Clostridium acetobutylicum DSM 1731 plasmid pSMBb, complete sequence.
type: Entry
definition: Clostridium acetobutylicum DSM 1731 plasmid pSMBb, complete sequence.
sequence version: NC_015688.1
sequence date: 2023-04-12
sequence: sequence
division: CON
label: NC_015688.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN02603396
keyword: RefSeq
source: Clostridium acetobutylicum DSM 1731
organism: Clostridium acetobutylicum DSM 1731
taxonomy: Bacteria; Bacillota; Clostridia; Eubacteriales; Clostridiaceae; Clostridium.
reference: 1
references: 21742891
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP002662.1.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/12/2023 01:15:05\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) :: 3,987\nCDSs (total) :: 3,875\nGenes (coding) :: 3,848\nCDSs (with protein) :: 3,848\nGenes (RNA) :: 112\nrRNAs :: 11, 11, 11 (5S, 16S, 23S)\ncomplete rRNAs :: 11, 11, 11 (5S, 16S, 23S)\ntRNAs :: 73\nncRNAs :: 6\nPseudo Genes (total) :: 27\nCDSs (without protein) :: 27\nPseudo Genes (ambiguous residues) :: 0 of 27\nPseudo Genes (frameshifted) :: 7 of 27\nPseudo Genes (incomplete) :: 22 of 27\nPseudo Genes (internal stop) :: 6 of 27\nPseudo Genes (multiple problems) :: 8 of 27\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 11123
topology: circular
so has quality: SO_0000988
location: 1..11123
location: region:1-11123:1
RO_0002162: 991791

NC_015688
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN02603396
type: BioSample
SIO_000068: biosample

1
title: Complete genome sequence of Clostridium acetobutylicum DSM 1731, a solvent-producing strain with multireplicon genome architecture
author: Bao, G.
author: Wang, R.
author: Zhu, Y.
author: Dong, H.
author: Mao, S.
author: Zhang, Y.
author: Chen, Z.
author: Li, Y.
author: Ma, Y.
journal: J Bacteriol
volume: 193
issue: 18
pages: 5007-5008
year: 2011
pubmed: 21742891

21742891
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Bao, G.
author: Li, Y.
journal: Submitted (06-APR-2011) Chinese Academy of Sciences, Institute of Microbiology, NO.1 West Beichen Road, Chaoyang District, Beijing, Beijing 100101, China

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

position:11123:1
position: 11123
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-11123:1:source
so part of: sequence
organism: Clostridium acetobutylicum DSM 1731
mol type: genomic DNA
strain: DSM 1731
culture collection: DSM:1731
plasmid: pSMBb

991791
type: Taxonomy
SIO_000068: taxonomy

SMB_RS20885
type: Gene
subclass of: SO_0000704
RO_0002162: 991791
locus tag: SMB_RS20885
old locus tag: SMB_L001
so part of: sequence
location: 944..1069
location: region:944-1069:1
so has part: feature:944-1069:1:exon
subclass of: SO_0000010

79984159
type: Gene
SIO_000068: ncbigene

position:944:1
position: 944
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1069:1
position: 1069
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:944-1069:1:exon

SMB_RS20885
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 991791
locus tag: SMB_RS20885
old locus tag: SMB_L001
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: MGKEFANDYYDRRIQEGVGDEQGEKELTEILGHTRAEVLDS
SIO_010081: SMB_RS20885
subclass of: SO_0000673
so part of: SMB_RS20885
location: 944..1069
location: region:944-1069:1
so has part: feature:944-1069:1:exon

WP_013913691.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:944-1069:1:exon

SMB_RS20070
type: Gene
subclass of: SO_0000704
RO_0002162: 991791
locus tag: SMB_RS20070
old locus tag: SMB_L002
so part of: sequence
location: complement(1095..2135)
location: region:1095-2135:-1
so has part: feature:1095-2135:-1:exon
subclass of: SO_0000010

45000404
type: Gene
SIO_000068: ncbigene

position:1095:-1
position: 1095
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2135:-1
position: 2135
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1095-2135:-1:exon

SMB_RS20070
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 991791
locus tag: SMB_RS20070
old locus tag: SMB_L002
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010233465.1
GO function: GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO process: GO:0006270 - DNA replication initiation [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication initiation protein
translation: MDKEYLVTKSNYFIMNSSYDLSLEEQKIILTLASMVQPTDEEFKPYKFKINDFMILLGVDTKTKYTKIPKITKELMKKVFEIQEGDILIQTAWLSGAKYKKGTGYVELTFSPYLKPYMLKLNNMFTKYKLANILNMKSKYSPRIYEILKCNEFKKQGYIEIDIEDLRKLLKAEDIYPMYADFKRKIINQTQKELNKLSDIKFEFEEIKTGRKVTAIRFYINSNIKAKDETSVTKLDTEEPERLEDSDKYIKEIKNIIANHKITSLEARKIYHSSKGNLKQIHKVYNYFKNRKLDNFVGTMISMVKPGVFQEPKANIQTDDFNNYSQRQYNFNDLEKGLLGWQNSKE
SIO_010081: SMB_RS20070
subclass of: SO_0000673
so part of: SMB_RS20070
location: complement(1095..2135)
location: region:1095-2135:-1
so has part: feature:1095-2135:-1:exon

WP_013913692.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1095-2135:-1:exon

SMB_RS20075
type: Gene
subclass of: SO_0000704
RO_0002162: 991791
locus tag: SMB_RS20075
old locus tag: SMB_L003
so part of: sequence
location: complement(2778..3344)
location: region:2778-3344:-1
so has part: feature:2778-3344:-1:exon
subclass of: SO_0000010

45000405
type: Gene
SIO_000068: ncbigene

position:2778:-1
position: 2778
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3344:-1
position: 3344
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2778-3344:-1:exon

SMB_RS20075
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 991791
locus tag: SMB_RS20075
old locus tag: SMB_L003
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: MKYIKNKIILFLTILLSLNIAFSNNILAATNTQVGNRPSYVGKNGCIVEYKPLDYMDTGIEIIHAQDYYMSPQAAHNFADDLTPSRTESLLEFLSTLVTIPLSAGLSTALGAYFFLETDGDTALANKIKDQIQKSYNDGNGGYIRVTVKDCEMKRGGVSMINYDTADWNGTDVSFLSGFKVQKTYRLN
SIO_010081: SMB_RS20075
subclass of: SO_0000673
so part of: SMB_RS20075
location: complement(2778..3344)
location: region:2778-3344:-1
so has part: feature:2778-3344:-1:exon

WP_013913693.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2778-3344:-1:exon

SMB_RS20085
type: Gene
subclass of: SO_0000704
RO_0002162: 991791
locus tag: SMB_RS20085
old locus tag: SMB_L004
so part of: sequence
location: 3917..4999
location: region:3917-4999:1
so has part: feature:3917-4999:1:exon
subclass of: SO_0000010

45000407
type: Gene
SIO_000068: ncbigene

position:3917:1
position: 3917
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4999:1
position: 4999
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3917-4999:1:exon

SMB_RS20085
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 991791
locus tag: SMB_RS20085
old locus tag: SMB_L004
inference: COORDINATES: protein motif:HMM:NF024919.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: C39 family peptidase
translation: MLKLLKKFYFICICSICICSTSFIANAQNIDEAHSSINTIARSFASNTIKWDDIDIYNIKNLYDINNKLVAYSIDIKNNKNGLLGYEILSAISEDDPVLEFSKTKCSPYNKVENGYKCIYEGALNYYYQNKTTIYNIQNKTTLNEKEIILLRKADKNKEYKSDKTNKVLKSNNLVSSFRNKSQDTTNGKVQKILENVPDELWYRGCTPTAVAMVLEYDFYNDTPEFQPLTDDLANAFGTNSDGFTTIDDHICDSIKSVMKKYGVNNIWCQLDGQGKDNSTYEEYVNEINNNHPVVVNLYGSKETSYGYPDGFKDHSCAGIGYEYTDNEKFIVIHDDALDDSVYCDFNSSDLGINQWLYIH
SIO_010081: SMB_RS20085
subclass of: SO_0000673
so part of: SMB_RS20085
location: 3917..4999
location: region:3917-4999:1
so has part: feature:3917-4999:1:exon

WP_013913694.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3917-4999:1:exon

SMB_RS20090
type: Gene
subclass of: SO_0000704
RO_0002162: 991791
locus tag: SMB_RS20090
old locus tag: SMB_L005
so part of: sequence
location: 5035..6048
location: region:5035-6048:1
so has part: feature:5035-6048:1:exon
subclass of: SO_0000010

45000408
type: Gene
SIO_000068: ncbigene

position:5035:1
position: 5035
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6048:1
position: 6048
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5035-6048:1:exon

SMB_RS20090
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 991791
locus tag: SMB_RS20090
old locus tag: SMB_L005
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: MINKKALKIASLTSIFTLLFTSFTNSQIIFAANTNATKKHYDISYIYSNKSSTKEKLEYANSKNYDSSKKVRLNEFDLYKEIDNKKGLDSTSQNSMVKKYKDTIKKLNSKNDTELKNLGFDSSRITALRKSKLALNNNNLEQIGSTLTVSVNLDSYYHDMQYEPNSPKFKTLIYAIFSWSWSQAPLVTDTDGLGVEWLSNSQDKLQVYYTSDVVDYYNAIYNTVTSSVDYADQALNNETINKNGLFFTFPFQLNKQAKYKVKNALNGISMNVLVNTNAYVDDFTLYGLYAHSLNLSNPTFSITDNGVDVDSSYKSNAELKPISQEFKYSEWDPNNNQ
SIO_010081: SMB_RS20090
subclass of: SO_0000673
so part of: SMB_RS20090
location: 5035..6048
location: region:5035-6048:1
so has part: feature:5035-6048:1:exon

WP_013913695.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5035-6048:1:exon

SMB_RS20890
type: Gene
subclass of: SO_0000704
RO_0002162: 991791
locus tag: SMB_RS20890
old locus tag: SMB_L006
so part of: sequence
location: 6561..6683
location: region:6561-6683:1
so has part: feature:6561-6683:1:exon
subclass of: SO_0000010

79984160
type: Gene
SIO_000068: ncbigene

position:6561:1
position: 6561
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6683:1
position: 6683
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6561-6683:1:exon

SMB_RS20890
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 991791
locus tag: SMB_RS20890
old locus tag: SMB_L006
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: MSKRPSVVFQVNEVLRKAFHECFGRSRHADKHNDMNNGKE
SIO_010081: SMB_RS20890
subclass of: SO_0000673
so part of: SMB_RS20890
location: 6561..6683
location: region:6561-6683:1
so has part: feature:6561-6683:1:exon

WP_013913696.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6561-6683:1:exon

SMB_RS20095
type: Gene
subclass of: SO_0000704
RO_0002162: 991791
locus tag: SMB_RS20095
old locus tag: SMB_L007
so part of: sequence
location: complement(7286..7834)
location: region:7286-7834:-1
so has part: feature:7286-7834:-1:exon
subclass of: SO_0000010

45000409
type: Gene
SIO_000068: ncbigene

position:7286:-1
position: 7286
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:7834:-1
position: 7834
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7286-7834:-1:exon

SMB_RS20095
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 991791
locus tag: SMB_RS20095
old locus tag: SMB_L007
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011100804.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MVKQEFNKLDIKEQLAYVNRALMDGKSLRGISTSLQISKTIIRDRFQKIGYIFNAEKRQYVKDTDILHKGQTIKNKTIRNAEYKGNTCVFNADDTSKIVYILKNYEDIKELLAWFNKQKNVVEPQNLKINRNRLNGAVKITTVRLYINVWEKFKSFMKQYQEYKSKDLVTMALLEFMDKYKK
SIO_010081: SMB_RS20095
subclass of: SO_0000673
so part of: SMB_RS20095
location: complement(7286..7834)
location: region:7286-7834:-1
so has part: feature:7286-7834:-1:exon

WP_013913697.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7286-7834:-1:exon

SMB_RS20100
type: Gene
subclass of: SO_0000704
RO_0002162: 991791
locus tag: SMB_RS20100
old locus tag: SMB_L008
so part of: sequence
location: complement(8089..9045)
location: region:8089-9045:-1
so has part: feature:8089-9045:-1:exon
subclass of: SO_0000010

45000410
type: Gene
SIO_000068: ncbigene

position:8089:-1
position: 8089
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:9045:-1
position: 9045
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:8089-9045:-1:exon

SMB_RS20100
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 991791
locus tag: SMB_RS20100
old locus tag: SMB_L008
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: MIHTIQYSSIPFYDDIDLIRNSFKTVKKDGQLVYYSRYKAIDFKYYSFFNVLHTKINLNELLNKDVITDQDYNAVLKEYQNQFYDIFKYTNALEQLNRIDFKCDVITDYKTLYIKLLKKSSDNYKSLKQYSKYKSSVYYNSKSMNINIYDKLEQLINTGQDKLIDISKYKNMLRFEVQLKRNKLYYLERTCGMTRELSNYFSQKDHDYWINEGLKKLIHNGDYYNIYHSEKILKEHYTNNMVNKLITLQKDISINGISEARENYNNTTFNNYINKLQSAGVNPIPIPKGEGLTRLSNIFNFTNDNIYLLDNYNLRSVA
SIO_010081: SMB_RS20100
subclass of: SO_0000673
so part of: SMB_RS20100
location: complement(8089..9045)
location: region:8089-9045:-1
so has part: feature:8089-9045:-1:exon

WP_013913698.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:8089-9045:-1:exon

SMB_RS20105
type: Gene
subclass of: SO_0000704
RO_0002162: 991791
locus tag: SMB_RS20105
old locus tag: SMB_L009
so part of: sequence
location: complement(9727..10422)
location: region:9727-10422:-1
so has part: feature:9727-10422:-1:exon
subclass of: SO_0000010

45000411
type: Gene
SIO_000068: ncbigene

position:9727:-1
position: 9727
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:10422:-1
position: 10422
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:9727-10422:-1:exon

SMB_RS20105
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 991791
locus tag: SMB_RS20105
old locus tag: SMB_L009
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012720384.1
GO function: GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO process: GO:0006310 - DNA recombination [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: recombinase family protein
translation: MNKIYGYCRISTSKQSIERQHRNILASYPTAVIIDEVYTGTKIYERKEFNKLLKQVTKGDTIVFDSVSRMSRDAEEGFKLYEKLFNKGIELVFLKEQHINTATYKKALTNNIKLTGTAVDSILKGVNEYLMELAKEQIIIAFNQSEKEVKDLHQRTKEGIETARLNGKQIGQKQGVKLTTKKSINTKQDIIKYSKDFQGTLKDIEVMKLVGLARNTYYKYKRELVQELEGK
SIO_010081: SMB_RS20105
subclass of: SO_0000673
so part of: SMB_RS20105
location: complement(9727..10422)
location: region:9727-10422:-1
so has part: feature:9727-10422:-1:exon

WP_013913699.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:9727-10422:-1:exon