Asticcacaulis excentricus CB 48 plasmid pASTEX02, complete sequence.
Bacteria; Pseudomonadota; Alphaproteobacteria; Caulobacterales; Caulobacteraceae; Asticcacaulis.
Complete sequence of plasmid2 of Asticcacaulis excentricus CB 48
Submitted (16-DEC-2010) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP002398.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4085008\nSource DNA and organism available from Yves V. Brun\n(ybrun@indiana.edu)\nContacts: Yves V. Brun (ybrun@indiana.edu)\n Tanja Woyke (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. it is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\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-Data-START##\ninvestigation_type :: bacteria_archaea\nproject_name :: Asticcacaulis excentricus CB 48\ncollection_date :: Missing\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Missing\nenvironment :: Fresh water\nnum_replicons :: 4\nref_biomaterial :: CB 48, AC 48, ATCC 15261, DSM 4724, NCIB\n 9791\nbiotic_relationship :: Free living\ntrophic_level :: Missing\nrel_to_oxygen :: Aerobe\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi02052\nType Strain :: Yes\nGreengenes ID :: 24445\nIsolation Site :: Pondwater\nCell Shape :: Rod-shaped\nMotility :: Motile\nSporulation :: Nonsporulating\nTemperature Range :: Mesophile\nGram Staining :: Gram-\nDiseases :: None\n##MIGS-Data-END##\n\n##Genome-Assembly-Data-START##\nFinishing Goal :: Finished\nCurrent Finishing Status :: Finished\nAssembly Method :: Newbler v. 2.3\nGenome Coverage :: 30x\nSequencing Technology :: 454/Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/02/2023 02:00:36\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) :: 3,860\nCDSs (total) :: 3,798\nGenes (coding) :: 3,768\nCDSs (with protein) :: 3,768\nGenes (RNA) :: 62\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 4\nPseudo Genes (total) :: 30\nCDSs (without protein) :: 30\nPseudo Genes (ambiguous residues) :: 0 of 30\nPseudo Genes (frameshifted) :: 3 of 30\nPseudo Genes (incomplete) :: 28 of 30\nPseudo Genes (internal stop) :: 3 of 30\nPseudo Genes (multiple problems) :: 4 of 30\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:TIGR03696.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
RHS repeat-associated core domain-containing protein
COORDINATES: protein motif:HMM:NF017411.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611237.1
GO:0004803 - transposase activity [Evidence IEA]
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_076611875.1
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: protein motif:HMM:NF025304.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF033563.0
COORDINATES: protein motif:HMM:NF019227.2
COORDINATES: similar to AA sequence:RefSeq:WP_006272047.1
type II secretion system F family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006272046.1
GO:0009306 - protein secretion [Evidence IEA]
COORDINATES: protein motif:HMM:NF013632.2
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006272044.1
GO:0015627 - type II protein secretion system complex [Evidence IEA]
GO:0015628 - protein secretion by the type II secretion system [Evidence IEA]
type II secretion system major pseudopilin GspG
COORDINATES: similar to AA sequence:RefSeq:WP_006272042.1
COORDINATES: protein motif:HMM:NF022201.2
prepilin-type N-terminal cleavage/methylation domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013481143.1
COORDINATES: similar to AA sequence:RefSeq:WP_043766426.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611329.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013481163.1
COORDINATES: protein motif:HMM:TIGR01643.1
COORDINATES: similar to AA sequence:RefSeq:WP_000983249.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611353.1
COORDINATES: similar to AA sequence:RefSeq:WP_012649065.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612068.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:NF041492.1
COORDINATES: protein motif:HMM:NF021897.2
type IV secretion system DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:TIGR00621.2
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_017980720.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004521 - endoribonuclease activity [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_018081942.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0070063 - RNA polymerase binding [Evidence IEA]
GO:0032784 - regulation of DNA-templated transcription elongation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011315350.1
COORDINATES: protein motif:HMM:NF015205.2
COORDINATES: similar to AA sequence:RefSeq:WP_012813213.1
COORDINATES: similar to AA sequence:RefSeq:WP_014194469.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF022151.2
COORDINATES: similar to AA sequence:RefSeq:WP_008887427.1
GO:0016746 - acyltransferase activity [Evidence IEA]
GO:0046677 - response to antibiotic [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF037521.2
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012275029.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_006270798.1
COORDINATES: similar to AA sequence:RefSeq:WP_008671343.1
COORDINATES: protein motif:HMM:NF015393.2
COORDINATES: similar to AA sequence:RefSeq:WP_006270801.1
COORDINATES: similar to AA sequence:RefSeq:WP_006270802.1
type IV conjugative transfer system protein TraL
COORDINATES: protein motif:HMM:NF017152.2
type IV conjugative transfer system protein TraE
COORDINATES: protein motif:HMM:NF018311.2
type-F conjugative transfer system secretin TraK
COORDINATES: protein motif:HMM:NF015688.2
COORDINATES: protein motif:HMM:NF024498.2
COORDINATES: protein motif:HMM:NF021212.2
COORDINATES: protein motif:HMM:TIGR02746.1
purine-cytosine permease-like transporter
COORDINATES: protein motif:HMM:NF021213.2
COORDINATES: similar to AA sequence:RefSeq:WP_006270811.1
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006465 - signal peptide processing [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR02743.1
type-F conjugative transfer system protein TraW
COORDINATES: similar to AA sequence:RefSeq:WP_019054283.1
conjugal transfer pilus assembly protein TraU
COORDINATES: protein motif:HMM:TIGR02742.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: protein motif:HMM:NF018666.2
COORDINATES: similar to AA sequence:RefSeq:WP_006270818.1
COORDINATES: similar to AA sequence:RefSeq:WP_006270819.1
COORDINATES: protein motif:HMM:NF019530.2
conjugal transfer protein TraG N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013500677.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: similar to AA sequence:RefSeq:WP_018388129.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007788031.1
COORDINATES: similar to AA sequence:RefSeq:WP_013479936.1
GO:0030261 - chromosome condensation [Evidence IEA]
COORDINATES: protein motif:HMM:NF025438.2
COORDINATES: protein motif:HMM:NF012488.2
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003630701.1
COORDINATES: similar to AA sequence:RefSeq:WP_003630700.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831994.1
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: protein motif:HMM:NF012298.2
GO:0004672 - protein kinase activity [Evidence IEA]
GO:0006468 - protein phosphorylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF015210.2
COORDINATES: similar to AA sequence:RefSeq:WP_014199075.1
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_043765841.1
COORDINATES: similar to AA sequence:RefSeq:WP_005852102.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_018687670.1
GO:0030612 - arsenate reductase (thioredoxin) activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008989060.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR00014.1
GO:0008794 - arsenate reductase (glutaredoxin) activity [Evidence IEA]
This arsenate reductase requires both glutathione and glutaredoxin to convert arsenate to arsenite, after which the efflux transporter formed by ArsA and ArsB can extrude the arsenite from the cell, providing resistance.; 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_009030456.1
GO:0003674 - molecular_function [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014087222.1
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:NF040501.1
arsenic resistance N-acetyltransferase ArsN2
COORDINATES: protein motif:HMM:NF024765.2
COORDINATES: similar to AA sequence:RefSeq:WP_006270831.1
COORDINATES: similar to AA sequence:RefSeq:WP_012561204.1
COORDINATES: similar to AA sequence:RefSeq:WP_012092651.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012330183.1
COORDINATES: similar to AA sequence:RefSeq:WP_012286383.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0005507 - copper ion binding [Evidence IEA]
GO:0006878 - cellular copper ion homeostasis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006270739.1
GO:0005507 - copper ion binding [Evidence IEA]; GO:0005375 - copper ion transmembrane transporter activity [Evidence IEA]
GO:0006825 - copper ion transport [Evidence IEA]
copper resistance system multicopper oxidase
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_012286352.1
COORDINATES: similar to AA sequence:RefSeq:WP_012286346.1
COORDINATES: similar to AA sequence:RefSeq:WP_013079628.1
GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006273360.1
GO:0009425 - bacterial-type flagellum basal body [Evidence IEA]
GO:0005198 - structural molecule activity [Evidence IEA]
GO:0001539 - cilium or flagellum-dependent cell motility [Evidence IEA]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003046442.1
GO:0015562 - efflux transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007406384.1
GO:0005215 - transporter activity [Evidence IEA]
efflux RND transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_010405534.1
COORDINATES: protein motif:HMM:NF023036.2
COORDINATES: similar to AA sequence:RefSeq:WP_011542822.1
COORDINATES: protein motif:HMM:NF025636.2
TetR-like C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018084009.1
metal-sensitive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009573624.1
COORDINATES: similar to AA sequence:RefSeq:WP_012286361.1
COORDINATES: similar to AA sequence:RefSeq:WP_014332221.1
COORDINATES: protein motif:HMM:NF014053.2
COORDINATES: similar to AA sequence:RefSeq:WP_009452615.1
COORDINATES: similar to AA sequence:RefSeq:WP_018251253.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
cation diffusion facilitator family transporter
COORDINATES: similar to AA sequence:RefSeq:WP_017183559.1
GO:0051139 - metal cation:proton antiporter activity [Evidence IEA]
CusA/CzcA family heavy metal efflux RND transporter
COORDINATES: protein motif:HMM:TIGR01730.1
COORDINATES: similar to AA sequence:RefSeq:WP_006271821.1