Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200122
Name   oriT_ICEValE0601 in_silico
Organism   Vibrio alginolyticus strain E0601 sequence
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   KT072768 (5548..5846 [+], 299 nt)
oriT length   299 nt
IRs (inverted repeats)      234..242, 254..262  (AAAGCCAAA..TTTGGCTTT)
 45..50, 52..57  (CAAACG..CGTTTG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 299 nt

>oriT_ICEValE0601
GCTCTGTTTGGCGGCGAATGACTGAGTCAAAAAAATCGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTCGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGCGCTTTTAAGTGAAATCGGCCTGTATCCCTTGTCATGTATGGGATTGCGCGAGTTGATTTATATCGAGACGCCAAACAGTGATTGTTACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTCGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14275 GenBank   ALF34804
Name   traI_ICEValE0601_046_ICEValE0601 insolico UniProt ID   _
Length   726 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 726 a.a.        Molecular weight: 80776.67 Da        Isoelectric Point: 5.0517

>ALF34804.1 Conjugative transfer protein, TraI [Vibrio alginolyticus]
MPFTKDDTTFAGVFMLSRFLKSQHQPESTESEIPRYPPFLKGLPAASPEDLQSTQDELISKLRQVLGFNQ
RDFQRLIQPCIDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKEQEPR
WRVAAALGGLFHDIGKPVSDLSITDEDGRYLWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILV
LNRVMTPELLAWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVE
RYLLDAMRRLLASSQWLVNQRDARVWIRKSNQSTNLYLVWKSAAKEIIELLAKDKIPGIPRDPDTLADIL
IERGLATKSASNERYESFAPEVLIKDGKPIWLPMLHISEADLLFSSNVPSGVTLFNKSEWEATQQTQAEQ
QSRSSEHSDLPEASSSIEHGNSSESPSTNSSDQDDELRLASDVNNPQANENAPGDGCEKPNNSYDGAISN
NVNQHDAEALNLPESLAWLPEASSALVVVGEQILFRYPDAVRPWCAPRKLLAELSRLDWLELDPANPTRK
ARTITTKDGVQEQGLLLKVSISKGLTSLIDLPKQDAESAAAIQNEEALLRPSRTKTTNAQAKEPATRAER
KQKPIVANANSSTDPKHAQRQQMVSFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQL
LRGISASDECQFDEGETVLFTAHAER

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(49-359)


  Protein structure



No available structure.




T4CP

ID   16536 GenBank   ALF34805
Name   traD_ICEValE0601_047_ICEValE0601 insolico UniProt ID   _
Length   606 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 606 a.a.        Molecular weight: 67084.85 Da        Isoelectric Point: 6.5130

>ALF34805.1 Conjugative transfer protein, TraD [Vibrio alginolyticus]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAELLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQKG
LKGKPLAFMELSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLSNLEYIAKLSGGRVIKGRIPILTSSTQAA

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(451-561)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(152-285)

  Protein structure



No available structure.



ID   16537 GenBank   ALF34817
Name   traC_ICEValE0601_061_ICEValE0601 insolico UniProt ID   _
Length   799 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 799 a.a.        Molecular weight: 90131.69 Da        Isoelectric Point: 5.9714

>ALF34817.1 Conjugative transfer pilus assembly protein, TraC [Vibrio alginolyticus]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPTDTLLQF
GLYSSPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLENP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSLIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLSDFQMANLKRQTRELWEKKGRAMLVDDVAAA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(253-420)

TraG P-loop domain (P-loop_TraG)

(436-521)

TraG P-loop domain (P-loop_TraG)

(568-794)

TraC protein (TraC_F_IV)

(11-241)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 40445..60725

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ICEValE0601_044 36115..37824 + 1710 ALF34802 Type III restriction endonuclease -
ICEValE0601_045 37860..38162 - 303 ALF34803 Hypothetical protein -
ICEValE0601_046 38216..40396 + 2181 ALF34804 Conjugative transfer protein, TraI -
ICEValE0601_047 40445..42265 + 1821 ALF34805 Conjugative transfer protein, TraD virb4
ICEValE0601_048 42275..42835 + 561 ALF34806 Conjugative transfer protein, S091 -
ICEValE0601_049 42822..43457 + 636 ALF34807 Conjugative transfer protein, TraJ tfc7
ICEValE0601_050 43484..44071 - 588 ALF34808 Hypothetical protein -
ICEValE0601_051 44360..44641 + 282 ALF34809 Conjugative transfer pilus assembly protein, TraL traL
ICEValE0601_052 44650..45264 + 615 ALF34810 Conjugative transfer pilus assembly protein, TraE traE
ICEValE0601_053 45248..46144 + 897 ALF34811 Conjugative transfer pilus assembly protein, TraK traK
ICEValE0601_054 46147..47436 + 1290 ALF34812 Conjugative transfer pilus assembly protein, TraB traB
ICEValE0601_055 47511..48083 + 573 ALF34813 Conjugative transfer protein, TraV traV
ICEValE0601_056 48080..48466 + 387 ALF34814 Conjugative transfer protein, TraA -
ICEValE0601_057 48507..49013 - 507 ALF34867 Acetyltransferase -
ICEValE0601_058 49004..49270 - 267 ALF34879 Hypothetical protein -
ICEValE0601_059 49581..50684 - 1104 ALF34815 Transposase -
ICEValE0601_060 50955..51647 + 693 ALF34816 Thiol:disulfide involved in conjugative transfer,DsbC trbB
ICEValE0601_061 51648..54047 + 2400 ALF34817 Conjugative transfer pilus assembly protein, TraC virb4
ICEValE0601_062 54040..54387 + 348 ALF34818 Conjugative transfer protein 345 -
ICEValE0601_063 54440..54883 + 444 ALF34819 Conjugative signal peptidase, TrhF -
ICEValE0601_064 54894..56018 + 1125 ALF34820 Conjugative transfer pilus assembly protein, TraW traW
ICEValE0601_065 56050..57030 + 981 ALF34821 Conjugative transfer pilus assembly protein, TraU traU
ICEValE0601_066 57033..60725 + 3693 ALF34822 Conjugative transfer protein, TraN traN
ICEValE0601_067 60956..61288 + 333 ALF34823 Hypothetical protein -
ICEValE0601_068 61319..62008 + 690 ALF34824 Hypothetical protein -
ICEValE0601_069 62324..62752 + 429 ALF34825 Transposase -
ICEValE0601_070 62798..63697 - 900 ALF34868 Transposase -
ICEValE0601_071 63929..64231 - 303 ALF34877 Hypothetical protein -

Host bacterium

ID   124 Element type   ICE (Integrative and conjugative element)
Element name   ICEValE0601 GenBank   KT072768
Element size   106165 bp Coordinate of oriT [Strand]   5548..5846 [+]
Host bacterium   Vibrio alginolyticus strain E0601 sequence Coordinate of element   1..106165

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -