Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100863
Name   oriT_pKPC_UVA02 in_silico
Organism   Klebsiella oxytoca strain CAV1015
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP017929 (28729..29088 [+], 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_pKPC_UVA02
GATTATCAAGAGTCACATGTGAATCGGCCATTTTTTTTATTAGAGTCAGTCTGGATTCACCAACTTCATACAGGCGAATCTGTTATACCGAAATTAAGGATTCGAATCCAGATTCGAATCCTTTAATTTGTCTTAATTTAGTGGCCTGATTCGCAGATGAATCTGGATTCGACTCCTTTACGATTCACTAAAGATTTGCATGTGAATCTAGTATCTATATCTGACATAGAACAACGATAACAATATTAACATAATATACTGATAATAAAGGATAATCATGCAAGATTAAATCTTGCGACGGGTGTGGGACTTTGATGTTAAGGAGCAGGCATACGGAAATATGTCAGCCAGGAAGAATTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   935 GenBank   WP_047719744
Name   TraI_pKPC_UVA02 insolico UniProt ID   _
Length   1765 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1765 a.a.        Molecular weight: 192897.17 Da        Isoelectric Point: 5.0769

>WP_047719744.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSISSIKGDAGYYSHEDNYYASGSLDSRWMGEGAEKLGLKGEVASADMDAVRQGRLPDGSDLSRMVDGV
NKHRSGYDLTFSAPKSVSVMALVGEDRRFIEAHNRAVAVVMKEVEHLVSARITQEGKTETVLTGSMVAAL
YNHDTSRDLDPQVHTHALVFNATFADEKWRSLASDTRMKTGFSENLYATKIALGNLYRSALREDIESMGF
ETVAAGKHGLWELKDVPVDIFSSRSQAIREAAGPDASAKSRDVAALDTRQAKAWADPDLLKADWRRRLTD
EKFDIGHYISQAQARVEITGSVVAGQGGMRAPGQPGIGSSGEAADELVQKAVSDTISALSDKKVQFTWSE
MLAGTVSRLPSAPGLFEQARAGIEAAIEGQRLIPLDREKGIFTSDIHLLNELSVHQLARTAVAEQTVLVF
PERAQERDIPAGDAVSVLSQDKSPVAILSGRGGAQTLRDRTEDVAMMARSQGREVMVIAADGRSGQFLSE
SPHLAGHVMLRSQMNADTVLPVQGTVIVDRAERLSLKETVLLQEKALSAGAQLIFMDTENRQGTGNALSV
LKEADIPQYRFYGTQLPEVRLISEADKRSRYGQLAQEYVRLSAEGRDVVAQVTGTREQQQLTEVIRDTRR
EAGELGREQVTLRVLEPVWLDSKTRHQRDNYRPGMVMEQWDAEKKTMTRHTIDRVAEATNSLVLQGEDGT
RLTLKVTQLDGSWSLYRSRTLEVSEGDRVRALGRELKGAIKAKEQFTLAGLENGAVRLRSGDRELRLPTE
RAVKLTHDYVEGTGAGTSASRTVLAAVGPRGLNKQALNALAQSGSDIRIYTPLAPEQAARKVESVSAVRL
ASDQVRQSTGEANLDTAIQASRDRLMSDAEQAVSLAIPRAQQGQVHLSEITLLSEAVKSGQPLADVRTEI
ARQVNSGELIQLDSVSGAGNRVLVPRVAYEMEKTIIRHIAEGKDAVQPLMALTPASVLAGLTAGQREATR
TVLENTDRFMAIQGYAGVGKTTQFRAVMGALNTLSESVRPQVIGLGPTHRAVHEMREAGVDARTLASFLS
ETRLAIQAGETPDFRNVLFLTDESSMVGNRDMAELYQLVTAGGGRMVSSGDTAQLQAISTGQPFRLVQQR
SAIDTVVMQEIVRQTPALRPAIESIIAGQVDTSLRLVDDVSPQQVPRQEGAWVPGNSVMEIRAPKKDQEQ
DTPAADEQTLTPEQLSLVRTDIIEAIRDDWMGRTPEAQLQTLVVAELNADRHAINDAIHAARHEKGDTGA
EERTFTVLEPLRVPDNALRAAETFAEYTGAVAMMNERYWTVAEVDTQDAVVTLRNADGESVLISPQQNTA
QDISLFTPRDLTISHGDRVRFTRSDNDRGYVANSLWEVAGFTDDGAIRFRQGEQEKIVDPQAMTEDRHID
LAYALTVYGVQGASERFAIALTGTEGGRKRMASLESTYVTLSRAKEHVQVYTDDLAGWSAGARHSNAGQT
AHDLLHQKSDHESDTGNRLLATASRLDKTALGRRVLAENGLEGETMARFIAAGRKYPTPYVALPAWTRHG
QEAGALLTEIRIEDDGMRVVLSDESRLRGGEDAQFAGLQASRNGQTLIADDAQTALRLAQENPESGVVIR
LHGEERLLNAARLTGGRITEPDEVARTVRSVAEVESAAKAEDPITLPPDEQQKLAEAQEKAARELAEQAR
QELLPAVPGEESTRPEPLLSADEERRLRDGTARGERELDEAIQEAVAEGRGIRQQVREQMLRTEREWVVN
VPEKDIELEKTLGGD

  Protein domains


Predicted by InterproScan.

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

(644-723)

TrwC relaxase (TrwC)

(12-279)

DNA helicase TraI (TraI_C)

(1439-1556)

AAA domain (AAA_30)

(971-1158)

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

(586-638)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 5545..29619

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AGF18_RS28820 (AGF18_28820) 5545..7791 - 2247 WP_000056180 type IV conjugative transfer system coupling protein TraD virb4
AGF18_RS28825 (AGF18_28825) 7942..8679 - 738 WP_000682257 conjugal transfer complement resistance protein TraT -
AGF18_RS28830 (AGF18_28830) 8855..9415 - 561 WP_000830402 hypothetical protein -
AGF18_RS28835 (AGF18_28835) 9427..12324 - 2898 WP_000257544 conjugal transfer mating-pair stabilization protein TraG traG
AGF18_RS28840 (AGF18_28840) 12326..13687 - 1362 WP_001237460 conjugal transfer pilus assembly protein TraH traH
AGF18_RS28845 (AGF18_28845) 13687..14298 - 612 WP_000958503 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
AGF18_RS28850 (AGF18_28850) 14324..15100 - 777 WP_001203361 type-F conjugative transfer system pilin assembly protein TraF traF
AGF18_RS28855 (AGF18_28855) 15097..16950 - 1854 WP_000683618 type-F conjugative transfer system mating-pair stabilization protein TraN traN
AGF18_RS28860 (AGF18_28860) 16947..17561 - 615 WP_000832511 type-F conjugative transfer system pilin assembly protein TrbC trbC
AGF18_RS28865 (AGF18_28865) 17558..17917 - 360 WP_000961331 hypothetical protein -
AGF18_RS28870 (AGF18_28870) 17928..18923 - 996 WP_000833231 conjugal transfer pilus assembly protein TraU traU
AGF18_RS28875 (AGF18_28875) 18920..19555 - 636 WP_000715590 type-F conjugative transfer system protein TraW traW
AGF18_RS28880 (AGF18_28880) 19555..20019 - 465 WP_003830754 type-F conjugative transfer system protein TrbI -
AGF18_RS28885 (AGF18_28885) 20016..22607 - 2592 WP_000714154 type IV secretion system protein TraC virb4
AGF18_RS32345 22618..23232 - 615 WP_000724456 type IV conjugative transfer system lipoprotein TraV traV
AGF18_RS28890 (AGF18_28890) 23343..23567 - 225 WP_000786061 TraR/DksA C4-type zinc finger protein -
AGF18_RS28895 (AGF18_28895) 23678..25039 - 1362 WP_000024509 F-type conjugal transfer pilus assembly protein TraB traB
AGF18_RS28900 (AGF18_28900) 25026..25766 - 741 WP_000794569 type-F conjugative transfer system secretin TraK traK
AGF18_RS28905 (AGF18_28905) 25756..26319 - 564 WP_000406022 type IV conjugative transfer system protein TraE traE
AGF18_RS28910 (AGF18_28910) 26339..26644 - 306 WP_000398849 type IV conjugative transfer system protein TraL traL
AGF18_RS28915 (AGF18_28915) 26646..27005 - 360 WP_001054221 type IV conjugative transfer system pilin TraA -
AGF18_RS28920 (AGF18_28920) 27122..27355 - 234 WP_000662610 TraY domain-containing protein -
AGF18_RS28925 (AGF18_28925) 27562..28011 - 450 WP_001144045 helix-turn-helix domain-containing protein -
AGF18_RS28930 (AGF18_28930) 28312..28695 - 384 WP_001124390 conjugal transfer relaxosome DNA-binding protein TraM -
AGF18_RS28935 (AGF18_28935) 29164..29619 + 456 WP_001232722 transglycosylase SLT domain-containing protein virB1
AGF18_RS28940 (AGF18_28940) 29630..30216 - 587 Protein_27 antirestriction protein -
AGF18_RS28945 (AGF18_28945) 30807..31640 - 834 WP_000080851 N-6 DNA methylase -
AGF18_RS28950 (AGF18_28950) 31687..31833 - 147 WP_001159045 hypothetical protein -
AGF18_RS28955 (AGF18_28955) 31928..32275 - 348 WP_000550116 hypothetical protein -
AGF18_RS28960 (AGF18_28960) 32332..32736 - 405 WP_001096026 hypothetical protein -
AGF18_RS28965 (AGF18_28965) 33462..33836 - 375 WP_001271110 hypothetical protein -
AGF18_RS28970 (AGF18_28970) 34191..34544 - 354 WP_000872088 hypothetical protein -

Host bacterium

ID   1323 GenBank   NZ_CP017929
Plasmid name   pKPC_UVA02 Incompatibility group   IncFII
Plasmid size   113105 bp Coordinate of oriT [Strand]   28729..29088 [+]
Host baterium   Klebsiella oxytoca strain CAV1015

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   copper resistance; arsenical resistance; mercury resistance
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -