Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100536
Name   oriT_pCFSAN000189 in_silico
Organism   Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000189
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_021817 (35811..36170 [+], 360 nt)
oriT length   360 nt
IRs (inverted repeats)      280..287, 289..296  (GCAAGATT..AATCTTGC)
Location of nic site      305..306
Conserved sequence flanking the
  nic site    		  GACGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 360 nt

>oriT_pCFSAN000189
GATTATCAAGAGTCACATGTGAATCGGCCATTTATTTTATTAGAGTCAACCTGGATTCACCAACTTCATACAGGCGAATCTGTTATACCGAAATTAAGGATTCGAATCCAGATTCGAATCCTTTAATTTGTCTTAATTTAGTGGTCTGATTCGTAGATGAATCTGGATTCAACTCCTTTACGATTCACTAAAGATTTGCATGTGAATCCAGTATCTATATCGGACATAGAATAACGATAAAAATATTTACATAACACACTGAAATAAAAGGATAATCATGCAAGATTAAATCTTGCGACGGGTGTGGGATTTTGATGTTAAGGAGCAGGCATACAGAAATATGTCAGCCAGGAAGAATTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   607 GenBank   WP_020833546
Name   TraI_pCFSAN000189 insolico UniProt ID   _
Length   1767 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1767 a.a.        Molecular weight: 193150.73 Da        Isoelectric Point: 5.0567

>WP_020833546.1 conjugative transfer relaxase/helicase TraI [Salmonella enterica]
MLSISSIKGDAGYYSHEDNYYASGSLDSRWMGEGAEKLGLKGEVASADMDAVRQGRLPDGSDLSRMVDGV
NKHRSGYDLTFSAPKSVSVMALVGEDRRFIEAHNRAVAVVMKEVEQLVSARITQEGKTETVLTGSMVAAL
YNHDTSRDLDPQVHTHALVFNVTFADEKWRSLASDIRMKTGFSENLYATKIALGNLYRSALREDIESMGF
ETVAAGKHGLWELKDVPVDIFSSRSQAIREAAGPDASAKSRDVAALDTRQAKAWADPDLLKADWRRRLTD
EKFDIGHYISQAQARVEITAPVVAGQGGMRAPGQPGIASSGEAADELVQKAVSDTISALSDKKVQFTWSE
MLAGTVSRLPSAPGLFEQARAGIEAAIEGQRLIPLDREKGIFTSDIHLLNELSVHQLARTAVAEQTVLVF
PERAQERDIPAGDAVSVLSQDKSPVAIFSGRGGAQTLRERTEDVAMMARSQGREVMVIAADGRSGQFLSE
SPHLAGHVMLRSQMNADTVLPVQGTVIVDRAERLSLKETVLLQEKALSAGAQLIFMDTENRQGTGNALSV
LKEADIPQYRFYGTQLPEVRLVSEADKRSRYGQLAQEYVRLSAEGRDVVAQVTGTREQQQLTEVIRDTRR
EAGELGREQVTLRVLEPVWLDSKTRHQRDNYRPGMVMEQWDAEKKTMTRHTIDRVAEATNSLVLQGEDGT
RLTMKVTQLDGSWSLYRSRTLEVSEGDRVRTLGRELKGAIKAKEQFTVAGLENGAVRLRSGDRELCLPTE
RAVKLAHDYVEGTGAGTSASRTVLAAVGPRGLNKQALNALAQSGSDIRIYTPLEGRQAARKVESVSVVRL
ASDQVRQSTGEANLDTAIQASRERLMSDAEQAVNLAIPRAQQGQVYLSELTLLAEAVKSGQPLADVRAEI
ARQVDSGALIKLDSVAGAGNRVLVPRVAYEMEKTIIRHIAEGKDAVQPLMALTPASVLSGLTAGQRDATR
TVLENTDRFMAIQGYAGVGKTTQFRAVMGALNTLSESVRPQVIGLGPTHRAVHEMREAGVEARTLASFLS
ETRLAIQAGETPDFRNVLFLTDESSMVGNRDMAELYQLVAAGGGRMVSSGDTAQLQAISTGLPFRLVQQR
SAIDTVVMQEIVRQTPALRPAIESIIAGQVEISLRQVDDVTPQQVPRQPGAWVPDNSVMEIRAPKKEQDQ
VQDTPVAGEQTLTPEQLALVRTDIIEAIRDDWMGRTPEAQQQTLVVAELNADRHAINDAIHTARHEKGDT
GAEERTFTVLEPLRVPDNALRAAETFAEYTGAVAMMNERYWTVAEVDTQDAVVTLRNADGESVLISPQQN
TAQDISLFTPRDLTISQGDRVRFTRSDTDRGYVANSLWEVAGFTDDGAIRFRQGDQEKIVDPQAMTEDRH
IDLAYALTVYGVQGASERFAIALTGTEGGRKRMASLESTYVTLSRAKEHVQVYTDDLAGWSADARHSNAG
QTAHDLLHQKSDHESDTGNRLLATASRLDKTALGRRVLAENGLEGETMARFIAAGKKYPSPYVALPAWTR
HGKAAGALLTEIRIEDDGMRVVLSDESRLRGGEDAQFAGLQASRNGQTLIADDAQTALRLAQENPESGVV
IRLHGEERLLNAARLTGGRITEPDEVARSVRSVAEAESAAKAEDPITLPPDEQQKLAEAQEKAARELAEQ
ARQELLPALPGTEGDKPDPLLSASDERRLRDGTERETRELDEAVREAVAEGREPRQQVCDQMQRTEREWV
VNVPEKEIELEKTLGGD

  Protein domains


Predicted by InterproScan.

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(586-638)

TrwC relaxase (TrwC)

(12-279)

AAA domain (AAA_30)

(971-1155)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(644-723)

DNA helicase TraI (TraI_C)

(1441-1558)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 12276..36701

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SEEB0189_RS23045 (SEEB0189_000050) 12276..14510 - 2235 WP_020833547 type IV conjugative transfer system coupling protein TraD virb4
SEEB0189_RS23050 (SEEB0189_000055) 14661..15398 - 738 WP_020833548 conjugal transfer complement resistance protein TraT -
SEEB0189_RS23055 (SEEB0189_000060) 15574..16134 - 561 WP_020833549 hypothetical protein -
SEEB0189_RS23060 (SEEB0189_000065) 16146..19043 - 2898 WP_020833550 conjugal transfer mating-pair stabilization protein TraG traG
SEEB0189_RS23065 (SEEB0189_000070) 19045..20406 - 1362 WP_020833551 conjugal transfer pilus assembly protein TraH traH
SEEB0189_RS23070 (SEEB0189_000075) 20406..21017 - 612 WP_020833552 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
SEEB0189_RS23075 (SEEB0189_000080) 21039..21818 - 780 WP_004558353 type-F conjugative transfer system pilin assembly protein TraF traF
SEEB0189_RS23080 (SEEB0189_000085) 21815..23668 - 1854 WP_020833553 type-F conjugative transfer system mating-pair stabilization protein TraN traN
SEEB0189_RS23085 (SEEB0189_000090) 23665..24279 - 615 WP_020833554 type-F conjugative transfer system pilin assembly protein TrbC trbC
SEEB0189_RS23090 (SEEB0189_000095) 24276..24644 - 369 WP_020833555 hypothetical protein -
SEEB0189_RS23095 (SEEB0189_000100) 24655..25650 - 996 WP_004558357 conjugal transfer pilus assembly protein TraU traU
SEEB0189_RS23100 (SEEB0189_000105) 25647..26282 - 636 WP_000715590 type-F conjugative transfer system protein TraW traW
SEEB0189_RS23105 (SEEB0189_000110) 26282..26746 - 465 WP_024143549 type-F conjugative transfer system protein TrbI -
SEEB0189_RS23110 (SEEB0189_000115) 26743..29334 - 2592 WP_001808381 type IV secretion system protein TraC virb4
SEEB0189_RS23115 (SEEB0189_000120) 29345..29959 - 615 WP_020833557 type IV conjugative transfer system lipoprotein TraV traV
SEEB0189_RS23120 (SEEB0189_000125) 29977..30429 - 453 WP_020833558 hypothetical protein -
SEEB0189_RS23125 (SEEB0189_000130) 30433..30657 - 225 WP_008455352 TraR/DksA C4-type zinc finger protein -
SEEB0189_RS23130 (SEEB0189_000135) 30768..32129 - 1362 WP_000024509 F-type conjugal transfer pilus assembly protein TraB traB
SEEB0189_RS23135 (SEEB0189_000140) 32116..32856 - 741 WP_020833560 type-F conjugative transfer system secretin TraK traK
SEEB0189_RS23140 (SEEB0189_000145) 32846..33409 - 564 WP_001535119 type IV conjugative transfer system protein TraE traE
SEEB0189_RS23145 (SEEB0189_000150) 33429..33734 - 306 WP_000398849 type IV conjugative transfer system protein TraL traL
SEEB0189_RS23150 (SEEB0189_000155) 33736..34095 - 360 WP_001054221 type IV conjugative transfer system pilin TraA -
SEEB0189_RS23155 (SEEB0189_000160) 34212..34445 - 234 WP_000662610 TraY domain-containing protein -
SEEB0189_RS23160 (SEEB0189_000165) 34651..35100 - 450 WP_020833561 helix-turn-helix domain-containing protein -
SEEB0189_RS23165 (SEEB0189_000170) 35397..35777 - 381 WP_020833562 conjugal transfer relaxosome DNA-binding protein TraM -
SEEB0189_RS23170 (SEEB0189_000175) 36246..36701 + 456 WP_020833563 transglycosylase SLT domain-containing protein virB1
SEEB0189_RS23175 (SEEB0189_000180) 36712..37242 - 531 WP_000556935 antirestriction protein -
SEEB0189_RS23180 (SEEB0189_000185) 37889..38713 - 825 WP_020833564 N-6 DNA methylase -
SEEB0189_RS23185 (SEEB0189_000190) 38760..38906 - 147 WP_001159046 hypothetical protein -
SEEB0189_RS23190 (SEEB0189_000195) 39001..39348 - 348 WP_000550116 hypothetical protein -
SEEB0189_RS23195 (SEEB0189_000200) 39405..39809 - 405 WP_020833565 hypothetical protein -
SEEB0189_RS23200 (SEEB0189_000205) 40535..40909 - 375 WP_020833566 hypothetical protein -
SEEB0189_RS23205 (SEEB0189_000210) 41264..41617 - 354 WP_020833567 hypothetical protein -

Host bacterium

ID   997 GenBank   NC_021817
Plasmid name   pCFSAN000189 Incompatibility group   IncFII
Plasmid size   78193 bp Coordinate of oriT [Strand]   35811..36170 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000189

Cargo genes

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