Archaeoglobus profundus DSM 5631 plasmid pArcpr01, complete sequence.
type: Entry
definition: Archaeoglobus profundus DSM 5631 plasmid pArcpr01, complete sequence.
sequence version: NC_013742.1
sequence date: 2023-05-02
sequence: sequence
division: CON
label: NC_013742.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN00017459
keyword: RefSeq
source: Archaeoglobus profundus DSM 5631
organism: Archaeoglobus profundus DSM 5631
taxonomy: Archaea; Euryarchaeota; Archaeoglobi; Archaeoglobales; Archaeoglobaceae; Archaeoglobus.
reference: 1
references: 21304717
reference: 2
reference: 3
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP001858.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4085236\nSource DNA and organism available from Hans-Peter Klenk at the\nGerman Collection of Microorganisms and Cell Cultures (DSMZ)\n(hans-peter.klenk@dsmz.de)\nContacts: Jonathan A. Eisen (jaeisen@ucdavis.edu)\n David Bruce (microbe@cuba.jgi-psf.org)\nWhole genome sequencing and draft assembly at JGI-PGF\nFinishing done by JGI-LANL\nAnnotation by JGI-ORNL and JGI-PGF\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##Metadata-START##\nOrganism Display Name :: Archaeoglobus profundus Av18, DSM 5631\nCulture Collection ID :: DSM 5631, JCM 9629, NBRC 100127\nGOLD Stamp ID :: Gi02909\nGreengenes ID :: 71597\nIsolation Site :: \"Deep sea hydrothermal vents; Mexico, Gulf\n of California, Guaymas Basin\"\nIsolation Country :: Mexico\nOxygen Requirement :: Anaerobe\nMotility :: Motile\nTemperature Range :: Hyperthermophile\nTemperature Optimum :: 85C\nGram Staining :: gram-\nBiotic Relationship :: Free living\nDiseases :: None\nHabitat :: Deep sea, Hydrothermal vent, Marine\nEnergy Source :: Chemolithoautotroph\n##Metadata-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/02/2023 01:18:42\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\…

sequence
subclass of: SO_0000155
sequence length: 2801
topology: circular
so has quality: SO_0000988
location: 1..2801
location: region:1-2801:1
RO_0002162: 572546

NC_013742
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN00017459
type: BioSample
SIO_000068: biosample

1
title: Complete genome sequence of Archaeoglobus profundus type strain (AV18)
author: von Jan, M.
author: Lapidus, A.
author: Del Rio, T.G.
author: Copeland, A.
author: Tice, H.
author: Cheng, J.F.
author: Lucas, S.
author: Chen, F.
author: Nolan, M.
author: Goodwin, L.
author: Han, C.
author: Pitluck, S.
author: Liolios, K.
author: Ivanova, N.
author: Mavromatis, K.
author: Ovchinnikova, G.
author: Chertkov, O.
author: Pati, A.
author: Chen, A.
author: Palaniappan, K.
author: Land, M.
author: Hauser, L.
author: Chang, Y.J.
author: Jeffries, C.D.
author: Saunders, E.
author: Brettin, T.
author: Detter, J.C.
author: Chain, P.
author: Eichinger, K.
author: Huber, H.
author: Spring, S.
author: Rohde, M.
author: Goker, M.
author: Wirth, R.
author: Woyke, T.
author: Bristow, J.
author: Eisen, J.A.
author: Markowitz, V.
author: Hugenholtz, P.
author: Kyrpides, N.C.
author: Klenk, H.P.
journal: Stand Genomic Sci
volume: 2
issue: 3
pages: 327-346
year: 2010
pubmed: 21304717
comments: Publication Status: Online-Only

21304717
type: PubMed
SIO_000068: pubmed

2
title: The complete plasmid of Archaeoglobus profundus DSM 5631
author: Lucas, S.
author: Copeland, A.
author: Lapidus, A.
author: Glavina del Rio, T.
author: Dalin, E.
author: Tice, H.
author: Bruce, D.
author: Goodwin, L.
author: Pitluck, S.
author: Kyrpides, N.
author: Mavromatis, K.
author: Ivanova, N.
author: Ovchinnikova, G.
author: Chertkov, O.
author: Brettin, T.
author: Detter, J.C.
author: Han, C.
author: Larimer, F.
author: Land, M.
author: Hauser, L.
author: Markowitz, V.
author: Cheng, J.-F.
author: Hugenholtz, P.
author: Woyke, T.
author: Wu, D.
author: Wirth, R.
author: Huber, H.
author: Eichinger, K.
author: Klenk, H.-P.
author: Eisen, J.A.
journal: Unpublished

3
title: Direct Submission
author: Lucas, S.
author: Copeland, A.
author: Lapidus, A.
author: Glavina del Rio, T.
author: Dalin, E.
author: Tice, H.
author: Bruce, D.
author: Goodwin, L.
author: Pitluck, S.
author: Kyrpides, N.
author: Mavromatis, K.
author: Ivanova, N.
author: Ovchinnikova, G.
author: Chertkov, O.
author: Brettin, T.
author: Detter, J.C.
author: Han, C.
author: Larimer, F.
author: Land, M.
author: Hauser, L.
author: Markowitz, V.
author: Cheng, J.-F.
author: Hugenholtz, P.
author: Woyke, T.
author: Wu, D.
author: Wirth, R.
author: Huber, H.
author: Eichinger, K.
author: Klenk, H.-P.
author: Eisen, J.A.
journal: Submitted (07-JAN-2010) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA

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

position:2801:1
position: 2801
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-2801:1:source
so part of: sequence
organism: Archaeoglobus profundus DSM 5631
mol type: genomic DNA
strain: DSM 5631
type material: type strain of Archaeoglobus profundus
plasmid: pArcpr01

572546
type: Taxonomy
SIO_000068: taxonomy

ARCPR_RS09255
type: Gene
subclass of: SO_0000704
RO_0002162: 572546
locus tag: ARCPR_RS09255
old locus tag: Arcpr_1855
so part of: sequence
location: complement(16..609)
location: region:16-609:-1
so has part: feature:16-609:-1:exon
subclass of: SO_0000010

8740557
type: Gene
SIO_000068: ncbigene

position:16:-1
position: 16
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:609:-1
position: 609
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:16-609:-1:exon

ARCPR_RS09255
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 572546
locus tag: ARCPR_RS09255
old locus tag: Arcpr_1855
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: MSKECSHQEAVREVVRTLKEYGYIVKTEAWASTILGHRDCYIDSSGDFDVERWYRDFKFNVANMFLGRHSPWISIHNPNFQTRLDVVGLYYADCEELSLYSFFARTDPFEVAKRTILVEVEHRHSLEEAIKRIKDYPAGRKVILWTGGEIGGVLEEIPIVVAKKYEGDCYISLEFTDILEEHIREIKGKNRHKWLPF
SIO_010081: ARCPR_RS09255
subclass of: SO_0000673
so part of: ARCPR_RS09255
location: complement(16..609)
location: region:16-609:-1
so has part: feature:16-609:-1:exon

WP_012766396.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:16-609:-1:exon

ARCPR_RS09880
type: Gene
subclass of: SO_0000704
RO_0002162: 572546
locus tag: ARCPR_RS09880
so part of: sequence
location: 735..911
location: region:735-911:1
so has part: feature:735-911:1:exon
subclass of: SO_0000010

58788630
type: Gene
SIO_000068: ncbigene

position:735:1
position: 735
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:911:1
position: 911
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:735-911:1:exon

ARCPR_RS09880
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 572546
locus tag: ARCPR_RS09880
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: MAHVTINVSIEPLSYENLEEYCRVLGLSKSRVINLLLKDPLNAIALSLACELVKSLRR
SIO_010081: ARCPR_RS09880
subclass of: SO_0000673
so part of: ARCPR_RS09880
location: 735..911
location: region:735-911:1
so has part: feature:735-911:1:exon

WP_012766393.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:735-911:1:exon

