Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100040
Name   oriT_BRA100 in_silico
Organism   Mycobacterium abscessus subsp. bolletii F1725
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   CP003505 (31224..31596 [-], 373 nt)
oriT length   373 nt
IRs (inverted repeats)      89..107, 110..128  (GTGAAGATAGATAACCGGC..GCCGGTTAGCTAACTTCAC)
Location of nic site      136..137nt
Conserved sequence flanking the
  nic site    		  CATCCTG|C
Note   _

  oriT sequence  


Download         Length: 373 nt

>oriT_BRA100
GCCTCGCCTCGTCTCTCATGCCGGCGGTAGCCGGCTGCCTCGCAGAGCAGGATGACCCGTTGAGCGCCCCCGGCGCGAATAAGGGACAGTGAAGATAGATAACCGGCTCGCCGGTTAGCTAACTTCACACATCCTGCCCGCCTTACGGCGTTAATAACACCAAGGAAAGTCTACACCAGCCATTACGATTTATCCGCAACTATCGCGCTATCAGGCCGCAAAAGCAGCAACGGATATAGCGAAAACCGCCACAATGGCCCATAATGCCGCTATCGAAGCGTGCCAATGCACGCCGATAGCGGACTTTTTGCGTTTCCGTAGCGCCGCTTAGTAGCGTTACATTTGCGATGAGAGGATTAGATGGACGAACACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   38 GenBank   AFJ38144
Name   TraI_BRA100 insolico UniProt ID   I2ALH0
Length   746 a.a. PDB ID   
Note   relaxase

  Relaxase protein sequence


Download         Length: 746 a.a.        Molecular weight: 82038.71 Da        Isoelectric Point: 10.7900

>AFJ38144.1 TraI (plasmid) [Mycobacteroides abscessus subsp. bolletii F1725]
MIAKHVPMRSLGKSDFAGLANYITDAQSKDHRLGHVQATNCEAGSIQDAITEVLATQHTNTRAKGDKTYH
LIVSFRAGEQPSADTLRAIEERICVGLGYGEHQRISAVHNDTDNLHIHIAINKIHPTRHTMHEPYYPHRA
LAELCTALERDYGLERDNHEPRKRGAEGRAADMERHAGVESLVGWIKRECLDEIKGAQSWQELHQVMRDN
GMELRVRANGLVFEAGDGTMVKASTVARDLSKPSLEARLGPFEASPERQAQTTAKRQYRKDPIRLRVNTV
ELYAKYKAEQQSLTTARAQALERARHRKDRLIEAAKRSNRLRRATIKVVGEGRANKKLLYAQASKALRSE
LQAINKQFQQERTALYAEHSRRTWADWLKKEAQHGGADALAALRAREAAQGLKGNTIRGEGQAKPGHAPA
VDNITKKGTIIFRAGMSAVRDDGDRLQVSREATREGLQEALRLAMQRYGNRITVNGTVEFKAQMIRAAVD
SQLPITFTDPALESRRQALLNKENTHERTERPEHRGRTGRGAGGPGQRPAADQHATGAAAVARAGDGRPA
AGRGDRADAGLHAATVHRKPDVGRLGRKPPPQSQHRLRALSELGVVRIAGGSEVLLPRDVPRHVEQQGTQ
PDHALRRGISRPGTGVGQTPPGVAAADKYIAEREAKRLKGFDIPKHSRYTAGDGALTFQGTRTIEGQALA
LLKRGDEVMVMPIDQATARRLTRIAVGDAVSITAKGSIKTSKGRSR

  Protein domains


Predicted by InterproScan.

Large polyvalent protein-associated domain 7 (LPD7)

(422-508)

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-251)


  Protein structure


Source ID Structure
AlphaFold DB I2ALH0

  Reference


[1] Leão SC et al. (2013) The detection and sequencing of a broad-host-range conjugative IncP-1尾 plasmid in an epidemic strain of Mycobacterium abscessus subsp. Bolletii. PLoS One. 8(4):e60746. [PMID:23565273]


Auxiliary protein

ID   60 GenBank   AFJ38145
Name   TraH_BRA100 insolico UniProt ID   I2ALH1
Length   130 a.a. PDB ID   _
Note   relaxosome stabilisation protein involved in conjugative plasmid transfer

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 13936.41 Da        Isoelectric Point: 3.9776

>AFJ38145.1 protein TraH (plasmid) [Mycobacteroides abscessus subsp. bolletii F1725]
MSEPKDQSIEDELDAALAALDSGPLPTSTLPEPQPSPEQATAGQPPAEATAPTPAFTPPPSTGSPTLDAL
EENRRPKASTVCEHCPNSVWFASPAEVKCYCRVMFLVTWSSKEPNQITHCDGEFLGQEQE

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB I2ALH1

ID   61 GenBank   AFJ38146
Name   TraJ_BRA100 insolico UniProt ID   I2ALH2
Length   124 a.a. PDB ID   _
Note   conjugal transfer relaxosome component involved in conjugative plasmid transfer

  Auxiliary protein sequence


Download         Length: 124 a.a.        Molecular weight: 14206.27 Da        Isoelectric Point: 8.5329

>AFJ38146.1 TraJ (plasmid) [Mycobacteroides abscessus subsp. bolletii F1725]
MENDEKEHGRRRRQHLRVPVFPEEKDEIEANAKRAGVSVARYLRDVGQGYQIKGVMDYQHVRELVRVNGD
LGRLGGLLKLWLTDDVRTLQFGEATILALLGRIEATQDEMSRIMKAVVQPRAEP

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB I2ALH2

ID   62 GenBank   AFJ38147
Name   TraK_BRA100 insolico UniProt ID   I2ALH3
Length   132 a.a. PDB ID   _
Note   binds oriT during conjugative plasmid transfer

  Auxiliary protein sequence


Download         Length: 132 a.a.        Molecular weight: 14621.83 Da        Isoelectric Point: 9.9884

>AFJ38147.1 protein TraK (plasmid) [Mycobacteroides abscessus subsp. bolletii F1725]
MPKTYPEELAEWVKGREAKKPRQDKHVVAFLAVKSDVQAALDAGYAMKTIWEHMKETGRLRCRYETFTQH
VKRYIKAAPVASPPPPATPPDSQPKGAKPEPKAAPPASESKSEPPKIGGFTFDATPKKEDLL

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5338) (DUF5338)

(7-74)


  Protein structure


Source ID Structure
AlphaFold DB I2ALH3


T4CP

ID   38 GenBank   AFJ38143
Name   TraG_BRA100 insolico UniProt ID   I2ALG9
Length   637 a.a. PDB ID   _
Note   DNA transport during conjugative transfer

  T4CP protein sequence


Download         Length: 637 a.a.        Molecular weight: 69897.09 Da        Isoelectric Point: 8.2993

>AFJ38143.1 protein TraG (plasmid) [Mycobacteroides abscessus subsp. bolletii F1725]
MKIKMNNAVGPQVRTAKPKPSKLLPVLGAASMVGGLQAATQFFAHTFAYHATLGPNVGHVYAPWSILHWT
YKWYSQYPDEIMKAGSMGMLVSTVGLLGVAVAKVVTSNSSKANEYLHGSARWAEKKDIQAAGLLPRERNV
LEIVTGKAAPTATGVYVGGWQDKDGNFFYLRHSGPEHVLTYAPTRSGKGVGLVVPTLLSWGASSVITDLK
GELWALTAGWRQKHAKNKVLRFEPASTSGGVCWNPLDEIRLGTEYEVGDVQNLATLIVDPDGKGLDSHWQ
KTAFALLVGVILHALYKAKDDGGTATLPSVDAMLADPNRDIGELWMEMATYGHVDGQNHHAIGSAARDMM
DRPEEEAGSVLSTAKSYLALYRDPVVARNVSRSDFRIKQLMHEDDPVSLYIVTQPNDKARLRPLVRVMVN
MIVRLLADKMDFEGGRPVAHYKHRLLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLICQDINQLKSRET
GYGHDESITSNCHVQNAYPPNRVETAEHLSRLTGQTTVVKEQITTSGRRTAAMLGQVSRTYQEVQRPLLT
PDECLRMPGPKKNAQGEIEEAGDMVIYVAGYPAIYGKQPLYFKDPVFSARAAIPAPKVSDRLRAVAQAET
EGEGITI

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(121-620)

  Protein structure


Source ID Structure
AlphaFold DB I2ALG9


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 769..11446

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
W7Q_0001 97..459 + 363 AFJ38116 TrbA -
W7Q_0002 769..1731 + 963 AFJ38117 TrbB virB11
W7Q_0003 1748..2212 + 465 AFJ38118 protein TrbC virB2
W7Q_0004 2216..2527 + 312 AFJ38119 TrbD virB3
W7Q_0005 2524..5082 + 2559 AFJ38120 TrbE virb4
W7Q_0006 5079..5861 + 783 AFJ38121 TrbF virB8
W7Q_0007 5858..6778 + 921 AFJ38122 TrbG virB9
W7Q_0008 6781..7269 + 489 AFJ38123 TrbH -
W7Q_0009 7274..8695 + 1422 AFJ38124 protein TrbI virB10
W7Q_0010 8716..9480 + 765 AFJ38125 TrbJ virB5
W7Q_0011 9490..9717 + 228 AFJ38126 TrbK -
W7Q_0012 9728..11446 + 1719 AFJ38127 TrbL virB6
W7Q_0013 11464..12051 + 588 AFJ38128 TrbM -
W7Q_0014 12065..12700 + 636 AFJ38129 TrbN -
W7Q_0015 12729..12995 + 267 AFJ38130 TrbO -
W7Q_0016 12995..13693 + 699 AFJ38131 TrbP -
W7Q_0017 13709..14140 + 432 AFJ38132 putative outer membrane protein -
W7Q_0018 14404..14904 - 501 AFJ38133 acetyltransferase -
W7Q_0019 15032..15871 - 840 AFJ38134 dihydropteroate synthase -
W7Q_0020 15865..16212 - 348 AFJ38135 small exporter protein -

Host bacterium

ID   38 GenBank   CP003505
Plasmid name   BRA100 Incompatibility group   IncP1
Plasmid size   56265 bp Coordinate of oriT [Strand]   31224..31596 [-]
Host baterium   Mycobacterium abscessus subsp. bolletii F1725

Cargo genes

Drug resistance gene   resistance to kanamycin and tobramycin
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -