:RefSeq:WP_009047233.1
COORDINATES: similar to AA sequence:RefSeq:WP_020482757.1
COORDINATES: similar to AA sequence:RefSeq:WP_000286964.1
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: similar to AA sequence:RefSeq:WP_017879696.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014579489.1
COORDINATES: similar to AA sequence:RefSeq:WP_008929975.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000086826.1
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0008233 - peptidase activity [Evidence IEA]
conjugative transfer signal peptidase TraF
COORDINATES: similar to AA sequence:RefSeq:WP_011655356.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011137971.1
TraI/MobA(P) family conjugative relaxase
COORDINATES: similar to AA sequence:RefSeq:WP_011255188.1
conjugal transfer transcriptional regulator TraJ
COORDINATES: similar to AA sequence:RefSeq:WP_001127128.1
COORDINATES: similar to AA sequence:RefSeq:WP_011304098.1
COORDINATES: similar to AA sequence:RefSeq:WP_020405847.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558300.1
GO:0004803 - transposase activity [Evidence IEA]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS5-like element ISAzo36 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_018991470.1
COORDINATES: similar to AA sequence:RefSeq:WP_018991469.1
GO:0005215 - transporter activity [Evidence IEA]
TAXI family TRAP transporter solute-binding subunit
COORDINATES: similar to AA sequence:RefSeq:WP_076612319.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018991468.1
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018991467.1
GO:0008410 - CoA-transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011255033.1
GO:0016831 - carboxy-lyase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011255032.1
COORDINATES: similar to AA sequence:RefSeq:WP_018992956.1
COORDINATES: similar to AA sequence:RefSeq:WP_018992952.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018992933.1
COORDINATES: similar to AA sequence:RefSeq:WP_018992932.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018992931.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0005215 - transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018992930.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_018992959.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011255022.1
GO:0004452 - isopentenyl-diphosphate delta-isomerase activity [Evidence IEA]
GO:0008299 - isoprenoid biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011236184.1
IS1182-like element ISAzo1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_076611862.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612264.1
IS21-like element ISAzo17 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_011236051.1
IS21-like element ISAzo17 family helper ATPase IstB
COORDINATES: similar to AA sequence:RefSeq:WP_011463512.1
GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF024787.2
COORDINATES: similar to AA sequence:RefSeq:WP_004372359.1
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: similar to AA sequence:RefSeq:WP_011236041.1
COORDINATES: similar to AA sequence:RefSeq:WP_011236151.1
IS630-like element ISAzo32 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_004248766.1
COORDINATES: similar to AA sequence:RefSeq:WP_015342858.1
COORDINATES: similar to AA sequence:RefSeq:WP_011486036.1
GO:0016787 - hydrolase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011255007.1
IS1182-like element ISAzo2 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_018240406.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612315.1
IS91-like element ISAzo26 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_018079675.1
COORDINATES: similar to AA sequence:RefSeq:WP_011238838.1
IS21-like element ISAzo4 family helper ATPase IstB
COORDINATES: similar to AA sequence:RefSeq:WP_058167704.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS21-like element ISAzo4 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_010875067.1
COORDINATES: similar to AA sequence:RefSeq:WP_007579178.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007579179.1
COORDINATES: similar to AA sequence:RefSeq:WP_012806801.1
COORDINATES: similar to AA sequence:RefSeq:WP_012806800.1
COORDINATES: similar to AA sequence:RefSeq:WP_010875220.1
COORDINATES: similar to AA sequence:RefSeq:WP_017406449.1
COORDINATES: similar to AA sequence:RefSeq:WP_010875218.1
COORDINATES: similar to AA sequence:RefSeq:WP_008903159.1
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_018989214.1
COORDINATES: similar to AA sequence:RefSeq:WP_011237305.1
IS1634-like element ISAzo6 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_002930637.1
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: similar to AA sequence:RefSeq:WP_011236109.1
COORDINATES: similar to AA sequence:RefSeq:WP_008903160.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798727.1
COORDINATES: similar to AA sequence:RefSeq:WP_011805635.1
COORDINATES: similar to AA sequence:RefSeq:WP_012478226.1
COORDINATES: similar to AA sequence:RefSeq:WP_014086847.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: similar to AA sequence:RefSeq:WP_015435037.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890108.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_011114061.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890110.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611295.1
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: similar to AA sequence:RefSeq:WP_011236000.1
IS21-like element ISAZo16 family helper ATPase IstB
COORDINATES: similar to AA sequence:RefSeq:WP_076612300.1
IS21-like element ISAZo16 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_076612217.1
COORDINATES: protein motif:HMM:NF020387.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611347.1
COORDINATES: similar to AA sequence:RefSeq:WP_011765766.1
COORDINATES: protein motif:HMM:NF017528.2
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_011236212.1
IS66-like element ISAzo19 family transposase
COORDINATES: protein motif:HMM:TIGR00180.1
COORDINATES: similar to AA sequence:RefSeq:WP_019142565.1
COORDINATES: similar to AA sequence:RefSeq:WP_011254953.1
IS630-like element ISAzo33 family transposase
COORDINATES: protein motif:HMM:NF039330.1
COORDINATES: similar to AA sequence:RefSeq:WP_018079548.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611358.1
IS5-like element ISAzo38 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_086558289.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS701-like element ISAzo35 family transposase
COORDINATES: protein motif:HMM:NF024753.2
PQQ-binding-like beta-propeller repeat protein
COORDINATES: protein motif:HMM:NF013086.2
COORDINATES: similar to AA sequence:RefSeq:WP_004261291.1
COORDINATES: protein motif:HMM:NF015438.2
MOSC N-terminal beta barrel domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019578922.1
COORDINATES: similar to AA sequence:RefSeq:WP_006434439.1
COORDINATES: similar to AA sequence:RefSeq:WP_018273244.1
COORDINATES: similar to AA sequence:RefSeq:WP_015004358.1
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_076611458.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611997.1
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013956837.1
crotonase/enoyl-CoA hydratase family protein
COORDINATES: protein motif:HMM:NF014085.2
GO:0043814 - phospholactate guanylyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011951262.1
GO:0043743 - LPPG:FO 2-phospho-L-lactate transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018389507.1
GO:0043773 - coenzyme F420-0 gamma-glutamyl ligase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015460345.1
GO:0016651 - oxidoreductase activity, acting on NAD(P)H [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007918169.1
5-amino-6-(D-ribitylamino)uracil--L-tyrosine 4-hydroxyphenyl transferase CofH
COORDINATES: protein motif:HMM:NF024304.2
pyridoxamine 5'-phosphate oxidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008327636.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024950.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611088.1
IS256-like element ISAzo34 family transposase
COORDINATES: protein motif:HMM:NF012334.2
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_012974015.1
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_009764226.1
COORDINATES: similar to AA sequence:RefSeq:WP_014384938.1
COORDINATES: protein motif:HMM:NF013920.2
Zn-ribbon domain-containing OB-fold protein
COORDINATES: similar to AA sequence:RefSeq:WP_018990690.1
COORDINATES: similar to AA sequence:RefSeq:WP_012285949.1
enoyl-CoA hydratase/isomerase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005666956.1
COORDINATES: similar to AA sequence:RefSeq:WP_003244798.1
GO:0016746 - acyltransferase activity [Evidence IEA]
GO:0006635 - fatty acid beta-oxidation [Evidence IEA]
COORDINATES: protein motif:HMM:NF026220.2
COORDINATES: similar to AA sequence:RefSeq:WP_020164845.1
COORDINATES: protein motif:HMM:NF018716.2
COORDINATES: similar to AA sequence:RefSeq:WP_010233325.1
nuclear transport factor 2 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015435902.1
COORDINATES: similar to AA sequence:RefSeq:WP_016447274.1
acetyl-CoA C-acyltransferase family protein