Celeribacter indicus strain P73 plasmid pP73E, complete sequence.
type: Entry
definition: Celeribacter indicus strain P73 plasmid pP73E, complete sequence.
sequence version: NZ_CP004398.1
sequence date: 2023-03-12
sequence: sequence
division: CON
label: NZ_CP004398.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN03280159
keyword: RefSeq
source: Celeribacter indicus
organism: Celeribacter indicus
taxonomy: Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Celeribacter.
reference: 1
references: 25582347
reference: 2
references: 25256706
reference: 3
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP004398.1.\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 :: Soapdenovo v. 1.05\nGenome Coverage :: 488x\nSequencing Technology :: Sanger dideoxy sequencing; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/12/2023 15:31:54\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,918\nCDSs (total) :: 4,861\nGenes (coding) :: 4,801\nCDSs (with protein) :: 4,801\nGenes (RNA) :: 57\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 3\nPseudo Genes (total) :: 60\nCDSs (without protein) :: 60\nPseudo Genes (ambiguous residues) :: 0 of 60\nPseudo Genes (frameshifted) :: 20 of 60\nPseudo Genes (incomplete) :: 51 of 60\nPseudo Genes (internal stop) :: 4 of 60\nPseudo Genes (multiple problems) :: 13 of 60\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 7053
topology: circular
so has quality: SO_0000988
location: 1..7053
location: region:1-7053:1
RO_0002162: 1208324

NZ_CP004398
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN03280159
type: BioSample
SIO_000068: biosample

1
title: Genomic and metabolic analysis of fluoranthene degradation pathway in Celeribacter indicus P73T
author: Cao, J.
author: Lai, Q.
author: Yuan, J.
author: Shao, Z.
journal: Sci Rep 5, 7741 (2015)
pubmed: 25582347
comments: Publication Status: Online-Only

25582347
type: PubMed
SIO_000068: pubmed

2
title: Celeribacter indicus sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium from deep-sea sediment and reclassification of Huaishuia halophila as Celeribacter halophilus comb. nov
author: Lai, Q.
author: Cao, J.
author: Yuan, J.
author: Li, F.
author: Shao, Z.
journal: Int J Syst Evol Microbiol 64 (Pt 12), 4160-4167 (2014)
pubmed: 25256706

25256706
type: PubMed
SIO_000068: pubmed

3
title: Direct Submission
author: Cao, J.
author: Lai, Q.
author: Shao, Z.
journal: Submitted (26-MAR-2013) State of Oceanic Administration (SOA), The Third Institute of State Oceanic Administration (SOA), Daxue Road 184#, Xiamen, Fujian 361005, P.R.China

position:1:1
position: 1
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7053:1
position: 7053
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7053:1:source
so part of: sequence
organism: Celeribacter indicus
mol type: genomic DNA
strain: P73
culture collection: MCCC:1A01112
type material: type strain of Celeribacter indicus
plasmid: pP73E

1208324
type: Taxonomy
SIO_000068: taxonomy

P73_RS25430
type: Gene
subclass of: SO_0000704
RO_0002162: 1208324
locus tag: P73_RS25430
old locus tag: P73_4817
so part of: sequence
location: 28..570
location: region:28-570:1
so has part: feature:28-570:1:exon
subclass of: SO_0000010

position:28:1
position: 28
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:570:1
position: 570
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:28-570:1:exon

P73_RS25430
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1208324
locus tag: P73_RS25430
old locus tag: P73_4817
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006115964.1
GO process: GO:0006260 - DNA replication [Evidence IEA]; GO:0006276 - plasmid maintenance [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication/maintenance protein RepL
translation: MLPAKKQRGHFVQTDRAAHEAWGRLAVKSPAAGALLHVLVANVGEQNAIVASHKVLAKLMGSSPATVKRAIKILESGNWVEVVQIGASGTVNAYVLNSRVAWTEGRDKLRYSRLQAEVLVSEDEQPAGALDAAKEELHRLPRVGELQLPAGQGLPPVSQPSFPGLEPSLPAFGHPTEDSE
SIO_010081: P73_RS25430
subclass of: SO_0000673
so part of: P73_RS25430
location: 28..570
location: region:28-570:1
so has part: feature:28-570:1:exon

WP_111772960.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:28-570:1:exon

P73_RS25855
type: Gene
subclass of: SO_0000704
RO_0002162: 1208324
locus tag: P73_RS25855
old locus tag: P73_4818
so part of: sequence
location: 582..977
location: region:582-977:1
so has part: feature:582-977:1:exon
subclass of: SO_0000010

position:582:1
position: 582
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:977:1
position: 977
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:582-977:1:exon

P73_RS25855
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1208324
locus tag: P73_RS25855
old locus tag: P73_4818
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MANVSIREAVKIYQVSRPTLTKALKTGKVSGVQDGKGQWQIDPAELARVYQPRTESAKTGGQDEPDNFTNKNTHLPGEVNTLKAQLAEAEQRAAVAEALAEERGKHIEDLRRMLPAPQEAQRPGWRWPWKR
SIO_010081: P73_RS25855
subclass of: SO_0000673
so part of: P73_RS25855
location: 582..977
location: region:582-977:1
so has part: feature:582-977:1:exon

WP_050686563.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:582-977:1:exon

P73_RS24165
type: Gene
subclass of: SO_0000704
RO_0002162: 1208324
locus tag: P73_RS24165
old locus tag: P73_4819
so part of: sequence
location: 987..1370
location: region:987-1370:1
so has part: feature:987-1370:1:exon
subclass of: SO_0000010

position:987:1
position: 987
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1370:1
position: 1370
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:987-1370:1:exon

P73_RS24165
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1208324
locus tag: P73_RS24165
old locus tag: P73_4819
inference: COORDINATES: similar to AA sequence:RefSeq:WP_013833376.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type II toxin-antitoxin system PemK/MazF family toxin
translation: MAEETPPPRVAPTVKSAPRIRQVYWCKLPDDAQLPEFWKTRPVLIMSLKTTLHGKVTVLPFSTKSQPDNPHAYPMQSPLQAKQAWVICDHLMTVAVSRLSPPGRVIPRISEADFEHIKERALKNLPY
SIO_010081: P73_RS24165
subclass of: SO_0000673
so part of: P73_RS24165
location: 987..1370
location: region:987-1370:1
so has part: feature:987-1370:1:exon

WP_050686564.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:987-1370:1:exon

P73_RS24170
type: Gene
subclass of: SO_0000704
RO_0002162: 1208324
locus tag: P73_RS24170
old locus tag: P73_4820
so part of: sequence
location: 1823..2641
location: region:1823-2641:1
so has part: feature:1823-2641:1:exon
subclass of: SO_0000010

position:1823:1
position: 1823
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2641:1
position: 2641
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1823-2641:1:exon

P73_RS24170
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1208324
locus tag: P73_RS24170
old locus tag: P73_4820
inference: COORDINATES: similar to AA sequence:RefSeq:WP_009175426.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: sulfurtransferase/chromate resistance protein
translation: MASYNEIPVSALARLIGTPYCPTLLDVRIDEDFDDDPRLIPGAYRHPFNSVVDLAETLKDRSVVVYCQKGLKISQGAAALLRASGVNAEVLEGGQFAWRDAKLPLVITDKLPPLDALGRTVWVTRHRPKIDRIACPWLIRRFIDPKAQILFVAASQVGNVAERFNATPFDIEDVFWSHRGETCTFDTMIEEFGIGHEALERLAVIVRGADTNRHDLAPEAAGLLAASLGLSRMFRDDLEQLDAGMLLYDAFYRWARDATSEGHDWPAASTKA
SIO_010081: P73_RS24170
subclass of: SO_0000673
so part of: P73_RS24170
location: 1823..2641
location: region:1823-2641:1
so has part: feature:1823-2641:1:exon

WP_043872397.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1823-2641:1:exon

P73_RS24175
type: Gene
subclass of: SO_0000704
RO_0002162: 1208324
gene: chrA
locus tag: P73_RS24175
old locus tag: P73_4821
so part of: sequence
location: 2645..3937
location: region:2645-3937:1
so has part: feature:2645-3937:1:exon
subclass of: SO_0000010

position:2645:1
position: 2645
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3937:1
position: 3937
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2645-3937:1:exon

P73_RS24175
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1208324
gene: chrA
locus tag: P73_RS24175
old locus tag: P73_4821
inference: COORDINATES: similar to AA sequence:RefSeq:WP_009175531.1
GO function: GO:0015109 - chromate transmembrane transporter activity [Evidence IEA]
GO process: GO:0015703 - chromate transport [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: chromate efflux transporter
translation: MSSMNDVQTDLAPSLSDATRVWWKIGILSFGGPAAQIALMHKEVVEDRSWLSEQQFLNALSLCMLLPGPEAMQLATYAGWRLHGTIGGLIAGLLFVVPGAAVIMALAAIYSIYGNVPLVEALFYGIKAAVLVIVVEALLRVAKKALSQKVHWVIAALAFVGIFFLSIPYPLIVLMAGLFGWFMGTADMDRQTVDMAHVSVGKTGLTIATWMAIWLLPLLALGWLGAPDLLVEVGRFFSTLAVVTFGGAYAVLAYMAQDVVVQFGWLTAGEMVDALGLAETTPGPLILVTQFVGFLAGFKEGGLLLGLSAAVVALWVTFAPCFLWIFAGAPYIEWISNQPRLKGALKAITAAVVGVILNLSLWFALHVLFTNVSRETLGPVTLWRPDLATIEWLAVALFLLSCFLAFRLHWGIIRILLVAALLGAALRLFL
SIO_010081: P73_RS24175
subclass of: SO_0000673
so part of: P73_RS24175
location: 2645..3937
location: region:2645-3937:1
so has part: feature:2645-3937:1:exon

WP_043872398.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2645-3937:1:exon

P73_RS24180
type: Gene
subclass of: SO_0000704
RO_0002162: 1208324
locus tag: P73_RS24180
old locus tag: P73_4822
so part of: sequence
location: 3987..4271
location: region:3987-4271:1
so has part: feature:3987-4271:1:exon
subclass of: SO_0000010

position:3987:1
position: 3987
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4271:1
position: 4271
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3987-4271:1:exon

P73_RS24180
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1208324
locus tag: P73_RS24180
old locus tag: P73_4822
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MTDTPKPAHGPTQEHFVRGLPFKAHKIEGFTPELLEHYYEDTYGGSIRTLNEVETKIAASRRAGSPTADLGSLIAKQANPPMGPKAKRTCINSW
SIO_010081: P73_RS24180
subclass of: SO_0000673
so part of: P73_RS24180
location: 3987..4271
location: region:3987-4271:1
so has part: feature:3987-4271:1:exon

WP_043872399.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3987-4271:1:exon

P73_RS26295
type: Gene
subclass of: SO_0000704
RO_0002162: 1208324
gene: mobQ
locus tag: P73_RS26295
old locus tag: P73_4824
so part of: sequence
location: complement(4322..5554)
location: region:4322-5554:-1
so has part: feature:4322-5554:-1:exon
subclass of: SO_0000010

position:4322:-1
position: 4322
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5554:-1
position: 5554
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4322-5554:-1:exon

P73_RS26295
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1208324
gene: mobQ
locus tag: P73_RS26295
old locus tag: P73_4824
inference: COORDINATES: protein motif:HMM:NF041496.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MobQ family relaxase
translation: MAIYHLRASMISRSQGRSATAAIAYRVAERIEDRRTGLTFDYAARGGVDHTEILAPDHAPDWGRDRSELWNRVEEAETRKNSQVAREVRVALPAELTHAQRVELVRDFAQEQFVDRGMIADIALHAPGRDGDDRNHHAHILLTTREIGPEGFTTKNRDWNKVEVLEGWREAWARDSNIALKRAGIEDRVDHRTLEAQRDEALELASAARERGDEGAELVQTVRAIELDRPPLPQLSPGAWQMKERGIEVGRVGAWHEAKARAAEVMEVARELAGHVRDWLDRAADRVLDRLGPEQSELALAGGREGREQEPDLATRLREAWEGRKEGREQHEADASEREVPDDLAARLRAAATGIDREAFGDRVSALREGREAEEQHTAQEQERQRTKELEQEQEREVHARRDRGHDYGL
SIO_010081: P73_RS26295
subclass of: SO_0000673
so part of: P73_RS26295
location: complement(4322..5554)
location: region:4322-5554:-1
so has part: feature:4322-5554:-1:exon

WP_082033416.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4322-5554:-1:exon

P73_RS24190
type: Gene
subclass of: SO_0000704
RO_0002162: 1208324
locus tag: P73_RS24190
old locus tag: P73_4826
so part of: sequence
location: 5708..5968
location: region:5708-5968:1
so has part: feature:5708-5968:1:exon
subclass of: SO_0000010

position:5708:1
position: 5708
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5968:1
position: 5968
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5708-5968:1:exon

P73_RS24190
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1208324
locus tag: P73_RS24190
old locus tag: P73_4826
inference: COORDINATES: similar to AA sequence:RefSeq:WP_009824546.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MARSIDQQIAATQAKLARLKERQKASETRRKIIVGSVAISNALKDPEKARALAALLRRAVTREVDQKELVGLLEELDGVAAKAERP
SIO_010081: P73_RS24190
subclass of: SO_0000673
so part of: P73_RS24190
location: 5708..5968
location: region:5708-5968:1
so has part: feature:5708-5968:1:exon

WP_043872400.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5708-5968:1:exon

P73_RS24195
type: Gene
subclass of: SO_0000704
RO_0002162: 1208324
locus tag: P73_RS24195
old locus tag: P73_4827
so part of: sequence
location: 5965..6531
location: region:5965-6531:1
so has part: feature:5965-6531:1:exon
subclass of: SO_0000010

position:5965:1
position: 5965
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6531:1
position: 6531
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5965-6531:1:exon

P73_RS24195
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1208324
locus tag: P73_RS24195
old locus tag: P73_4827
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSVKDPFQQLVDEITLIRQDMERLKRTSLDKEDAEALHEMLAEGVDRMCKVGPEVQKAVEMRLLGVAAVLREETAKAAASAAEGAIAKTRTESLEAARSLSQAAGEARRQAWRYFGGFWVWLASMLATGAVLGLLLAYGMETAKSALSVDDLVRYNCGRSWFGGQVVDQDNGSSFCAFWIRQVPQGEN
SIO_010081: P73_RS24195
subclass of: SO_0000673
so part of: P73_RS24195
location: 5965..6531
location: region:5965-6531:1
so has part: feature:5965-6531:1:exon

WP_043872401.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5965-6531:1:exon