ARCPR_RS09260
type: Gene
subclass of: SO_0000704
RO_0002162: 572546
locus tag: ARCPR_RS09260
old locus tag: Arcpr_1856
so part of: sequence
location: 917..1324
location: region:917-1324:1
so has part: feature:917-1324:1:exon
subclass of: SO_0000010

8740554
type: Gene
SIO_000068: ncbigene

position:917:1
position: 917
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1324:1
position: 1324
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:917-1324:1:exon

ARCPR_RS09260
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 572546
locus tag: ARCPR_RS09260
old locus tag: Arcpr_1856
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: MGSQEVGRIEEEVVEERRQEEEEIDEEEATGSALLTAEEFDKKIEEIKAKVREAVQEALANTLADLLEKEEKEEKRKDETKAEELPKCPKNLSWLKKMFEILPLDILRNSKLWRYRHCVWALQEAEKEAEKFRNS
SIO_010081: ARCPR_RS09260
subclass of: SO_0000673
so part of: ARCPR_RS09260
location: 917..1324
location: region:917-1324:1
so has part: feature:917-1324:1:exon

WP_012766394.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:917-1324:1:exon

ARCPR_RS09265
type: Gene
subclass of: SO_0000704
RO_0002162: 572546
locus tag: ARCPR_RS09265
old locus tag: Arcpr_1857
so part of: sequence
location: 1414..2550
location: region:1414-2550:1
so has part: feature:1414-2550:1:exon
subclass of: SO_0000010

8740555
type: Gene
SIO_000068: ncbigene

position:1414:1
position: 1414
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2550:1
position: 2550
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1414-2550:1:exon

ARCPR_RS09265
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 572546
locus tag: ARCPR_RS09265
old locus tag: Arcpr_1857
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: MarR family transcriptional regulator
translation: MNGSKLRDNLKFAISKDHLEEAVVLLRLREELTGLTVTQLARFLRKKLYPKASKREIYKKVHRILDKLEEKEFVKTKTIGNYRFAKITLEGLRFLAETLPEWSKQAEVDLNNRLGCTKHLITNYRASREWFEIAIRLLTKPVERFEPIDKELLVLNFTTWLENISDKVLVFMDPETRVVVTKPYRTRFNSPEYIKLLLAKYDEAWKIASENYDVGVFLTVTLPPIFPLKIEQYLLSYILHRLRNWLKRRYGFTPPSIVGNEPQESLNFHKHIVFFGISRIMDKRELTLWLDDKVIRFLENMGHHIQKTVNNRLKPEEVKVFNKLGKKLLKRYLRYKKKHKGYQGPVNWITKVYKDENGKWVFENLPPDLQGNKKDGTF
SIO_010081: ARCPR_RS09265
subclass of: SO_0000673
so part of: ARCPR_RS09265
location: 1414..2550
location: region:1414-2550:1
so has part: feature:1414-2550:1:exon

WP_148208760.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1414-2550:1:exon

ARCPR_RS09270
type: Gene
subclass of: SO_0000704
RO_0002162: 572546
locus tag: ARCPR_RS09270
old locus tag: Arcpr_1858
so part of: sequence
location: 2498..2788
location: region:2498-2788:1
so has part: feature:2498-2788:1:exon
subclass of: SO_0000010

8740556
type: Gene
SIO_000068: ncbigene

position:2498:1
position: 2498
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2788:1
position: 2788
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2498-2788:1:exon

ARCPR_RS09270
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 572546
locus tag: ARCPR_RS09270
old locus tag: Arcpr_1858
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: MRICLQIYRVIRRMELFDGANASVSDYIKKYIIKNLNSALEGTDKEKDPKLAWYWLVRVPFYTISPKLRKPQENPPPLGLVFLGSYSEWDLSYLLV
SIO_010081: ARCPR_RS09270
subclass of: SO_0000673
so part of: ARCPR_RS09270
location: 2498..2788
location: region:2498-2788:1
so has part: feature:2498-2788:1:exon

WP_148208761.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2498-2788:1:exon